Intestinal Barrier and Permeability in Health, Obesity and NAFLD

1The gut contains the largest surface of the human body exposed to the external environment, extending for roughly 200–300 m2. The “intestinal barrier” is a complex morphological-functional mechanism which involves the gut microbial barrier and mucus, gastrointestinal motility and secretion, epithelial barrier, and the immune (innate and adaptive), gut vascular and liver barrier. A healthy gut is characterized by the selective permeability of nutrients, water, and bacterial products, and processes are governed by several neural, cellular, immune, and hormonal factors. A close interaction exists between nutrients, such as dietary fiber, protein, and fat, gut microbiota producing several metabolites, such as short-chain fatty acids, lipopolysaccharides, etc., and the intestinal barrier under health or disease conditions. Obesity and nonalcoholic fatty liver disease (NAFLD) are highly prevalent, inter-related conditions at increased risk of causing advanced liver diseases and mortality. Mechanisms governing gut permeability are disrupted in both obesity and NAFLD, and this situation represents an aggravating factor in both diseases. In what follows, we discuss recent evidence pointing to the role of the intestinal barrier and permeability in health and in two pathophysiologically relevant metabolic disorders, obesity and liver steatosis.

2The mucosal surface of the gastrointestinal tract is a major ecological niche for many microbes and an important point of entry for bacteria and bacterial products. Apart from its important role as the immune barrier, the gut is involved in the absorption of nutrients, while it also prevents invasion by several organisms. The intestinal barrier is part of the gut–liver axis, a complex mechanism characterized by the bidirectional crosstalk occurring among the microbiome, the gut, and portal vein, and the liver, biliary tract, systemic circulation, and many systemic mediators.

3On one side, gut-derived products are transported across the intestine to the portal vein and to the liver. On the other side, liver secretes bile, especially bile acids (BA), and antibodies originate from the liver and flow across the intestine. This is a very dynamic and resilient functional system, and the mechanisms maintaining the function of the intestinal barrier do have major effects on metabolic balance in both health and disease conditions. For example, the gut microbiota undergoes continuous adaptations to lifestyle and foods and is responsible for the biotransformation of primary (hepatic) BA into secondary and tertiary (intestinal) BA, which contributes to the enrichment of the total BA pool in the body. The first physiological function of BA contributes to fat digestion and absorption and the stimulation of gut nuclear- and membrane-associated receptors. In addition, BA controls the gut microbiome. Thus, the intestinal barrier function with the maintenance of gut homeostasis relies on the anatomical and functional integrity of the microbiome, mucus, enterocytes, immune system, and gut vascular barrier (Figure 1).

4The first level of the intestinal barrier can be identified in the gut microbiota (i.e., the microbial barrier). This first-line barrier is composed of hundreds of trillions of commensal microorganisms involved in a complex polymicrobial ecology network placed at the edge between external and internal environment. This includes bacteria, viruses, fungi, bacteriophages, and protists. The universe of the gut microbiota is mainly composed of four phyla: Firmicutes, Bacteroidetes, Actinobacteria, and Proteobacteria. In the human gut, the two major phyla include Firmicutes, which are mainly enriched in Gram-positive bacteria with facultative, anaerobic, bacilli, and cocci, and Bacteroidetes encompassing Gram-negative bacteria and, in the human gut, Bacteroides, Alistipes, Parabacteroides, and Prevotella genus primarily). Microbiota density is around 103–104 per gram in the stomach, 105–106 in the jejunum, 108–109 in the terminal ileum, and about 1012–1014 bacteria per gram of gut contents in the colon, and it comprises over 1000 bacterial species. According to recent estimates, there are three bacterial cells for every single human body cell. Each bacterium has tens of thousands of ribosomes, each of which includes a copy of the bacterial RNA. There are more than ten times the genes of the human genome and the weight of the whole bacterial mass is roughly 1–2 kg. Because different factors (including environment, diet, drugs, and host genetics) may impact on this “superorganism”, distinct signatures can result in terms of profound modifications in health and disease.

5The gut microbiota contributes to the digestion of nutrients and their relative metabolism, such as carbohydrates and proteins, vitamins, and the biotransformation of gut primary BA to secondary BA that play a key role in gut fat digestion and also act as potent signaling hormone-like agonists in both health and disease, including obesity and NAFLD. The host develops a natural immunity and tolerance towards the microbiota. This interaction influences the development and maturation of several cells within the lymphoid tissues of the intestinal immune system.

6The polymicrobial community populates the outer mucus layer in the gut lumen since the adherence of microorganisms to enterocytes points to infection. Thus, the healthy bowel segments are normally free of bacteria, and there are mechanisms controlling the growth, composition, and organization of the microbiota in each gut segment. Secretion of gastric acid and BA, as well as luminal pH and oxygen availability, and gut motility can either suppress bacterial growth or can create a physical barrier, playing a role similar to that of mucin.

7The gut bacteria produce a considerable number of volatile metabolites, and these include H2, methane, short-chain fatty acids (SCFAs), and alkanes, which are partly exhaled in breath. About 900 volatile compounds appear in human breath.

8Physiologically active molecules from bacteria include SCFA, p-cresol, p-cresyl-glucuronide, indoxyl sulphate, indole-3 acetic acid, H2S, and trimethylamine N-oxide (TMAO) producing local effects (intestinal barrier) or acting in distant organs which include the brain, heart, kidneys, and liver. Metabolites produced by gut microbiota can also influence lipid metabolism, thermogenesis, and the function of both white and brown adipose tissues.

9Some vitamins undergo gut biotransformation by bacteria. Vitamin B3 (niacin) is composed of nicotinic acid and nicotinamide, and nicotinamide is converted to nicotinic acid by the microbiota. Vitamin B5 (pantothenic acid) is found in foods but is also produced by colonic bacteria. Enteric bacteria synthesize vitamin B12 (cobalamin) and vitamin B9 (folic acid). In case of bacterial overgrowth in the small intestine, vitamin B12 malabsorption can develop, since the microbiota compete with the host for the absorption of this vitamin. The vitamin K group consists of vitamin K1 (phylloquinone), derived from food, and vitamin K2 (menaquinone). Most of the gut microbiota species such as Enterobacter sp., Eubacterium lentum, Veillonella sp., and Bacteroides sp. can metabolize K1 to K2.

10The microbiota can modulate nutritionally derived metabolites such as tryptophan from milk, eggs, vegetables, and red milk, with Lactobacillus-mediated production of indole-3-aldehyde binding the aryl hydrocarbon receptor (AHR) that mediates its transport through the epithelial cell layer by a transporter containing angiotensin I-converting enzyme 2. This step prevents gut inflammation and bacterial overgrowth.

11Another important function of the gut microbiota includes the bacterial capacity to transform primary BA to secondary BA in the colon during the process of enterohepatic circulation.

12The distinction between pathogenic and non-pathogenic bacteria in the colon is no longer specific, since many indigenous bacteria can act as pathogens (E. coli, Bacteroides sp., Enterococci sp., Clostridium histolyticum) if the mechanisms of protection fail and the invasion of the mucosa occurs. Notably, dysbiosis is associated with an increased population of pathogenic bacteria which likely dismiss higher levels of lipopolysaccharides (LPS) damaging the enterocytes, disrupting mechanisms of gut permeability, and predisposing the passage of LPS into the bloodstream with effects on other organs including the liver. LPS can be taken up into chylomicrons derived from dietary saturated fats. The LPS-enriched chylomicrons promote inflammatory changes in the host for inducing insulin resistance.

13This is the second component of the intestinal barrier. The mucus confers protection to the host and consists of heavily glycosylated proteins released by the gut goblet cells, which also belong to the epithelial barrier. The mucus accumulates at the interface between the intestinal lumen and the brush border of enterocytes, and its thickness increases from the stomach towards the colon, in parallel with the increase in the density of resident bacteria. The mucus layer undergoes continuous re-arrangement, creating an onion-like stratification on the border between stool and the mucus layer. Secretory IgA, lysozyme, and defensins produced by Paneth cells interact with the inner mucus stratification and form complexes which help to keep bacteria away from the brush border of enterocytes. In addition, Paneth cells dismiss antibacterial lectins such as the regenerating islet-derived protein III (REG3G) that inhibits bacterial adhesion to the mucosa. Additional antimicrobial peptides and proteins excluding bacteria include lypd8 and zymogen granule protein 16 (ZG16). In the small intestine the mucus layer is relatively thinner and less dense. The most sophisticated structure of mucus occurs in the colon as a “bioreactor” consisting of three layers: (i) A transparent outer mucus layer above the mucosa, constantly dehydrated by the epithelium. This layer is highly viscous, enriched in Muc2, is not penetrated by bacteria, and contributes to the absorption of water and nutrients. (ii) The second layer is a transitional one between the mucus inner layer and the central layer. Here, the mucus is increasingly diluted by luminal fluid and can be penetrated by bacteria that can re-populate the central zone after events such as diarrhea, antibiotic therapy, and fasting. (iii) The third layer is the central zone of the bioreactor which consists of both fibers and bacteria which are stirred to contribute to fermentation. The structure of mucus glycoproteins consists of a central protein core, which is abundant in proline, serine, and threonine, O-glycosylated amines, and hexosamines perpendicularly oriented to the protein core. The result is a gel-like sieve overlying the intestinal epithelium.

14Microorganisms use mucin as nutrients to colonize the gut lumen, and this interaction prevents the permeation of harmful and toxic bacterial products across the intestine. The interaction between microbiota, mucin, epithelial barrier, and host is a complex one since the process involves the production and metabolism of several substances.

15The microbiota contributes to the shape of mucin in many ways. The degree of mucin glycosylation is partly controlled by the ratio of Bacteroides and Firmicutes. The absence of dietary fiber is associated with an increase in mucin-degrading bacteria and a decrease in mucus thickness. The high-fat diet disrupts the intrinsic structure of colonic mucin, as evident in mice developing liver steatosis. Bacteria can stimulate goblet cells (the mucin-producing cells), by activating the inflammasome NLRP6 pathway. Another pathway includes the activation of cell-mediated immunity via toll-like receptor (TLR)-mediated signaling. Some bacteria use mucus for nutrition and contribute to modulating inflammatory changes. Akkermansia muciniphila is an anaerobic, Gram-negative, mucus-degrading microorganism, and its abundance is highly close to the mucus layer in the intestine. If the abundance of A. muciniphila is decreased, some changes are associated with inflammation, impaired barrier integrity, and liver steatosis (NAFLD).

16Several abnormalities can disrupt the function of mucus, contributing to the attachment of bacteria to the enterocytes, the inflammatory changes, and the absorption of toxic substances. This is the case in ulcerative colitis, where microorganisms approach the epithelium and can contribute to the local inflammation, or in cystic fibrosis with the absorption of toxic substances. Increased MUC2 mucin production results in the susceptibility of goblet cells to apoptosis and endoplasmic reticulum stress. Alcohol intake and cirrhosis are associated with increased mucus thickness. In mice, abnormal MUC2 in the epithelial cells results in inflammatory changes, a picture resembling ulcerative colitis.

17The interaction between gastrointestinal motility and secretions contributes to the maintenance of a healthy intestinal barrier. The oro-aboral intestinal peristalsis leads to the clearance of luminal debris, such as dead cells and alimentary residuals, and prevents the proliferation of microbiota. The gastric acidic juice, alkaline bile, and pancreatic juice contribute to gut health and have antimicrobial properties. Nevertheless, both Helicobacter pylori and members of the Lactobacillus genus can survive in the acidic environment of the stomach and small intestine. A change of these conditions might lead to both qualitative and quantitative modifications of the gut microbial composition, abnormal gut homeostasis, and disease. In liver cirrhosis, the decreased secretion of bile is associated with reduced normal Gram-positive microbiota, such as Blautia and Ruminococcaceae, and by an increased proinflammatory taxa, Enterobacteriaceae. There is a close and bidirectional contact between bile, in particular BA, and the gut microbiota. The ultimate composition of bile in humans depends on BA synthesis and biliary secretion in the liver, bile concentration in the gallbladder, bile release into the duodenum following the neuro-hormonal stimulation of the gallbladder, and the gut transit of bile, as well as the microbial biotransformation, gut re-absorption, and faecal excretion of BA. These steps are integral parts of the enterohepatic circulation of BA in the gut–liver axis.

18This level includes the monocellular epithelial layer of enterocytes which produce antimicrobial peptides -AMPs- α-defensins, goblet cells which produce mucus, tuft cells with chemosensory functions and secreting IL-25 involved in innate immunity and IL-13 with control on IgE responses and acts on goblet cells, enteroendocrine cells producing hormones such as CCK, VIP, GLP1, GLP2, PYY etc., and Paneth cells in crypt regions which produce antimicrobial peptides -AMPs- β-defensins and also belong to the immune barrier. The “M” cells occur in the small intestine and are involved in antigen uptake and antigen-specific mucosal immune responses, such as the induction of secretory immunoglobulin A (sIgA). The monocellular layer provides defense as a physical barrier and site where innate immunity operates. The barrier is characterized by physical, electrical, and chemical properties, and is impermeable to most solutes requiring specific transporters to cross the barrier (involving the transcellular pathway). The negative charge of brush border microvilli depends on polar carbohydrates and charged transmembrane proteins, opposes the negative charge of the bacterial cell wall and inhibits bacterial translocation.

19Cells are sealed between each other since the intercellular spaces are closed by the apical junctional complex. There are three main structures of intercellular junction: (i) tight junctions (TJs) require over 40 proteins, which include claudin, occludin, intracellular plaque zonula occludens (ZO) 1 and 2 and cingulin, and junctional adhesion protein molecule-A (JAM-A). ZO is then connected to cellular myosin and actin, and myosin light-chain kinase (MLCK); (ii) zonula adherens, which comprises β-catenin, α-catenin, and E-caderin; and (iii) desmosome, made of desmocolin, desmoglein, and desmoplakin connected to keratin.

20Molecules and water pass through the epithelial barrier by transcellular and paracellular routes. The transcellular route is designed to allow the passage of soluble lipids, small hydrophilic compounds, ions, and water. The paracellular route is controlled by the TJs controlling both active and passive transport. The pore size of the barrier along the gut ranges from 4–5 Å at the villus tip to >20 Å at the base of the crypt in the small bowel. This variability is consistent with the increased gradient of enterocyte paracellular permeability from villus to crypt. In addition, the colonic epithelium is less permeable than the small intestinal epithelium. TJs regulate the passive flow of both water and solutes across the paracellular pathway, and work as a size- and charge-selective filter. At this level, there are two different routes which involve: (i) the claudin-mediated pathway limiting the flow to small molecules of less than 4 Å and (ii) the leak pathway with transport of larger substances (proteins and bacterial components) up to 600 Da in in vivo and 10 kDa in in vitro. Via the TJs the human body prevents the uncontrolled translocation of substances across the intestinal barrier. TJs are also regulated by factors such as cytokines (e.g., IL-13), tumour necrosis factor-alfa (TNFα), interferon gamma (IFNγ) signaling kinases, and cytoskeleton MLCK. The IL-13 receptor activates casein kinase 2 and phosphorylates occludin, which then interact with zonula occluden-1 (ZO-1). TNFα activates the leak pathway via the MLCK and endocytosis of occludin leading to the collapse of the tight junction. Under conditions of damage of the epithelial barrier and gut inflammation, the leak pathway develops with passage of macromolecules (larger than 600 Da), bacterial products, and food antigens. Of note, impaired intestinal barrier function has been shown in animal models of obesity, diabetes mellitus, and inflammatory bowel diseases.

21The immune barrier is composed of immune-competent cells, which include the Paneth cells, dendritic cells, B and T lymphocytes, phagocytes, and peptides with antimicrobial effects such as defensins, cathelicidines, resistin-like molecules, bactericidal-permeability-inducing proteins and lectins, IgA. The molecules, together with MAMPs/PAMPs, accumulate within the intestinal lumen in the inner layer of the host mucin.

22Resident intraepithelial lymphocytes are involved in host defense against pathogens, wound repair, and homeostatic interactions with the microbiota and nutrients, and bidirectionally with the epithelium. Immune cells migrate from mucosal inductive tissues to effector tissues via the lymphatic system. Inductive tissues consist of the gut-associated lymphoid tissues (GALT) which include Peyer’s patches, mesenteric lymph nodes, and isolated lymphoid follicles, as part of the mucosa-associated lymphoid tissue (MALT). This migration is the cellular basis for the immune response in the gastrointestinal tract. Both cells of the adaptive immune system and innate immune system play a key role in the intestine.

23Beside the classical B and T lymphocytes, there are several distinct subsets of IELs. αβ T cell receptor (TCRαβ+) subsets, unconventional TCRαβ+ and TCRγδ+ subsets, group 1 innate lymphoid cells (ILC1s), and ILC1-like cells. All cells produce interferon-γ (IFNγ) and granzyme B in response to IL-12 and IL-18 and in response to the stimulation of their natural killer (NK) cell receptors by stress-induced ligands (the latter response is absent in conventional TCRαβ+ IELs). Additional cells are interleukin (IL)-10-producing regulatory T (Treg) cells, IL-22-producing group 3 innate lymphoid cells (ILC3s), and IL-17-secreting protective T helper (Th) 17 cells and CD8αα+ T cells. The lymphocytes act as the first line of cytolytic defense by producing type I cytokines and releasing antimicrobial peptides in response to cytokines released by specific gut epithelial cells. In this context the M (microfold) cells take up antigens from the gut lumen and present the antigens to the dendritic cells.

24For the innate immune system, CD103+ and CD11b+ dendritic cells transport the antigens to the Peyer’s patch or via draining lymphatics into the MLNs for initiation of mucosal T and B cell response. Mononuclear phagocytes have protrusions which act as direct sensors of the gut lumen and develop oral tolerance after delivering food antigenic peptides to dendritic cells in the lamina propria. CX3CR1+ MHCII+ macrophages are also present, as well as IgA+ antibody-secreting cells (ASC) in the lamina propria with release of secretory IgA (SIgA), which contact the bacteria.

25When the lamina propria is disrupted, immune-competent cells such as CD4+ T lymphocytes, innate-like cells (iNKT), and mucosa-associated invariant T cells in gut lumen are involved in tissue regeneration and efficiently recognize metabolites and antigens of microbial origin.

26Th17 cells, a subset of CD4 T cells, are characterized by the production of IL17-A, IL17-F, and IL-22. These molecules contribute to the efficiency of tight junctions and stimulate epithelial cell regeneration. Production of IgA and the polymeric immunoglobulin receptor (pIgR) allows their translocation towards the gut lumen. The accumulation of Th17 cells is promoted by the presence, in the gut epithelium, of segmented filamentous bacteria.

27CD4+Foxp3+ regulatory T-cells (Tregs) is a subset of helper T cells of thymic and peripheral origin and regulate peripheral tolerance, recognizing self-antigens and controlling the function of autoreactive T cells.. The peripheral-derived Tregs are able to recognize antigens of food origin in the small intestine and antigens of microbial origin in the colon.

28Innate lymphoid cells interact with innate and adaptive immune cells and receive combined signals from the gut epithelium and microbiota. These cells are involved in tissue repair and metabolic homeostasis, and release type 1, 2, and 3 cytokines following an infection, preceding the response of adaptive T cells.

29Pattern-recognition receptors (including the toll-like receptors, TLRs, and the nucleotide binding oligomerization domain-like receptors) are proteins able of recognizing MAMPs, PAMPs, or molecules released by damaged cells (Damage-Associated Molecular Patterns—DAMPs). These proteins allow gut/microbiota interactions and the recruitment of dendritic cells in case of damaged intestinal barrier. Dendritic cells, in turn, transport antigens to the MLNs for antigen presentation and priming and maturation of B and T lymphocytes, as part of the adaptive intestinal immune response of the lymphoid tissue. Thus, as a result of these complex interplays, gut microbiota plays a critical role in the maturation of immune cells.

30This is a further level of protection and shows similarities with the blood–brain barrier. The main task of this barrier is to prevent the translocation of bacteria and/or microbial products in the zone between the epithelial barrier and the extracellular space, therefore avoiding the dissemination of bacteria to the liver and spleen, where additional barriers operate. At this level, the “gut vascular unit” consists of the gut endothelium enriched with active and passive transporters, the associated pericytes and enteric glial cells which contribute to gut homeostasis gut permeability, TJs, and adherens junctions. This area is permeable to most of the small nutrients. The intact endothelium is designed to allow the free diffusion of small molecules such as 4 kD dextran, while 70 kD dextran is blocked. Infections such as Salmonella enterica serovar Typhimurium initiate the disruption of the gut vascular barrier and promote an increased permeability. This condition allows the transit of larger molecules/microorganisms, even in the absence of inflammation and vasodilation. Dissemination involves the portal circulation, more than lymphatic vessels. The vesicle-associated protein-1 (PV1) is a marker of endothelial permeability and can increase during such events with bacteria found systemically. Conditions associated with the disruption of the gut vascular barrier include anchylosing spondylitis, celiac disease, and non-alcoholic steatohepatitis (NASH).

31The liver represents the last barrier for microorganisms entering the bloodstream due to gut mucosal damage and impaired surveillance activity from mesenteric lymphnodes (MLNs). In healthy subjects, the translocation of small amounts of bacteria and bacterial products from the gut to MLNs contributes to the stimulation of the immune system and to the development of immune tolerance. As a consequence, microbes are killed without significant systemic inflammatory modifications. Small amounts of bacterial mRNAs and LPS can reach the liver and contribute to detoxification of bacterial products. A major function in the maintenance of the liver barrier depends on liver macrophages (Kupffer cells). These cells at the hepatic sinusoids represent roughly 80% of all tissue macrophages and are essential to phagocytize and kill bacteria from the bloodstream, to clear MAMPs and PAMPs, and to process E. coli endotoxin. The activation of Kupffer cells by lipopolysaccharide is mediated by the lipopolysaccharide binding protein (LBP) and is dependent on a functional toll-like receptor 4 (Tlr 4). The LPS-LBP complex, in turn, stimulates liver-resident myeloid cells via mCD14 and TLR4.

32Several nondefinitive techniques are being used to study the modification of the paracellular pathway in vivo. Indirect methods range from orally ingested probe molecules (sugars) to circulating endotoxins, which include LPS and LPS-binding, serum zonulin, and intestinal fatty acid-binding protein levels (I-FABP). More direct methods include endoscopic assessment using confocal microscopy, and mucosal impedance. By using orally administered sugar probes and distinct urinary secretion and collection, several studies have compared the feasibility of this methodology in healthy subjects, as well as in patients with irritable bowel syndrome and in obese and NAFLD patients with evidence suggesting the presence of altered colon permeability in patients, but not in controls.

33A general overview of this scenario must consider that dietary fibers, fats, and BA can induce profound effects on intestinal permeability and microbiota. Dietary habits account for about 20% of microbial diversity in humans. Events are deeply correlated and do have reflections on metabolic aspects including obesity and liver steatosis. The protective effects of dietary fiber on the intestinal barrier are associated with homeostasis of gut microbiota. Additional agents involved in this homeostatic control of the intestinal barrier include SCFAs and epithelial IL-18. Fats appear to promote an increase in epithelial permeability, and fatty acids directly impair the epithelial barrier. Fats might further act via the release of LPS and permeation across the disrupted intestinal barrier with increased levels in serum. The role of a westernized fat-enriched diet lacking in fibers needs to be investigated with attention on intestinal barrier function. The role of A. muciniphila with a protective effect on intestinal barrier integrity needs to be investigated in the complex scenario connecting diet, microbiota, intestinal barrier, and metabolic disorders such as obesity and NAFLD. Research is trying to dissect the precise role of other aspects involving tight junctions, immune system, and environment. The concept of “leaky gut syndrome” requires further evaluations to establish the ultimate translational and clinical role of this condition.

34A huge number of engaged bacteria (more than 100 trillion) can digest many fibers due to the high number of glycoside hydrolases (more than 250) which break down various types of carbohydrates. Fibers are broadly classified as dietary fibers (from whole food) and synthesized functional fibers. Dietary fibers are either insoluble (cellulose, some hemicellulose, and lignin, which act mainly as mass-forming agents in gut transit) or soluble fibers which include wheat dextrin, pectin, gums, β-glucan, psyllium, and fructans, as well as some hemicellulose from grains, fruits, vegetables, and legumes) (Table 1). The dietary (soluble) fibers resistant to digestion by the host become microbiota-accessible carbohydrates (MACs).

35Dietary fibers and the MACs mostly highly fermentable by the gut microbiota, contribute to the health of individuals by increasing satiety, improving metabolic disorders, increasing the availability of SCFA with effects on gut-related immunity, endocrine function, and intestinal barrier integrity. In the mice model a diet deprived of MACs aggravated the DSS-induced colitis and increased gut permeability while reducing serum IL-18 levels. The secretion of the ileal entero-hormones GLP-1 and GLP-2 ameliorates gut injury and improves gut healing. Notably, removal of MACs in mice decreases GLP-1/2 and increases gut permeability.

36In the rat cecum, the fructo-oligosaccharides obtained by degradation of inulin, a water-soluble dietary fiber, promote IgA production and counteract the decrease of gut permeability induced by a MACs-deficient diet. The translational value of such observations requires further attention as some, but not all, clinical studies show the beneficial effects of MACs. Fructo-oligosaccharides and polydextrose protect intestinal barrier function in healthy subjects or pancreatitis patients, while administration of oat β-glucan, arabinoxylan (soluble hemicellulose) has no effects on acute indomethacin-induced gut hyperpermeability. Similarly, inulin (enriched in oligofructose) is ineffective in celiac patients.

37Soluble fibers undergo bacterial digestion into SCFAs as metabolites mainly acetate, propionate, and butyrate in a molar ratio of 60:20:20. This process does not include psyllium and gums. Acetate is converted to butyrate and used by colonocytes. SCFAs are then absorbed by colonocytes via simple diffusion or transported by the solute carrier family 16 member 1 (SLC16a1) and SLC5a8. At this level, SCFAs play a key role in cellular metabolism and immunity, and therefore contribute to maintaining the healthy function of the intestinal barrier. SCFAs also play a role at a more systemic level, when considering the gut–liver axis and energy production. At the intestinal level, acetate, butyrate, and propionate are converted to acetyl-CoA or propynyl-CoA via acetyl-CoA carboxylases (ACSSs) or β-oxidation to produce ATP. This product maintains cell homeostasis including the function of TJ.

38In vitro, the three SCFAs promote intracellular permeability and the mechanism involves the modification of TJ expression or distribution and ZO-1.

39Acetate activates nucleotide-binding oligomerization domain 3 (NLRP3) and promotes the secretion of IL-18 from epithelial cells, which contribute to maintaining TJ function.

40SCFA potently stimulate ANGPTL4 (fasting-induced adipose factor, Fiaf) in human colon cell lines via PPARγ.

41Butyrate provides energy and keeps the integrity of colonocytes, suppresses cytokine-induced barrier dysfunction acting on in vitro levels of claudin-2, and increases mucin expression. In addition, butyrate regulates hypoxia-inducible factor-1, which modulates the efficiency of epithelial TJ CLDN1, the gene coding for claudin-1.

42Administration of butyrate to patients with ulcerative colitis is associated with decreased faecal calprotectin, a marker of gut inflammation. Studies in the animal model show that acetate in gut epithelial cells can directly activate nucleotide-binding oligomerization domain 3 (NLRP3) inflammasome with increased release of IL-18, engaging the epithelial IL-18 receptor and promoting intestinal barrier integrity. Propionate, in the mice colon, can counteract the increase of dextran sulfate sodium (DSS)-induced leaky barrier via downregulation of ZO-1, occludin, and E-cadherin expressions in the colonic tissue in mice. SCFA become a substrate for gluconeogenesis, resulting in the modulation of central metabolism, and signal to the host by inhibiting histone deacetylase (HDAC) or by activating G-protein-coupled receptors (GPR41, GPR43, and GPR109A), which triggers the release of the hormone glucagon-like peptide-1 and PYY (independently of the BA-GPBAR-1 pathway). GLP-1 slows gastric emptying and gut transit, helps energy absorption, and enhances glucose-dependent insulin release. SCFA can activate the nuclear factor-κB signaling pathway via toll-like receptors (TLRs), which regulates the integrity of gut epithelial cells. In addition, intestinal T cells are influenced by SCFA via the signaling pathway which includes HDAC and GPR43. The protective role of SCFA at the level of the intestinal barrier stems from additional evidence in vitro and in vivo. T84 and Caco-2 cell cultures exhibited prompt enhanced barrier function in response to physiological concentrations of SCFAs by a mechanism involving the plasma membrane cholesterol-rich microdomain. When colonic organoids from human colonic mucosal biopsies were challenged with the fermentable substrate 2’-O-fucosyllactose, the increase of bifidobacteria increased SCFAs (especially butyrate). This step resulted in the upregulation of claudin-5, a marker of enhanced barrier function. Shift workers prone to circadian oscillation showed a decrease in gut-derived plasma SCFAs. This finding correlated with increased colonic permeability.

43At a systemic level, SCFA have a key metabolic activity, since from the intestine they travel to the liver via the portal circulation to provide the energy source used in lipogenesis and gluconeogenesis. Acetate bypasses the splanchnic circulation and is converted into acetyl-CoA in peripheral muscles for lipogenesis or oxidation. Propionate is mainly used for liver gluconeogenesis. Some bacteria species intake lactate and succinate and convert them into propionates. Notably the intake of a MACs-rich diet in humans is associated with increased content of faecal SCFA. SCFAs are an important source of ATP and contribute to maintenance of the intestinal barrier.

44There is a close interaction between diet and gut microbiota in governing the production of SCFA. In an ideal situation, the higher the microbiota diversity, the more enriched the diet is with many types of complex carbohydrates which are amenable to digestion by the microbiota. By contrast, the lower the microbiota diversity, the lower the percentage of these complex carbohydrates available for microbiota. As a consequence, the production levels of certain SCFA, such as propionate, might increase. However, in the case of a decreased diversity of the microbiota, several functions will decrease or become impaired, including metabolic effects. Preserved increased diversity of the microbiota, by contrast, will provide multiple types of SCFA and additional gut microbiota diversity. Evidence points to a close interaction between microbiota, fibers, and SCFA. An abundance of Bacteroides spp. is associated with the production of propionate and acetate, while butyrate is produced mainly by Firmicutes phylum. Colonic fermentation of fibers decreases pH levels, increases faecal acidification, and increases the growth and diversity of the gut microbiota taxa. Patients with type 2 diabetes mellitus have a reduced abundance of butyrate-producing bacteria. SCFAs supplementation in patients with type 2 diabetes mellitus increases the abundance of butyrate-producing bacteria, GLP-1, and haemoglobin A1c levels. Further and specific aspects of SCFAs are discussed in the section relative to NAFLD.

45Inulins are naturally occurring polysaccharides also classified as fructans found in many types of plants and are industrially extracted, especially from chicory. Inulin is considered a prebiotic and produces several metabolic and bacterial effects in the body. In the rat model, Singh et al. demonstrated that inulin in the range 0–25% in diet dose-dependently decreased caloric intake; improved glucose tolerance; increased the abundance of Bacteroidetes and Bifidobacterium spp.; decreased Clostridium clusters I and IV; increased butyryl-CoA:acetate CoA-transferase in cecum; upregulated peptide YY, cholecystokinin, and proglucagon transcripts in the cecum and colon; and increased plasma peptide YY and glucagon-like peptide-1 concentrations. Importantly, inulin at 25% attenuated the reduction in energy expenditure associated with calorie restriction and decreased adiposity. These findings show that inulin dose-dependently decreased caloric intake, modulated gut microbiota, and upregulated satiety hormones, with metabolic effects being largely independent of caloric restriction).

46In constipated patients, inulin induced the increase in Anaerostipes, Bilophila, and Bifidobacterium genus. Some bacteria such as Bilophila spp. produce softer stool and improve quality of life in constipated patients. The abundance of fiber-degrading bacteria decreases in patients with type 2 diabetes mellitus.

47Microbiota-accessible carbohydrates (MACs) modulate the gut microbiota. In mice, a low-MACs diet increases levels of Bacteroides thetaiotaomicron, affecting the gut mucus glycans. In germ-free mice on a low-MACs diet, the microbiota transplant increases mucin-degrading bacteria (B. thetaiotaomicron and A. muciniphila). A. muciniphila represents 1–4% of human gut microbiota and decreased levels of A. muciniphila have been reported in subjects with inflammatory bowel disease. In animal models, administration of A. muciniphila ameliorates DSS-induced colitis and protects the gut barrier function. In mice with chronic colitis, the administration of A. muciniphila decreased spleen weight, colon inflammation index, colon histological score, and expression of the pro-inflammatory cytokines TNF-α and IFN-γ. In mice, administration of pasteurized A. muciniphila or of a specific outer membrane protein (Amuc_1100) components from A. muciniphila improved colitis through effects on CD8+ cytotoxic T lymphocytes. Highly abundant pili-like protein Amuc_1100 of A. muciniphila increases intracellular permeability, activates toll-like receptor 2 (TLR2) and TLR4, and cytokine production from peripheral blood mononuclear cells in vitro.

48Fruit and vegetables contain metabolites such as polyphenols, including flavonoids and stilbenes. Mechanisms of protection include the enhancement of the intestinal barrier function and inhibition of intestinal dysbiosis. In principle, several products can provide a diet enriched in polyphenols but clinical studies are still lacking. Resveratrol was protective in the mice fed with a high-fat diet and tested by the serum LPS and FITC-dextran test. Galangin is a flavonoid whose heat-induced inactivation prevented the protective effect on mucosal barrier in the rat intestinal epithelial cell (IEC-6) model.

49The non-steroidal anti-inflammatory drug indomethacin is responsible for the decrease of ZO-1 and occludin expression in the TJ, an effect inhibited by quercetin. The protective effect of quercetin on intestinal barrier function was confirmed in Caco-2 cell culture which showed assembly of ZO-2, occludin, and claudin-1 and the expression of claudin-4.

50Anthocyanin pigments are antioxidants which belong to flavonoids, provide colors in fruits, and appear in high concentrations in berries (elderberries, black berries, raspberries, purple corn, and black carrots), red grapes, and red wine. Depending on the food, concentrations of anthocyanins range from 50 to 1500 mg/100 g fresh weight. The protective effect on the intestinal barrier was evident in the mouse model of obesity.

51In humans, the combined intervention of the New Zealand black currant anthocyanin-rich extract with physical exercise improved the oxidative stress and likely intestinal barrier. Additional protective effects are anticipated for the antioxidant polymer ellagitannins, normally ingested as punicalagin, pedunculagin, and sanguiin, which also show antimicrobial, anticancer, antinutritional, and cardioprotective properties. The content of ellagitannins in pomegranate and walnuts ranges from 150 to 1600 mg/100 mL and 100 g, respectively. In support of this, the polyphenols contained in pomegranate peel reduced the high-fat diet effect in the rat model on chronic low-grade inflammatory responses. By modulating gut microbiota, the authors documented reduced circulating endotoxin and colonic inflammation. In addition, the two microbiota metabolites of pomegranate ellagitannins punicalagin and urolithin A counteracted the LPS-induced inhibition of tight junction protein expression and inflammation in Caco-2 cells. Distinct effects are anticipated for the punicalagin metabolite ellagic acid which improves the intestinal barrier, while urolithin A protects against the inflammation-induced barrier dysfunction.

52Glutamine is the L-alpha-amino acid most abundant in blood in humans. It can be synthetized and obtained from diet and enters the protein synthesis or energetic pathways. Glutamine can act as a nitrogen donor in intracellular metabolism. Protective effects of glutamine have been shown on tissue integrity, inflammation, and intestinal permeability in IBS patients and Chron’s disease. A review of foods and supplements containing glutamine and their effects on health addresses this issue.

53Vitamin D levels improved in IBS patients with increased intestinal permeability on a low-FODMAP diet. Vitamin D administered to Chron’s disease patients ((2000 IU/daily) for 3 months was associated with improved permeability in the gastroduodenal tract by a sucralose test but not in the small intestine (lactulose, mannitol ratio) or colon.

54The food supplement zinc carnosine appears to protect the intestinal barrier via a proliferative response, as shown in the cell culture model and a clinical study using the lactulose to rhamnose ratio.

55The ultimate role of these treatments requires further studies. Probiotics and synbiotics enhance intestinal barrier function in response to stressor or disease states. Clinical outcomes must be investigated.

56Diet provides continuous delivery of fats such as triglycerides and cholesterol which are digested and absorbed in the gut lumen. Starting from dietary triglycerides and following BA-induced emulsion and formation of FFA+BA micelles, FFA undergo further assembly in the enterocytes.

57Dietary FFA are about 15% of the total pool of FFA in the body and are divided into saturated or unsaturated fatty acids. According to the chain length, FFA are classified as short-chain (SFCAs), middle-chain (MCFAs), and long-chain fatty acids (LCFAs). Circulating FFA represent about 60% of the total pool and are generated from the lipolysis of triglycerides (TG) in adipose tissue. Finally, FFA from de novo lipogenesis (DNL) represent ~25% of the total pool and originate mainly from dietary carbohydrates metabolized in the hepatocyte.

58In vitro studies show how FFA, according to their structure, can distinctively interact with components of the intestinal barrier and permeability such as TJs, bacteria, BA, and inflammation.

59In Caco-2 cells the unsaturated LCFA eicosapentaenoic acid (EPA), docosahexaenoic acid (DHA), and γ-linolenic acid increase TJ permeability without disrupting the intestinal barrier. In T84 cells, LCFAs decrease TJ permeability; EPA and DHA reduce the IL-4-mediated increase in paracellular permeability. In Caco-2 cells, saturated MCFAs C8 (caprylate), C10 (caprate), and C12 (laurate) increased the paracellular permeability of the hydrophilic marker molecule [14C]-mannitol. The mechanism likely involves the activation of MLCK. C10 (caprate) and not lauric acid is responsible for the conformational alteration of TJ proteins and the mechanism involves occludin and ZO-1. In the rodent model, the high-fat diet (HFD) increases gut permeability and changes are associated with decreased mRNA or protein expression of TJ (claudins-1-3, ZO-1). More specifically, in IL-10 knockout mice with IBD, IBD-like colitis is spontaneously triggered with an increase in gut permeability. In another study, a diet enriched in saturated fat activated the Th1 immune response and this effect was associated with increased incidence of colitis. A potential mechanism is that luminal taurine-conjugated BA can increase the density of Bilophila wadsworthi, a sulfite-reducing pathobiont. Further evidence about the effect of fat on gut permeability shows that the levels of proteobacteria in stool increase in mice on a high-fat and high-sugar combination diet, and changes are associated with increased faecal inflammatory markers. An additional mechanism of damage can involve the levels of secretory IgA coating the gut microbiota, since the IgA levels are diminished in HFD fed mice.

60Clinical trials show protective effects of higher consumption of DHA and progression of ulcerative colitis. Opposite effects are generated by n-6 PUFAs (which promote inflammatory signaling pathways) and n-3 PUFAs (anti-inflammatory properties). There are no definitive results from clinical studies on the effects of a high-fat diet on the homeostasis of the gut barrier or on intestinal permeability. However, in healthy subjects, plasma LPS levels parallel the extent of fat intake. In a group of healthy adults, serum endotoxin levels increase in the postprandial period following a high-saturated fat meal but decrease following ingestion of an n-3 (ω3) meal. In another group of adult normal-weight males, no significant changes were recorded in gastroduodenal, small intestinal, or colonic permeability following fatty diet, although fasting endotoxin concentrations increased.

61The role of LPS as a marker of increased gut permeability needs to be discussed. In the animal model increased serum levels of LPS point to increased gut permeability and LPS absorption from the leaky gut. In addition, increased LPS absorption can modulate the lipidemia, since injection of LPS in mice reduced plasma HDL cholesterol and increased triglycerides. In patients with T1DM high serum LPS level was associated with hypertriglyceridemia and diastolic hypertension. The gut TLR4, a receptor for LPS, can influence the TJ function and activates signaling pathways leading to diet-induced insulin resistance and atherosclerosis. In contrast, TLR4 knockout mice oppose the HFD-induced insulin resistance, and atherosclerosis.

62In another study in mice, DSS-induced disruption of the intestinal barrier plus HFD induced downregulated ZO-1 and Claudin-1 expression in the colon (a picture compatible with leaky gut and likely LPS absorption), liver damage and inflammation with increased leukocyte infiltration, and mRNA expression of TLR4 and TLR9 inflammatory cytokines. In humans, serum LPS levels increase with high fat and high carbohydrate intake and the mechanism involves increased TLR2 and TLR4 expression in mononuclear cells. LPS-induced stimulation of TLR4 is associated with T helper cell (Th) 17 differentiation and inflammatory changes via decreased expression of peroxisome proliferator-activated receptor-α.

63Beside the above-mentioned studies, it is clear that a HFD has the potential to change the gut microbiome in animals and humans. The mechanism likely involves the interaction between bacteria and TJ.

64In mice, a HFD induces insulin resistance, inflammation, and steatohepatitis while decreasing butyrate-producing bacteria Butyricicoccus, Clostridium, and Turicibacter, colonic butyrate levels, and expressions of occludin-1 and ZO-1. By contrast, serum LPS and mRNA expression of liver LPS-binding protein increase.

65Of note, administration of A. muciniphila brings protective effects against HFD-diet in animal models. This effect is associated with the suppression of increased weight gain and lipid and glucose levels through a downregulation of intestinal TLR4 and TJ mRNAs.

66In obese patients, a negative correlation has been detected between the relative abundance of A. muciniphila and fasting glucose levels, waist-to-hip ratio, and the diameter of subcutaneous fat cells. On the other hand, a direct relation has been shown with insulin sensitivity markers and other parameters after calorie restriction. In patients with type 2 diabetes, reduced levels of faecal A. muciniphila extracellular vehicles (AmEVs) have been recorded, as compared with healthy controls. Furthermore, a purified membrane protein from A. muciniphila is able to ameliorate glucose intolerance and decreases plasma LPS levels, with an upregulation of pathways involving insulin signaling and claudin-3.

67HFD, compared with low or normal fat diets, will increase the hepatic secretion of hepatic BA and the gut content of both primary and potentially harmful secondary BA, especially in the colon. BA contribute to the maintenance of the intestinal barrier, and mechanisms involve BA as signaling molecules on the small gut membrane receptor GPBAR-1 and the nuclear orphan receptor FXR. GPBAR-1 knockout mice develop a disrupted molecular architecture of epithelial TJ. Expression of ZO-1 is increased, but subcellular distribution is deranged and associated with increased gut permeability. Mice become more sensitive to DSS stimuli and develop severe colitis. By contrast, activation of GPBAR-1 ameliorates gut inflammation in models of chemically induced colitis. GPBAR-1 is involved in decreased mobility of blood monocytes to gut mucosa, decreased activation of macrophages, and decreased expression of inflammatory genes, including TNF-a, IFN-g, IL-1b, IL-6, and CCL2.

68FXR knockout mice show increased gut permeability. FXR activation protects from chemically induced colitis and decreases gut permeability and inflammatory markers. Notably, gut-specific FXR-deficient mice develop a combination of events, which include increased gut permeability, reduced mucosal integrity, decreased secretion of mucin 2 protein, and lower levels of E-cadherin protein.

69Emulsifiers can damage the intestinal barrier via decreased microbial diversity and mucosal inflammation. These molecules appear in processed foods and beverages and the molecular coexistence of hydrophilic and lipophilic groups helps the dispersion of fat molecules and water-soluble molecules in a hydrophilic or hydrophobic environment, respectively. As an example, carboxymethylcellulose decreases mucus pore size and significantly slows E. coli speed and particle diffusion rates through mucus. Tween (polysorbate 80) increases E. coli speed in mucus. Despite such distinct effects, both emulsifiers decrease the thickness of the mucus layer, resulting in closer contact of bacteria to enterocytes, changes to membrane-associated proteins such as ZO-1, and higher levels of bacterial translocation. Activation of inflammatory pathways can occur with emulsifiers and involve Bcl-10, TLR-4, the release of NF-kB, and secretion of proinflammatory cytokines such as TNF-α and IL-6. Clinical studies have focused on the role of dietary manipulation and intake of emulsifiers, although intestinal permeability was not measured.

70The intestinal barrier and intestinal permeability can change in response to both acute and chronic alcohol use. Mechanisms include direct enterocyte damage and disruption of the tight junction. Additional contributing aspects include impaired intestinal motility occurring upon acute and chronic alcohol intake.

71In the Caco-2 cell culture, ethanol induces changes to the expression of ZO-1 and claudin-1, pointing to increased intestinal epithelial barrier permeability.

72In the mice model, chronic alcohol administration induces intestinal dysbiosis, bacterial overgrowth and translocation.

73Clinical studies support the effects of alcohol on the intestinal barrier. In healthy subjects, a single oral intake of alcohol equal to 1 g/kg was associated with altered histology in the duodenum. Excessive alcohol intake was associated goblet cell depletion and mononuclear cell infiltration and inflammation in the rectal mucosa. Direct intraduodenal instillation of alcohol (20 g) reduces the expression of ZO-1 and occludin and increases the phosphorylation of mitogen-activated protein (MAP) kinase isoforms. These findings are associated with increased the permeability of the small intestine and colon, measured by lactulose and sucralose excretion.

74Patients with alcoholic liver disease exhibit increased miR-212 expression in colonic mucosal biopsies. This finding points to the miR-212-dependent inhibition of ZO-1 synthesis and derangement ZO-1 structure. Intestinal dysbiosis can occur in alcoholics, as confirmed by a lower fungal diversity, and a shift of faecal mycobiome with an increased abundancy of the faecal Candida genus, as opposed to the Penicillium genus of non-alcoholic controls. These findings were not associated with increased intestinal permeability measured by plasma zonulin or LPS binding protein levels.

75Intestinal permeability to large molecules is increased in chronic alcoholic men with liver disease. PEG 10,000 with a diameter of 46 Å is recovered in urines while plasma endotoxin LPS is increased, as compared to controls. PEG 4000 urinary recovery increases with and plasma endotoxins. The ultimate value of such findings remains unclear. Large PEG molecules have a weight close to LPS (5000–8000 Da), but the chemical moiety of LPS, which combines a hydrophilic sugar chain with a hydrophobic lipid region, is prone to micellization in a watery environment with structures of 106 Da. Thus, LPS permeability might not be totally reflected by PEG permeability.

76Liver disease can be associated with increased intestinal permeability. We showed that patients with obesity/NAFLD had increased colonic permeability assessed by increased urinary recovery of sucralose. In chronic alcoholics, however, alcohol abuse rather than liver damage accounts for increased intestinal permeability. In this respect, small intestinal permeability measured by lactulose/mannitol ratio was increased in alcoholics with chronic liver disease, but not in alcoholics without liver disease or patients with non-alcohol-related liver disease.

77The effect of chronic alcohol abuse on increased intestinal permeability can persist beyond cessation of alcohol intake. This was the case with a study using 51Cr-labelled EDTA as a marker of intestinal permeability at baseline and 2 weeks of cessation of alcohol intake. Alcohol use can affect chain fatty acids (SCFAs) and permeability occurring with circadian variation. Further aspects of alcohol damage on the intestine are discussed in the context of NAFLD/bacterial products.

78Human overweight and obesity are defined as an excessive accumulation of adipose tissue, a condition of adiposity. The World Health Organization defines overweight as a body mass index (BMI) of 25 to 29.9 kg/m2 and obesity as a BMI of ≥30 kg/m2. Both overweight and obesity are chronic diseases of increasing prevalence in children, adolescents, and adults as part of a global pandemic. Both conditions put the populations at increased risk of many metabolic disorders such as hyperglycemia, insulin resistance, dyslipidemia, metabolic syndrome, and ultimately cardiovascular diseases and many specific cancers. Metabolic syndrome is a state of low-grade systemic inflammation which paves the way to the development of chronic diseases such as type 2 diabetes mellitus, NAFLD, and cardiovascular disease.

79Obesity is the fifth leading cause of death in the world, and accounts for almost 3.4 million deaths yearly. By 2030, about 38% of the world’s adult population will be overweight and another 20% obese. Data prevalence of obesity from the United States are very instructive and somewhat worrisome. The NHANES survey reported that from 1988 to 1994, 1999 to 2000, and 2017 to 2018 the age-adjusted overall prevalence of obesity increased progressively from 22.9 to 30.5 to 42.4%. The prevalence of obesity was similar in adult males and females in 2017 to 2018. Globally, similar trends are following. Obesity worldwide in 2015 was reported in about 604 million adults and 108 million children. Since 1980 the prevalence had doubled in more than 70 countries, while showing a continuous increasing trend in most other countries, similar between males and females in all age groups and highest during early adulthood. In 2015 the prevalence of obesity was higher for females than males at all socioeconomic levels and for all age groups. The most evident increase of obesity, ranging from 11.1 to 38.3%, occurred in males aged 25–29 from 1980 to 2015 and living in low- to middle-income countries.

80Even the most severe types of obesity show continuous increasing trends, since the age-adjusted prevalence of class III obesity, meaning a BMI ≥ 40 kg/m2, increased from 5.7 to 9.2% between 2007 and 2018. The progressive expansion of visceral fat at increasing BMI, the chronic metabolically mediated pro-inflammatory status, and the ongoing insulin resistance condition are factors largely related to the increased cardiovascular risk and accumulation of excess free fatty acids/triglycerides and lipid metabolites in the liver.

81Among all types of obesities, normal-weight but metabolically obese people and sarcopenic obese are the two categories at increased metabolic/cardiovascular/hepatic risk, due to a pro-inflammatory state affecting the visceral adipose tissue (VAT) as well as the liver.

82Triglycerides physiologically accumulate in the hepatocyte as lipid droplets. Liver steatosis appears when the level of hepatic TG exceeds the 95th percentile that, in the case of healthy, lean individuals must be >55 mg per g of liver tissue. At histology, a fatty liver is characterized by the detection of intracellular triglycerides in 5% or more of hepatocytes. Liver steatosis is also detectable by a magnetic resonance imaging proton density fat fraction [MRI-PDFF] when the estimated liver fat content is ≥5%, or by magnetic resonance spectroscopy, in presence of a liver fat content ≥5.56%.

83The term NAFLD defines a type of liver steatosis which is not secondary to alcohol damage. NAFLD subjects do not drink or do not have significant alcohol consumption), and there are no other causes which explain liver steatosis (Table 2). The alcohol-associated liver injury which includes steatosis remains the second most frequent aetiology.

84The NAFLD spectrum is broad and includes simple steatosis (nonalcoholic fatty liver, NAFL) and steatohepatitis (nonalcoholic steatohepatitis, NASH), liver cirrhosis and hepatocellular carcinoma (HCC). NAFL has little or no inflammation and no evidence of hepatocellular injury. NAFL occurs in about 80% of NAFLD subjects and is the non-progressive form since the risk of progression to liver cirrhosis is minimal. NASH occurs in about 20% of NAFLD. Features of NASH include not only steatosis, but also inflammation and hepatocellular injury with ballooning and apoptosis (features which are indistinguishable from those of alcoholic steatohepatitis). NASH patients are at high risk of developing liver fibrosis and to progress to cryptogenic compensated/decompensated cirrhosis as well as to HCC.

85NAFLD is the most frequent liver disorder to date with a median prevalence of about 25% worldwide. The increasing trends of NAFLD likely depend on the increasing prevalence of other metabolic disorder worldwide, namely overweight, obesity, insulin resistance, type 2 diabetes mellitus, sedentary lifestyles, dyslipidaemia, and metabolic syndrome. NAFLD occurs in non-obese individuals as well, encompassing the condition of “lean NAFLD” which develops with a prevalence of 10–30% in both Western and Eastern countries. Lean NAFLD is also associated with metabolic dysfunction and increased cardiovascular risk. The overall prevalence of NAFLD is likely underestimated since many studies rely on mild hypertransaminasemia and/or on ultrasonographic steatosis and not on true fat content in the liver, as disclosed by exact quantitative evaluation. In particular, the specific serum alanine aminotransferase (ALT) may be normal in patients with NAFLD, while abdominal ultrasonography can easily detect a hyperechoic texture in the liver (“bright liver”) due to diffuse fatty infiltration. Ultrasonography is not able to distinguish the necro-inflammatory changes typical of steatohepatitis and has a poor accuracy in diagnosing the presence of a mild steatosis (<30%). NAFLD exposes the populations to the increased risk of liver-related mortality and, similarly to obesity, to all-cause-mortality due to increased risk of cardiovascular disease and extrahepatic malignancies. The metabolic form of liver steatosis, NAFLD represents the leading liver disease worldwide with an estimated two billion individuals affected. NAFLD is commonly associated with several metabolic abnormalities which include obesity, hypertension, dyslipidaemia, and diabetes.

86Notably, liver fibrosis represents the strongest known predictor of poor clinical outcomes in NAFLD. Time for progression of fibrosis is significantly slower in NAFL than NASH with an average of 14 years vs. 7 years, and it is even shorter in NAFLD “rapid progressors” which account for 10–20% of patients. To detect the predictors of rapid progression of NAFLD/NASH is therefore of paramount importance to reduce the ultimate burden of disease. Factors such as increased serum transaminases, especially alanine aminotransferase (ALT), morbid obesity, diabetes, genetic susceptibility with a family history of cirrhosis in first-degree relatives, and host microbiota, are likely involved. In this respect, patients with cryptogenic cirrhosis exhibit 1.5–2% yearly incident risk of developing HCC. Therefore, patients with confirmed NASH require a careful screening since NAFLD has become the second leading indication for liver transplantation in the US, and there are a growing number of cases with NASH-related HCC.

87According to a recent debate, the term “non-alcoholic” seems to overemphasize “alcohol” rather than metabolic risk factors. A change in terminology has been recently adopted from NAFLD to metabolic dysfunction-associated fatty liver disease (MAFLD). In this context the diagnosis of liver steatosis becomes active, rather than a diagnosis of exclusion, since MAFLD occurs with at least one of the following three comorbidities: overweight/obesity meaning expansion of visceral fat, type 2 diabetes mellitus, or evidence of metabolic dysregulation. The term MAFLD is gaining interest worldwide, despite some authors warning that changing definition requires further knowledge about the molecular basis of the disease entity, new insights in risk stratification, and practical implications. Indeed, studies are in progress looking at the contribution of environment, comorbidities, and the gut microbiome to the pathogenesis and natural history of NAFLD/MAFLD.

88Obesity and NAFLD develop because of the interaction of genetic factors, epistasis, and environmental factors, exposome such as race, ethnicity, gender, age, and foetal period. Lifestyles which include quality of diet, sedentary life, sweetened beverages, hypercaloric intake, induce potent gut, microbial, and dietary modifications. Additional factors playing a key role are food contaminants, contaminated consumer products, or air pollution. Diet is a main contributor to gut microbiota diversity and accounts for more than 55% of the variations, compared to about 12% estimated for genetic variation. Dietary habits will shape the microbiota composition already during breast and formula feeding. Bifidobacteria spp. are higher in breast-fed babies compared to formula-fed babies, while formula-fed babies show higher levels of Bacteroides spp. and Lactobacillus spp.. Probiotics comprise non-pathogenic microorganisms used as food ingredients which bring benefits to the health of the host. Limosilactobacillus reuteri can significantly lower the low-density lipoprotein cholesterol (LDL-C) in patients with hypercholesterolemia, likely involving the orphan FXR. Prebiotics are fermented dietary fibers able to modulate the composition and/or activity of colonic microbiota with beneficial effects on health. Examples of prebiotics are lactulose, resistant starch, and inulin (targeting especially Bifidobacterium and Lactobacillus genera). Animal studies have addressed additional issues. Humanized mice generated by transplanting human faeces into germ-free mice were switched from a low-fat, plant polysaccharide-rich diet to a “Western diet”. This included a high fat and sugar content which altered the composition of the microbiota within a single day with an increased number of the Erysipelotrichi class of bacteria within the Firmicutes phylum and reduced Bacteroides spp. Mice fed a vegetarian fiber-rich diet had lower counts of Bacteroides spp. E. Coli and other bacteria compared to the controls.

89In general, the vegetarian diet is associated with decreased Bacteroides spp., Bifidobacterium spp., E. coli and Enterobacteriaceae spp., decreased Enterobacteriaceae and increased Bacteroides, increased Bacteroidetes, and decreased Firmicutes and Enterobacteriaceae. By contrast, a high-fat diet is associated with decreased genera within the ileal class Clostridia, while colonic Bacteroidales increase. Others reported increased Lactobacillus spp., Bifidobacterium spp., Bacteroides spp., and Enterococcus spp., and decreased Clostridium leptum and Enterobacter spp.; increased Firmicutes to Bacteriodetes ratio and increased Enterobecteriaceae; and increased Bacteroidales, Clostridiales and Enterobacteriales. The calorie-restricted diet can decrease the Firmicutes to Bacteroidetes ratio.

90External agents can strongly influence the intestinal barrier function by interacting with the microbiota, the gut immune system, and the ability to secrete local peptides and immunoglobulins with antimicrobial function.

91Beside dietary habits many other factors are involved, such as smoking, ethanol intake, drugs (antibiotics, liraglutide, metformin, curcumin), and environmental pollutants (heavy metals, persistent organic pollutants, volatile organic compounds, and pesticides).

92Changes to gut function and permeability can have potent consequences on metabolic homeostasis, including energy harvest and fat accumulation in obesity and NAFLD. The role of dietary habits deserves attention in this respect, due to the potential repercussions on all levels of the intestinal barrier. Whether the starting problem is the initial modification of the gut microbiota pointing to dysbiosis, rather than the composition of diet per se, is a matter of debate. A Western-style fat- and sugar-enriched diet might initiate the detrimental process. High-fat or fiber-deprived diets in mice can reshape the gut microbiota, decrease the thickness of the mucous layer, and increase gut permeability, with low-grade gut inflammation. High-fat or high-fructose intake increases gut permeability in the animal models of NAFLD. Saturated fat and fructose in diet promote the pro-inflammatory microbiome, decrease the production of protective SCFA, and increase the recruitment of macrophages producing cytokines and TNF-α as markers of gut mucosal inflammation. Dietary changes can decrease the expression of TJ proteins and increase the pathological permeability of the intestinal barrier. Indeed, a high-fat diet or a high-fructose diet in the animal model induces changes of gut ZO-1 and occludin and promotes endotoxemia. A diet-dependent increase of serum LPS will promote TLR-mediated low-grade liver inflammation. This is a metabolic scenario potentially associated with obesity, NAFLD, and NASH.

93Thus, one chain of events can include dysbiosis, changes of TJ proteins, reduced lamina propria Treg cells, increased production of IFN-γ (by Th1 and CD8+ T cells), and increased production of IL-17 (by γδ-T cells) as expressions of local inflammatory changes. Several findings are available in both animal models and human studies.

94Mice on a high-fructose, cholesterol diet have defective gut permeability and develop more severe NASH than control mice, while colon tissues from NAFLD patients display lower levels of the JAM-A junctional adhesion molecule and higher levels of inflammation than subjects without NAFLD. Mice genetically deficient in Jam1 on a high-fat and high-fructose diet had increased gut permeability, endotoxemia, and hepatic inflammation. In NAFLD mice, administration of probiotics for 4 weeks improved NKF-beta activity, steatosis, and hepatomegaly. In the genetically obese (ob/ob) mice fed with a high-fat diet, the antidiabetic drug liraglutide modified the overall composition and the relative abundance of gut microbiota phylotypes involved in the pathogenesis of NAFLD with reduced Proteobacteria, increased A. muciniphila, and decreased liver fat content reversing steatosis. In mice, curcumin changed the composition of several operational taxonomic units related to hepatic steatosis. The treatment attenuated liver fat deposition and improved the integrity of the intestinal barrier. Metformin administration in mice of the inbred strain C57Bl/6J that were fed fat-, fructose-, and cholesterol-rich diets showed protective effects in both gut microbiota and integrity of the intestinal barrier.

95Adolescents with NAFLD observed for 24 h had increased postprandial endotoxin levels following fructose-enriched but not glucose-enriched drinks. By contrast, a less pro-inflammatory diet, such as the Mediterranean diet, enriched in fibers, mono- and polyunsaturated fatty acids, antioxidants, polyphenols, and phytochemicals, could protect gut permeability by increasing SCFAs-producing bacteria because of diet-induced prebiotic effects. Nevertheless, gut permeability did not improve in NAFLD patients with increased baseline gut permeability by 51Cr-EDTA, put on 16 weeks of a Mediterranean diet and 16 weeks of a low-fat diet.

96Antibiotics can greatly affect the microbiome with consequences on energy storage and metabolic disorders which include diabetes, obesity, fatty liver, and metabolic syndrome. The use of polymyxin B improved steatosis grades in both rats and humans on total parenteral nutrition and in alcohol-exposed rats. Following gut bypass surgery with associated hepatic steatosis, metronidazole improved the hepatic damage. The administration of some probiotics in children increased levels of glucagon-like peptide-1 (GLP-1) and showed improvement in fatty liver.

97Obesity and associated metabolic abnormalities can induce changes of networking, bidirectional crosstalk, and control of inflammation at the level of different tissues, such as visceral fat and the liver, and will pave the way to initiation, perpetuation, and aggravation of metabolic damages. The gut microbiota plays an important role in this respect and might represent a link with obesity since the microbiota participates in the regulation of fat storage. Exposure to antibiotics can decrease bacterial diversity and put individuals at risk of weight gain, especially during the first 6 months of age. By contrast, probiotics, similarly to antibodies to TNF, inhibit inflammatory activity and improve NAFLD. The gut microbiota can increase energy production from diet, promote low-grade inflammation, and govern fatty acid tissue composition. There are no definitive conclusions in this respect, due to the complexity and diversity of gut microbes, ethnic differences in the populations, and large variations between studies.

98Studies point to the changed ratio between Firmicutes phyla which increase in obesity and Bacteroidetes phyla which decrease in obesity. This diversity can be associated with increased energy absorption from food and increased low-grade inflammation. Morbidly obese patients undergoing bariatric surgery by Rouex-en-Y gastric bypass exhibit a dramatic amelioration of their metabolic profile, with a concomitant shift of bacterial population. Of note, mice experiments showed that faecal transplantation from RYGB-treated mice into germ-free mice led to weight loss and decreased fat mass in mice.

99Other factors can shape the metabolic profile in obesity. In the obese subjects, a fiber-poor diet will affect the gut environment, microbiota diversity, and the fiber-derived production of SCFA, as reported before. The role of SCFA in obesity cannot be ignored. Butyrate dietary supplementation reduces diet-induced insulin resistance in mice. The mechanism likely includes increased energy expenditure and mitochondria function, while a fat-enriched diet can easily shift the composition of the gut mucus layer and associated microbiota. In addition, by re-shaping the diversity of the gut microbiome, obesity can also have a detrimental effect on the microbiome-immune system crosstalk, the gut immune response, and the production of bacteria-specific IgA antibodies. In this context, a dysbiotic microbiome is a predisposing factor linking the immune system with obesity-associated disease outcomes. The intestine develops alterations in immune composition during obesity and function which includes the microbiota. A dysbiotic microbiome is an important factor linking the immune system with obesity-associated disease outcomes.

100Such changes will have a consequence on the performance of the intestinal barrier and the associated components. A subsequent step is the permeation of bacterial products in the portal tract to the liver. Notably, microbially produced endotoxins such as LPS can be taken up into chylomicrons that are formed from dietary saturated fats. This step can promote inflammation in the host that induces insulin resistance. Such changes, in turn, will impact the mechanisms involved in both local and systemic inflammation controlling metabolic abnormalities.

101Genetically obese ob/ob mice and obese subjects have increased levels of SCFA in the cecum and faeces, likely due to decreased colonic absorption. Butyrate and propionate protected from diet-induced obesity. Acetate given orally also improved glucose tolerance. SCFA-dependent activation of the AMP-activated protein kinase (AMPK) in liver and muscle tissues can activate pathways involved in cholesterol, lipid, and glucose metabolism. Mechanisms include interaction with peroxisome proliferator-activated receptor-gamma coactivator 1 alpha (PGC-1α), peroxisome proliferator-activated receptor gamma (PPARγ), and Liver X receptors (LXR). The interaction of acetate, propionate and butyrate with G-protein-coupled receptors (GPR41 and GPR43), resulting in the release of the hormone glucagon-like peptide-1 and PYY has profound metabolic consequences. Gpr41 is expressed in intestine, adipocytes, and immune cells, suggesting involvement in lipid and immune regulation. Of note, Gpr41-KO mice on a high-fat diet had lower body fat mass, increased lean body mass, improved glucose control and lower HOMA index, indicating improved insulin sensitivity. These animals had higher energy expenditure accompanied by higher core body temperature and increased food intake, decreased liver weight and content of triglycerides and plasma levels of cholesterol. Gpr41-KO mice had decreased lipid interspersed in brown adipose tissue with no differences in white adipose tissue (WAT) cell size but significantly lower macrophage content. Thus, the absence of the GPR41 receptor protects from high-fat diet-induced obesity and dyslipidemia at least partly via increased energy expenditure.

102The same outcome did not occur in mice grown under germ-free conditions or when treated with antibiotics. A second receptor of SCFA, GPR41, is activated mainly by propionate and butyrate. Beside inducing the gut hormone peptide YY (PYY) and GLP-1, this receptor improves insulin signaling through SCFA produced by gut microbiota.

103Dysregulation of BA homeostasis during the enterohepatic circulation might also play a role by up-regulating transcription factors that link it to nutritional-induced inflammation, lipid absorption, and de novo lipogenesis.

104Toll-like receptors (TLRs), the nuclear factor kappa (NF-kB) are master regulators of inflammatory pathways, and their role is important in obesity.

105LPS (originating from the outer membrane of Gram-negative bacteria) are produced in the gut.

106Upon increased fat intake, levels of LPS increase. Animal experiments in mice support this possibility and adding LPS to a normal diet induce insulin-resistance and lead to weight gain. LPS binding to the TLR4 receptor on macrophages activates the production of inflammatory markers. In turn, this step induces insulin resistance which is secondary to the inhibition of pancreatic β-cell function and decreased gene expression of Pancreatic And Duodenal Homeobox 1 (PDX1).

107Mice models of diet-induced obesity confirm that there is a shift in the inflammatory potential of the gut immune environment. Such adaptation increases the numbers of lamina propria Th1 and CD8+ T cells, CD44+ MAIT cells, gut homing CCR2+ macrophages, and gut intra-epithelial CD8αβ+ T cells. In parallel, tolerogenic cell types will decrease. Small intestine type 2 innate lymphoid cells (ILC2s) promote obesity via an IL-2 feedback system. Obese subjects show increased gut CD8αβ+ T cells. Overall, dietary obesity-driven cellular immune changes will contribute to the onset of an inflammatory environment and gut dysfunction and will have consequences on deranged glucose homeostasis. The innate immune system is responsive to the obesogenic environment as documented by a decrease in IL-22- and IL-17-secreting gut group 3 innate lymphoid cells (ILC3s).

108The obesity-induced pro-inflammatory skewing of immune cells is a predisposing factor to the release of cytokines (TNF and IFNγ), which parallels a reduction in protective cytokines (IL-10 and IL-22). This will result in the reduced expression of antimicrobial proteins (RegIIIγ), mucin, and epithelial tight junction proteins. Barrier dysfunction can pave the way to the onset and aggravation of chronic inflammation, metabolic syndrome, and insulin resistance.

109Dysfunctional gut immune cells can promote the impaired bioavailability of gastrointestinal hormones such as GLP-1, which has important metabolic effects (as incretin that enhances the secretion of insulin to reduce blood glucose levels) and, in turn, is involved in the maintenance of barrier integrity acting on TJs and gut intraepithelial lymphocytes, which express the glucagon-like peptide 1 receptor (GLP1R) and have anti-inflammatory activity cytokines. Additional mechanisms driven by obesity include gut epithelial lymphocytes sequestering GLP-1, decreased availability of GLP1-secreting enteroendocrine L cells, or lymphocyte-driven upregulation of the expression of molecules (dipeptidyl peptidase 4 (DPP4)) degrading GLP1. Lastly, gut immune cells such as anti-inflammatory IgA+ antibody-secreting cells (ASCs) can leave the barrier, decreasing the local protection (IL-10 and IgA), and migrate to other inflamed tissues (liver, visceral fat).

110An additional aspect includes the consequences of immune-microbiota crosstalk as a regulator of metabolic alterations. Obesity is associated with dysbiosis and a loss in bacterial diversity. This condition impairs the capacity of mononuclear phagocytes to produce factors effective on IgA class switching (transforming growth factor-beta TGF-β), interleukin-5 (IL-5), retinoic acid (RA) via retinaldehyde dehydrogenase (RALDH) enzymes, and a proliferation-inducing ligand (APRIL)). Both quantity and quality of secretory IgA (SIgA) will be affected with dysfunctional capacity to bind bacteria and providing the condition for expansion of opportunistic and pathogenic taxa Proteobacteria and associated dysbiosis. In addition, the environment will produce defective secretion of factors linked to IgA antibody-secreting cell (ASC) function, and reduced ability to induce T helper 17 (Th17) and regulatory T (Treg) cells. In parallel, pro-inflammatory signaling in gut epithelial cells, T cells, and potentially enteric neurons, will impair the production of anti-microbial peptides (AMPs), or can blunt the protective effects of Akkermansia. A further aspect to consider is the microbiota ability to control the immune cells, a mechanism which can fail during obesity, and involve short-chain fatty acids (SCFAs) function (via G protein-coupled receptors (GPRs)) to increase levels of gut secretory IgA, promote Treg cell responses and strengthen the CX3CR1+ MNP function. Aryl hydrocarbon receptor (AhR) ligands appear to increase levels of protective interleukin (IL)-22 and IL-10 cytokine, AMP production, and the promotion of epithelial layer mucus and tight junction proteins. BA will act on the ileal farnesoid X receptor (FXR) and GPBAR-1, while increasing the population of Treg cells and decreasing Th17 cells. Mechanisms likely change during diet-induced obesity.

111As the prevalence of overweight and obesity are rising worldwide, the impact of gut microbiota on the development of type 2 diabetes mellitus is becoming clearer. Mechanisms involve modifications in the secretion butyrate and incretins. Evidence shows that type 2 diabetes mellitus patients host gut dysbiosis, decreased butyrate-producing bacteria, and increased opportunistic pathogens. Involvement of pathways such as insulin signaling, inflammation, and glucose homeostasis is an additional possibility. The gut microbiota can modulate the SCFA binding to GPR41 and influence the secretion of GLP-2 and PYY, two key insulin-signaling molecules, which decrease insulin resistance and β-cells function. In mice, an increase in Bifidobacterium spp. has an anti-inflammatory effect via production of GLP2 and reduced gut permeability.

112Metabolic abnormalities and gut microbiota can heavily affect the liver which is central in gluco-lipidic homeostasis. Evidence from pre-clinical studies indicates that germ-free mice might be protected against obesity and hepatic steatosis, although results are still controversial. Furthermore, a specific gut microbiome signature has been detected in NAFLD. Knowing the pathophysiology of the gut–liver axis is very instructive in this context. The microbiome provides a huge source of diverse bacterial products and metabolites. If gut permeability increases abnormally, the epithelial barrier is massively crossed by bacterial products (mainly lipopolysaccharides, peptidoglycans, nucleic acids, flagellin, trimethylamine, ethanol and other volatile organoids, fatty acids, acetaldehyde), with release of P/MAMP in portal blood. This process also induces the release of pro-inflammatory cytokines, eicosanoids, and chemokines from lymphatic cells. As a limiting factor, the gut vascular barrier parallels the epithelial barrier, regulates the rate of transfer into bloodstream, and filters the molecules entering the portal blood, also according to their size. When arrived into the liver, these molecules drive chronic inflammation, fibrogenesis, and carcinogenesis.

113Low-grade inflammation driven by the chronic release of cytokines, acute phase proteins, and adhesion molecules is a feature of NAFLD and especially NASH patients. Innate immunity is involved and the gut microbiota provides inflammatory mediators and metabolites as well.

114Low-grade chronic inflammation contributes to the onset and progression of metabolically driven hepatic diseases from NAFL to NASH to cirrhosis and extrahepatic diseases which include atherosclerosis and cardiovascular complications. Pathways involved include insulin signaling and insulin resistance. Distinct cytokines play either a pro- or anti-inflammatory role. Interleukin 37 (IL-37) protects from metabolic dysfunction as confirmed after bariatric surgery (associated with an increase in subcutaneous adipose tissue IL-37). In transgenic IL-37 (IL-37tg) mice metabolic dysfunction and insulin sensitivity improved in various models of obesity-related disorders.

115The gut microbiota can be involved in the pathogenesis of NAFLD, although a direct effect is still a matter of research due to the complex combination of local and systemic factors. The BMI contributes to shape the gut microbiota and this is pathophysiologically relevant, since NAFLD is very often associated with overweight and obesity. Obesity, metabolic, and liver diseases can develop on the top of anatomical and functional changes of the intestinal barrier. The concept of the intestinal barrier includes the immune barrier, the gut vascular barrier, and the liver barrier with most of the blood flow moving from the intestine to the liver through the portal vein. Immune adaptations at the gut level can disrupt gut permeability promoting bacterial translocation. In addition, specific profiles of the gut microbiome and ongoing dysbiosis can contribute to the inflammatory and fibrosis responses in NAFLD patients.

116Few pre-clinical studies are worth mentioning in this context.

117Germ-free mice receiving microbiota from animals fed a high-fat diet and developing weight gain, hyperglycaemia, and a high plasma concentration of pro-inflammatory cytokines, developed the same features, together with hepatic macrovesicular steatosis. Findings from this study indicate that gut microbiota can promote NAFLD independently from obesity.

118Manipulation of gut microbiota can re-shape the bacterial metabolic signature and function. In the high-fat animal model guar gum changed the gut microbiota composition and decreased diet-induced obesity. Glucose tolerance improved, despite the liver developing more inflammation and fibrosis. A pro-inflammatory role for bacterial-derived secondary BA was important in this context, since chronic oral administration of an antibiotic suppressed gut bacteria, reduced portal secondary BA levels, and decreased liver damage.

119Notably, rats fed a HFD and high glucose/fructose syrup, abbreviated as HFGFD, exhibited NASH, including portal hypertension, which improved after faecal transplantation from a healthy rat.

120Maternal obesity increases the risk for offspring obesity and NAFLD and can disrupt mechanisms of microbial immunity and metabolic function in the infant. Sodeborg et al. performed an animal study in which germ-free mice were colonized with stool microbes from 2-week-old infants born to obese or normal-weight mothers. Mice receiving stools from infants of obese mothers had many abnormalities, including increased hepatic gene expression for endoplasmic reticulum stress and innate immunity, histological periportal inflammation mimicking NAFLD changes, gut permeability increased, and impaired macrophage function was documented by reduced macrophage phagocytosis, and dampened cytokine production. A Western-style diet in these mice was associated with excess weight gain and accelerated NAFLD.

121Clinical studies confirm that gut dysbiosis occurs in NAFLD. In addition, NASH likely brings a peculiar “microbiome signature” promoting disease progression and clinical phenotype.

122Wigg et al. used 14C-D-xylose and lactulose breath test and observed that NASH subjects (N = 22) had small gut bacterial overgrowth and increased circulating endotoxin and TNFa levels, compared to control subjects (N = 23). A metanalysis on 128 NAFLD patients and 83 control subjects confirmed that the gut permeability was abnormal in liver steatosis, and more evident in NASH patients.

123Sung et al. described the case of small gut bacterial overgrowth following jejuno-colic bypass surgery. Dysbiosis was reversed after surgical correction.

124The development of NASH is often associate with small intestinal bacterial overgrowth, a condition characterized by increased expression of TLR4 on CD14 positive monocytes and higher plasma IL-8 levels.

125Several reports have underscored the peculiar signature of gut microbiome in NAFLD/NASH patients when looking at phylum, family, genus, and species. Particularly enriched in NAFLD was the phylum Proteobacteria, the family Lactobacillaceae, the genus Bacteroides, Ruminococcus, Lactobacillus, and the species E. coli. By contrast, decreased in NAFLD was the phylum Actinobacteria, Bacteroidetes, Firmicutes, the genus Oscillobacter, Prevotella, Ruminococcus, Coprococcus, and the species Faecalibacterium prausnitzii.

126Significant differences between obese and NASH patients emerged at phylum level for Proteobacteria, at family level for Enterobacteriaceae, and Escherichia genus.

127Mouzaki et al. found that NASH had a lower rate of Bacteroidetes compared to steatosis and healthy controls. Species within the Oscillobacter genus were lower in NAFLD, whereas Ruminococcus, Blautia, and Dorea were increased in NASH.

128Notably, Bacteroides abundance increased and correlated with histology-proven NAFLD severity, whereas Prevotella abundance was decreased. In addition, Ruminococcus abundance increased in more severe diseases, especially in advanced fibrosis..

129A recent observation confirmed that a circulating microbiome is detectable in blood, as found in central, hepatic, and portal venous blood and peripheral blood from seven liver cirrhosis patients receiving a transjugular portosystemic shunt. Cases showed how dominating Proteobacteria and changes were compartment-specific. Detected bacteria can be viable and potentially bioactive. There was a direct correlation with cytokine levels suggesting that inflammatory changes in liver cirrhosis are an expression of gut-derived bacteria.

130Another study detected changes in blood microbiota associated with liver fibrosis in obese. Although the faecal microbiome was not studied, the analysis of blood microbiota might soon become a potential biomarker for the detection of liver fibrosis in patients at risk.

131In the study by Loomba et al. on biopsy-proven NAFLD, advanced fibrosis was characterized by an increased abundance of Proteobacteria and E. coli and a decrease in Firmicutes. Thus, microbiome markers would point to advanced fibrosis in NAFLD.

132NAFLD cirrhosis was differentiated when including a panel of 27 bacteria.

133Gut dysbiosis in NAFLD can develop irrespective of obesity or insulin resistance since Lactobacillus and Lactobacillaceae were more abundant and Ruminococcus, F. prausnitzii, and Coprococcus were decreased compared to healthy controls. Data on Ruminococcus require further studies since others have reported increases in NAFLD. Notably, probiotic treatment might become a strategy to decrease liver fat in NAFLD. In a placebo-controlled trial of 12 weeks, treatment with Lactobacillus acidophilus, Lacticaseibacillus rhamnosus, Lacticaseibacillus paracasei, Pediococcus pentosaceus, Bifidobacterium lactis, and Levilactobacillus brevis decreased body weight, total body fat, and intrahepatic fat in obese patients. Certain bacteria with rather pro-inflammatory features increase and include Proteobacteria or E. coli, while protective bacteria are decreased and include F. prausnitzii. Bacterial metabolites and microbiota-generated secondary BA contribute to NAFLD-associated metabolic dysfunction.

134The role of bacterial products/metabolites in NAFLD is a matter of ongoing research. In the human body, the gut microbiota is a dynamic source of circulating metabolites which have several protective, anti-inflammatory, or proinflammatory functions. M/PAMPs are produced by the interaction of the microbiota with endogenous and exogenous substances, and include gases, metabolites, and bacterial products.

135Key targets of microbial metabolites are the G protein-coupled receptors (GPCRs) which appear in many cell types and have immune and metabolic functions. Permeation of PAMPs and MAMPs such as LPS, microbial DNA, peptidoglycans and lipopeptides, metabolites, and whole bacteria can bring these products to local MLNs. Here, the clearance can be defective, and this defect contributes to the migration of the agents/bacteria via the mesenteric and portal circulation to the liver. In the liver, the detrimental agents can perpetuate the local damage via activated Kupffer cells. A wider systemic low-grade chronic inflammatory response is also possible.

136PAMPs and TLRs interaction can activate specific intracellular molecular pathways which are MyD88-dependent or MyD88-independent. This step is followed by the activation of NF-κB and several inflammatory cytokines which include TNF-α, IL-1β, IL-6, IL-12, IL-18, chemokines such as CXCL1, CXCL2, CCL2, CCL5, CCL3, CCL4, and vasoactive factors such as nitric oxide (NO). The recruitment of systemic leukocytes, namely CD4+ T cells, neutrophils, and monocytes will promote inflammatory changes, hepatocyte apoptosis and necrosis. Activated and proliferating hepatic stellate cells (HSC) will release transforming growth factor-β (TGFβ) which plays a role in liver fibrosis. Upregulation of the expression of matrix metalloproteinases (MMPs) will promote the destruction of hepatic tissue, and this step is associated with the increased expression of TIMPs (tissue inhibitors of matrix metalloproteinases). TIMPs inhibit the degradation of hepatic collagen fibrogenesis and become predictive markers of NASH, such as TIMP-1. The production of reactive oxygen species (ROS) following the ongoing oxidative stress contributes to liver damage, since hepatocytes become sensitive to oxidative stress-related molecules. The damage also includes liver steatosis, and disruption of the intestinal barrier with negative effect on the gut–liver axis. The abnormal gut redox state can be triggered by factors such as diet, alcohol, infections, primary inflammatory diseases, and drugs. The onset of hypoperfusion-dependent hypoxia in the gut mucosa can increase the activity of xanthine oxidase, ROS release, and therefore oxidative damage. The ROS-induced activation of the TLR of Kupffer cells will also generate ROS, cytokines and chemokines, and the activation/proliferation of hepatic stellate cells (HSC). In this complex inflammatory scenario, protective mechanisms at the gut mucosa include the release of macrophagic IL-10, which contributes to the modulation of the innate immune activation, decreased tissue damage, amelioration of integrity of the intestinal barrier, and decreased endotoxin absorption. A similar effect in the liver contributes to reduced inflammations and fibrosis, and decreased activation of Kupffer cell functions. In addition, NK cells become killers of early activated and senescent HSCs, a step leading to the limitation of fibrogenesis.

137If the intestinal barrier becomes pathologically permeable, several metabolites will enter the portal circulation becoming effectors of liver damage and inflammatory changes by acting on patter-recognition receptors (PRRs) located on the hepatic stellate cells and the macrophagic Kupffer cells. Endotoxins will interact with liver TLR4, TLR9 by methylated DNA and TLR2 by Gram-positive bacteria, and this step is the first step of innate immune response. Activated hepatic stellate cells promote fibrosis via TLR4 signaling that downregulates BMP and activin membrane-bound inhibitor homologue defined as BAMBI, a decoy receptor for transforming growth factor-β (TGFβ). Additional inflammatory events include the activation of nuclear factor- χB (NF-χB) by the myeloid differentiation primary response protein (MYD88) and enhanced expression of hepatic tumour-necrosis factor (TNF)-alpha. These responses contribute to NASH progression. Contributing factors of liver damage include the release of inflammatory cytokines, oxidative stress, and endoplasmic reticulum stress. Animal studies show that diets enriched in fat or deficient in choline drive steatogenic, inflammatory, and fibrogenic responses via TLR-4 or TLR-9.

138The combination of dysbiosis (meaning changes of quality and/or quantity and/or topographic distribution of the microbiota) and increased gut permeability promotes the release of MAMPs and PAMPs, such as LPS, or by products of their metabolism such as ethanol, SCFAs, and trimethylamine, which are transported through the portal vein. This flow contributes to about 70% of the blood entering the liver, and the transport of toxic molecules can ultimately cause liver damage. LPS will activate the cell toll-like receptor 4 of both Kupffer cells and hepatic stellate cells. Kupffer cells mainly reside in the lumen of hepatic sinusoids as 80% to 90% of colonized macrophages in the human body. These phagocytic cells play a crucial role in regulating and maintaining homeostasis and upon liver damage and activation will release inflammatory cytokines and chemokines.

139In animal studies, rats injected with LPS develop steatohepatitis, while anti-tumour necrosis factor antibodies improve the steatosis. Genetically obese mice show increased gut permeability which promotes the increased portal endotoxemia. Obesity-induced leptin is involved in NASH progression via enhanced responsivity to bacteria-derived endotoxins.

140Mice receiving a high-fat diet (HFD) develop steatosis and accelerated NASH progression with liver inflammation and fibrosis and upregulation of CD14 in Kupffer cells and hyperreactivity against low-dose LPS. Chow-fed control mice did not have a similar effect and leptin increased hepatic expression of CD14 via STAT3 signaling and hyperreactivity against low-dose LPS without steatosis, while leptin-deficient ob/ob mice with severe steatosis had a marked decrease in hepatic CD14.

141Studies in mice investigated the role of innate immunity inflammasomes NLRP6 and NLRP3, protein IL-18 in relation to gut microbiota and NAFLD/NASH progression. The gut microbiota profile changed with the inflammasome deficiency while hepatic steatosis and inflammation worsened. TLR4 and TLR9 agonists migrated into the portal circulation and this influx increases hepatic tumour-necrosis factor (TNF)-alpha expression and facilitates the progression of NASH. The findings suggest that upon defective NLRP3 and NLRP6 inflammasome sensing, the microbiome will connect changes related to systemic auto-inflammatory and metabolic disorders. An association exists between NAFLD, small intestinal bacterial overgrowth, and increased endotoxemia when gut dysbiosis becomes small intestinal bacterial overgrowth. Indeed, the prevalence of small intestinal bacterial overgrowth was higher in NAFLD/NASH patients than healthy controls.

142The role of specific bacterial species must be considered as well in patients with liver damage. The gut microbiota plays a role in the evolution from NAFLD to NASH. In NAFLD, disease-specific gut microbiome signature exists with pro-inflammatory bacteria present. Protective bacteria are decreased, and the gut microbiota is involved in this process. A gut microbiota signature exists in obesity and NAFLD. This imbalance causes the dismission of many bacterial metabolites, the generation of bacteria-dependent secondary BA involved in NAFLD metabolic dysfunction..

143In NAFLD with advanced fibrosis, patients show increased abundance of E. coli and Bacteriodes vulgatus. NASH obese children have greater abundance of the genus Escherichia. Dietary factors can re-shape the gut microbiota in NAFLD since a Western diet enriched in fat, proteins of animal origin and simple sugars will increase the abundance of Bacteroides. A diet rich in fiber and indigestible plant polysaccharides will increase Prevotella abundance. This shift of microbiota is of interest since Bacteroides genus correlates with NASH while Prevotella abundance decreased in NASH. In humans, Ruminococcus genus abundance increases with significant liver fibrosis meaning a score ≥F2 and in the animal model Ruminococcus genus correlates with the development of metabolic impairment.

144Changes of gut microbiota also occur in conditions related to NAFLD which represents the hepatic expression of the metabolic syndrome. Obese individuals display increased Firmicutes/Bacteroidetes ratio compared to lean subjects on the same diet. Patients with metabolic disorders including diabetes mellitus and cardiovascular risk display serum microbiota dysbiosis on atherothrombotic disease. In another study on 3280 participants without diabetes or obesity at baseline, the 16S rDNA concentration was higher in those destined to have diabetes and in those who had abdominal adiposity at the end of 9-year follow-up. The core blood microbiota consisted mostly of the Proteobacteria phylum (85–90%), suggesting that tissue bacteria are involved in the onset of diabetes in humans.

145Patients with liver fibrosis ad obesity show specific differences in the proportion of several bacterial taxa, as detected by both faecal microbiota and blood microbiome profiles, which correlate with the presence of liver fibrosis.

146In a Korean series, NAFLD patients showed different bacterial community and reduced diversity, as compared with controls. Further differences were noticed in terms of gut microbiota and serum microbiome profile, when lean and obese NAFLD subjects were compared. Different features (i.e., in lean NAFLD: decreased Desulfovibrionaceae, with an opposite trend in blood Succinivibrionaceae; in obese NAFLD: gut and blood Leuconostocaceae) might therefore become potential biomarkers to discriminate diverse NAFLD phenotypes.

147Members of Firmicutes were decreased in abundance in NAFLD.

148In patients with histology-proven NAFLD (n = 57), the increase in Bacteroides genus count was linked with a twofold increase in NASH, and an elevated Ruminococcus count was associated with a twofold increase in stage 2 or greater fibrosis,. As compared with healthy subjects, subjects with NAFLD have been reported as having a lower percentage of species Bacteroidetes and higher levels of Porphyromonas and Prevotella.

149In the enterohepatic circulation, BA undergoes biotransformation to secondary BA by the resident colonic microbiota. As mentioned earlier, a fat-enriched diet can re-shape the gut mucus layer predisposing to dysbiosis. In this environment, the increased deconjugation of BAs can explain the hepatocellular injury induced by more cytotoxic secondary BA and inactivation of hepatic lipotropes including choline. Of note, a choline-deficient diet in the rat induces NAFLD. A direct activation of NLRP3 inflammasome by BA promotes liver inflammation or fibrosis. C57BL/6 wild-type (WT) and Nlrp3−/− mice fed with a diet supplemented with cholic (CA), deoxycholic (DCA) or lithocholic acid (LCA) for 7 days showed activation of NLRP3 inflammasome. LCA mainly affected ex vivo Kuppfer cells, leading to a pro-inflammatory condition, with liver damage improved in Nlrp3-deficient mice or cells. Liver fibrosis was promoted by DCA feeding, with an upregulation in NLRP3 in primary hepatic stellate cells. These signals, however, were decreased in Nlrp3−/− mice or cells.

150The NAFLD spectrum encompasses liver cirrhosis, which is characterized by more abundant genus level, Bacteroides, Streptococcus, Ruminococcus, Klebsiella, Prevotella, Enterococcus, Haemophilus, Lactobacillus, Pseudomonas, Phascolarctobacterium, Veillonella, Atopobium, Parabacteroides, Dialister, Christensenella, and decreased Methanobrevibacter and Akkermansia. To what extent dysbiosis depends on early metabolic changes or late complications of disease, is still a matter of debate.

151Additional aspects depending on alcohol effect on the intestine require attention in the following context. The metabolism of alcohol in the body is mainly based on dietary ethanol which is able to cross the gastrointestinal mucosa in the stomach (~20%) and small intestine (~70%) by simple diffusion. In the liver, ethanol is transformed into acetaldehyde (by the alcohol dehydrogenase), and to acetate (by the acetaldehyde dehydrogenase). Notably, the gut microbiota and enterocytes are equipped with alcohol-metabolizing enzymes which contribute to enriching the pool of gut alcohol with a small amount and as a product of luminal microbial fermentation. Evidence in the animal models and human studies point to a role for both exogenous and endogenous ethanol at the gut and hepatic level. The damage can range from dysbiosis to gut dysmotility, mucosal damage and inflammation extending to chronic systemic low-grade inflammation. Altogether, changes can contribute to an increase in gut permeability. In addition, gut-derived alcohol may contribute to fatty liver disease.

152In the Caco2 cellular model ethanol and acetaldehyde can damage the gut TJs (zonulin 1 and occludin). In biopsies of human colonic mucosa, acetaldehyde induced tyrosine phosphorylation and disrupted tight junction and adherens junction, and the effect was prevented by EGF and glutamine. In another study using Caco2 cell cultures, the EGF-mediated protection of tight junctions from acetaldehyde required the activity of ERK1/2 but was independent from p38 MAPK or JNK1/2.

153Alcohol-fed mice developed bacterial overgrowth and enteric dysbiosis testified by the relative abundance of Bacteroidetes and Verrucomicrobia bacteria, compared with control mice which hosted a relative predominance of Firmicutes bacteria. In addition, alcohol feeding was associated with down-regulation in gene and protein expression of bactericidal c-type lectins Reg3b and Reg3g in the small intestine. Notably, treatment with prebiotics partially restored Reg3g protein levels, reduced bacterial overgrowth, and decreased alcoholic steatohepatitis. The role of mucin within the intestinal barrier in relation to the effect of ethanol should not be neglected. In the Tsukamoto-French method for alcohol-induced liver disease obtained by continuous intragastric feeding of an isocaloric diet or alcohol, Muc2(-/-) mice showed less alcohol-induced liver injury, steatosis, plasma lipopolysaccharide than the wild-type mice. Muc2(-/-) mice were protected from alcohol-associated dysbiosis and had higher expression of jejunal antimicrobial proteins regenerating islet-derived 3 beta and gamma. This study shows that Muc2(-/-) mice are protected from gut bacterial overgrowth and dysbiosis in response to alcohol feeding. As anticipated, lower amounts of bacterial products such as endotoxin translocate into the systemic circulation, decreasing liver disease. In another study using the Tsukamoto-French method for alcohol-induced liver disease, alcohol caused gut dysbiosis, reducing the capacity of the microbiome to synthesize saturated LCFA and the proportion of Lactobacillus species. Germ-free mice have increased hepatic expression of ethanol-metabolizing genes and exacerbation in hepatic steatosis. Xie et al. performed a detailed metabolomic study on rats that were fed for 8 weeks with ethanol. Ethanol consumption was associated with altered BA, increased fatty acids and steroids, decreased carnitines and metabolites involved in lipid metabolism, a significant decrease of all amino acids and branched chain amino acids, and significantly decreased SCFA (except for elevated acetic acid, as a product of ethanol metabolism). In a previous study on ob/ob mice, breath ethanol decreased with a course of non-absorbable antibiotics, suggesting that the ethanol is derived from gut bacterial flora. In another study, breath was collected from genetically obese, ob/ob male C57BL/6 mice and lean male littermates at different ages (14, 20, and 24 weeks). Even in the absence of ethanol ingestion, ethanol was detected in exhaled breath and in obesity, an age-related increase in breath ethanol content likely reflected increased production of ethanol by the gut microflora and contribute to the genesis of obesity-related fatty liver. Increased endogenous ethanol production occurs in animals with gut blind-loops.

154Evidence points to the effect of alcohol metabolism also in the human model. Humans display high concentrations of endogenous alcohol production. Patients who were obese were more likely to have higher breath ethanol concentrations, suggesting that gut-derived ethanol may contribute to the pathogenesis of NASH.

155In humans, antigens derived from lipid peroxidation in alcoholics contribute to the development of the host inflammatory immune responses associated with alcoholic liver disease. Studies on metabolomic analysis of faecal volatile organic compounds (VOC) demonstrate that alcoholics show distinct profiles compared to non-alcoholic individuals, which include increased oxidative stress biomarker tetradecane, decreased fatty alcohols with antioxidant property and decreased SCFA propionate and isobutyrate (which contribute to gut epithelial cell health and barrier integrity). In addition, in faecal samples from alcoholics decreased caryophyllene (natural suppressant in alcohol consumption), camphene (natural product and hepatic steatosis attenuator), and dimethyl disulfide and dimethyl trisulfide (two microbial products of decomposition) were reported.

156Obese females with Candida albicans overgrowth have increased breath alcohol levels after a carbohydrate load. Colonic bacteria and yeast are able to produce both ethanol and acetaldehyde. The microbiota oxidizes low concentrations of ethanol to high concentrations of acetaldehyde which is absorbed into the portal blood stream. These pathways promote endotoxin-induced activation of Kupffer’s cells and therefore initiate histological changes similar to those occurring in NAFLD. Proteobacteria such as Enterobacteriaceae can ferment carbohydrates to considerable concentration of ethanol, and in children the abundance of Proteobacteria, Enterobacteriaceae and Escherichia correlates with liver inflammation (NASH) and serum levels of alcohol. Fasting ethanol levels were significantly higher in children with NAFLD than in controls and were positively associated with insulin resistance. Beside the increased synthesis of endogenous ethanol, the increased blood ethanol levels in NAFLD patients can also depend on insulin-dependent impairments of ADH activity in liver tissue. Bacteria of the genus Ruminococcus, also part of the “core gut microbiome” found in 90% of humans, ferment complex carbohydrates such as cellulose with production of ethanol. Non-alcoholic and alcoholic liver disease show increased luminal and circulating levels of ethanol, acetaldehyde and acetate, and metabolites are independently associated with liver damage. Notably, increased ethanol and metabolite production will activate metabolic pathways and oxidative stress in the liver, contributing to the pathogenesis of NASH.

157Bile and pancreatic fluid shape the gut microbiota. Gut dysbiosis and survival develop in the absence of antimicrobial secretion by acinar cells. Indeed, deletion of Orai1 in pancreatic acinar cells of adult mice was associated with high mortality as a result of severe gut bacterial outgrowth with dysbiosis, in spite of an intact and fully activated gut innate immune response. In the gut, the secondary BA interact with various nuclear receptors such as FXR, TGR5, pregnane X receptor, or vitamin D receptor. Drugs participate in this scenario since metformin decreases Bacteroides fragilis while increasing the murine BA glycoursodeoxycholic acid (GUDCA). This effect, in turn, inhibits the gut FXR activation explaining some metabolic benefits.

158In rodents, the postoperative bile diversion improvement in glycemia (but not changes in body weight or food intake) required FXR-Glp-1 axis activation and was associated with an increase in gut A. muciniphila. BA changes after bariatric surgery by laparoscopic adjustable gastric banding promote metabolic benefits through increased conjugated and secondary BA (3 months after surgery with only glycolithocholic acid sulfate significantly elevated even after 1 year. GLP-1 and fibroblast growth factor 19 (FGF-19) levels also correlated with BA levels. FXR stimulation by specific BA could become a therapeutic strategy for NAFLD.

159The gut microbiome contributes to the final proportional profile of BA in terms of primary, secondary, and tertiary BAs. The colonic biotransformation of the primary BAs to the secondary BAs includes deconjugation, oxidation of hydroxyl groups in 3, 7 and 12 positions, and 7-dehydroxylation. During the process of the enterohepatic circulation BA and gut bacteria share a bidirectional crosstalk. The secondary DCA has antimicrobial properties due to the detergent effects on bacterial cell membranes. This feature can influence the bacteria integrity and contributes to shaping microbial populations. Activation of the gut FXR by BA will promote the synthesis of peptides with antimicrobial effect (AMPs) such as angiogenin 1, RNAase family member 4. This effect has preventive action on intestinal barrier disruption. Modification of the characteristics of the BA pool can promote FXR-dependent effect on intestinal barrier and inflammation, metabolic pathways, and carcinogenic effects. FXR-deficient mice do not develop diet-induced obesity, and mechanisms likely include changes of gut FXR and microbiome. Obstructed bile flow predisposes to gut bacterial overgrowth and translocations, while oral administration of BAs in the mouse model can reverse this condition. The FXR-induced gene expression might modulate this pathway associated with the enteral protection and the inhibition of bacteria damage to the gut mucosa.

160With NAFLD, several changes point to a role for gut microbiota, BA profile, intestine and liver damage. An early study found that biopsy-proven NASH patients had higher fasting and post-prandial exposure to BA, which include the more hydrophobic and cytotoxic secondary species. Increased bile acid exposure can promote liver injury of NAFLD and NASH.

161In a comprehensive study in NAFLD individuals and high-fat fed rats, Jao et al. demonstrated that NAFLD was associated with increased serum concentrations of primary and secondary BA. The FXR antagonistic DCA was increased while the agonistic CDCA was decreased in parallel with reduced serum FGF19 pointing to impaired FXR and fibroblast growth factor receptor 4 (FGFR4)-mediated signaling. In addition, taurine and glycine metabolising bacteria were increased in the gut of NAFLD patients, reflecting increased secondary BA production. Mouzaki et al. found that, compared to the control, NASH patients had increased levels of total faecal BA, CA, CDCA, and BA synthesis and a higher primary to secondary BA ratio. Bacteroidetes and Clostridium leptum counts were decreased in a subset of NASH patients suggesting that, in NAFLD, dysbiosis is associated with altered BA homeostasis and an increased risk of hepatic injury. Additional evidence shows that an abundance of DCA-producing bacteria can explain the DCA-dependent suppression of FXR- and FGFR4-mediated signaling. In this respect, the expression of gut FXR decreases in mice on a high-fiber diet, and obeticholic acid restores the integrity of the gut vascular barrier and reduces the portal influx of PAMP to the liver.

162SCFAs are produced during the degradation (fermentation) of nondigestible nutritional fibers by bacteria and include propionate (C3), butyrate (C4), and acetate (C2). SCFAs provide an energy source to enterocytes, contribute to faecal acidification, and have a variety of anti-inflammatory properties in immune cells (T cells, regulatory T cells (Tregs), neutrophils, and macrophages) where they control migration, cytolytic activity, cytokine production, microbicidal activity, and epigenetic regulation of gene expression.

163SCFAs are greatly produced by gut microbiota, providing an energetic substrate for colon cells, contributing to an adequate efficiency of the intestinal barrier and modulating inflammation processes and satiety. A rise in acetate levels might indicate increased production and liver metabolism of endogenous ethanol by intestinal microbiota. On the other hand, reduced butyrate levels might indicate altered tight junctions and increased intestinal permeability. In this respect, the administration of tributyrin (the glycerol ester providing butyrate) is able to improve gut permeability and to reduce liver injury in mice fed on an alcohol-enriched diet.

164In mice, faecal SCFA correlate inversely with the presence of Bacteroides and positively with Alistipes, Barnesiella, and Prevotella.

165Propionate is a ligand of Gpr41 and GPR41 knockout mice fed on a high-fat diet; male mice increased body fat content. These results suggest that gut-derived SCFA may raise energy expenditure and help to protect against obesity by activating GPR41. Among the beneficial effects on metabolism, SCFA can promote gluconeogenesis and lipogenesis. Beneficial effects in liver steatosis have been documented in the animal model. Butyrate counteracts the HFD-induced obesity and insulin resistance. Inhibition of histone deacetylases (HDACs) by SCFA also promotes regulatory T cells and reduces insulin resistance.

166The gut L cells and enterocytes produce the fasting-induced adipocyte factor (Fiaf), a member of the angiopoietin-like family of proteins. Fiaf is a circulating lipoprotein lipase inhibitor, but microbial suppression of Fiaf in the gut epithelium will increase the microbiota-induced deposition of triglycerides in adipocytes, via increased lipoprotein lipase (LPL) activity in adipocytes. The microbiota in the intestine is involved in the processing of dietary polysaccharides and increased hepatic lipogenesis (by activation of the carbohydrate responsive element-binding protein (ChREBP) and the sterol regulatory element-binding protein-1 (SREB-1)). These microbiota-dependent steps coordinate increased hepatic lipogenesis and triglyceride storage in adipocytes, a benefit that becomes detrimental in Westernized societies and obesogenic (hypercaloric) environments.

167Phosphatidylcholine, choline, and carnitine are abundant in meat, eggs, and high-fat diets. The essential macronutrient choline is metabolized in lecithin and contributes to the hepatic assembly of very-low density lipoprotein (VLDL), and to their excretion by the liver, thus preventing triglyceride accumulation and the subsequent onset of liver steatosis. In fact, mice fed a choline-deficient diet develop oxidative stress and liver steatosis. Choline is also used by gut microbiota to synthetize trimethylamine (TMA), which is subsequently converted to TMA-N-oxide (TMAO) by the liver enzyme flavin-containing monooxygenase 3 (FMO3). Gut bacteria of taxa Erysipelotrichia produce TMA following choline metabolization, thus decreasing the bioavailability of this macronutrient and increasing the portal influx of TMA and its conversion to trimethylamine N-oxide (TMAO). This small metabolite is associated with atherosclerosis and cardiovascular complications, including myocardial infarction and stroke. In addition, increased TMAO levels correlate with the presence of type 2 diabetes mellitus, glycemic control in type 2 diabetes mellitus, its complications, and steatogenic effects.

168Suppressing the gut microbiota in atherosclerosis-prone mice inhibited dietary-choline-enhanced atherosclerosis, whereas NAFLD patients show increased gut metabolism of choline, choline deficiency, and abundance of Erysipelotrichia taxa.

169A study focusing on gut microbiome and hepatic transcriptome found decreased microbial gene richness associated with increased branched chain amino acids (BCAA). Actinobacteria, Proteobacteria, and Verrucomicrobia occurrence was increased, and phenylacetate, one bacteria-derived metabolite, was highly associated with steatosis. At a pathophysiological level, the mechanisms involved are of interest, since phenylacetate is a metabolite of essential amino acids such as phenylalanine and tyrosine, and likely enhances hepatic lipid accumulation via increased BCAA utilization, while promoting hepatic steatosis in mice.

170Imidazole propionate is a gut microbial product from histidine, regulating insulin signaling without the involvement of immune or inflammatory changes. Type 2 diabetes mellitus patients display higher circulating levels of Imidazole propionate which interacts with insulin signaling by the activation of p38g MAPK, phosphorylation of p62, and ultimately activation of mechanistic target of rapamycin (mTORC1).

171The presence of gut Firmicutes, Bacteroidetes, and Proteobacteria correlate with metabolites such as 3-(4-hydroxyphenyl) lactate and hepatic fibrosis. Other microbiome-derived metabolites from branched-chain and aromatic amino acid can also play a role in NAFLD. Phenylacetic acid and 3-(4-hydroxyphenyl)-lactate can be related to insulin resistance. Obese, non-diabetic steatotic patients show low microbial gene richness and increased microbial genetic potential for processing dietary lipids and endotoxin biosynthesis from Proteobacteria. Both aromatic and branched-chain amino acid metabolism are dysregulated.

172Animal studies point to a role for abnormal gut permeability in NAFLD. Steatotic mice develop endotoxin, triggering liver inflammation. Obese mice, such as C57BL/6Job/ob genetically leptin deficient and C57BL/6Jdb/db functionally deficient for the long-form leptin receptor, have increased epithelial permeability to horseradish peroxidase. Compared to control mice, both groups of obese mice showed abnormal distribution of ZO-1 and Occludin TJ proteins, increased circulating levels of endotoxin in portal circulation and levels of circulating proinflammatory cytokines (IL-1, IL-6, INF-γ, and TNF-α). In the liver, HSC were activated with enhanced sensitivity to LPS and increased levels of cytokines. The murine gene F11r encodes the junctional adhesion molecule A (JAM-A), a constituent of the TJs which regulates permeability and inflammation. Notably, F11r−/− mice fed a high-saturated fat, -fructose, and -cholesterol steatogenic diet for 8 weeks developed severe steatohepatitis (hepatocyte ballooning and inflammatory cells infiltration), fibrogenesis, and increased in serum transaminases, compared with control animals. Gut inflammation exacerbates liver injury and fibrosis in HFD mice and contributes to the development of NASH. Abnormalities include damaged gut epithelial barrier, gut vascular barrier disruption with bacterial translocation towards lymph nodes and even the liver. In C57BL/6 mice fed a high-fat diet (HFD) for 12 weeks, gut inflammation and gut vascular barrier dysfunction induced by dextran sulfate sodium (DSS) was associated with liver fat vacuoles and leukocyte infiltration, increased levels of hepatic mRNA coding for inflammatory cytokines (IL-1, IL-6, TNF-α, MCP-1), higher expression of collagen I and profibrogenic factors mRNA (TGF-β, Actin α2, tissue inhibitor of metalloproteinase-1 and plasminogen activator inhibitor-1). The study documented upregulation of TLR4 and TLR 9, downregulation of ZO-1 and Claudin-1, and increased expression of PV1. Changes were more evident than those observed in HFD-fed mice..

173Human studies point to a role for increased gut permeability and liver damage, as shown in NAFLD patients. Luther et al. performed a metanalysis to compare the rates of increased gut permeability in patients with NASH and healthy controls and studied changes in gut permeability in a diet-induced (methionine-and-choline-deficient) murine model of NASH. The effect of methionine-and-choline-deficient culture medium was studied on hepatocytes, Kupffer cells, and gut epithelial cells. This study confirms that NAFLD/NASH patients are more likely to have increased gut permeability compared with healthy controls. In addition, mice and cellular experiments point to an early phase of hepatic injury and inflammation contributing to altered gut permeability in a TNFa- and myosin light-chain kinase (MLCK)-independent fashion. NAFLD patients can show small intestinal bacterial overgrowth and dysbiosis, and the ongoing abnormal gut permeability acts as a factor leading to liver inflammation and fibrosis. Additional factors include disrupted TJs and small intestinal bacterial overgrowth in NAFLD patients. A previous trial compared 22 biopsy-proven NASH patients with 23 controls subjects and assessed gut overgrowth by (14)C-D-xylose and lactulose breath test, gut permeability by a dual lactulose-rhamnose sugar test, serum endotoxin levels by limulus amoebocyte lysate assay, and TNF-alpha levels by ELISA. Small intestinal bacterial overgrowth occurred in 50% of patients and 22% of controls (p = 0.048), gut permeability and serum endotoxin levels were similar between the two groups, but the endotoxin assay confirmed significantly higher TNF-α levels in patients than controls (14.2 and 7.5 pg/mL, respectively, p = 0.001). Another study investigated small intestinal bacterial overgrowth (by glucose hydrogen breath test), gut permeability (by urinary excretion of (51)Cr-ethylene diamine tetraacetate ((51)Cr-EDTA), and immunohistochemical analysis of zona occludens-1 (ZO-1) expression in duodenal biopsy specimens as a marker of the integrity of TJs in patients with biopsy-proven NAFLD (n = 35), patients with untreated celiac disease (n = 27) and healthy subjects (n = 24). Notably, orally administered 51Cr-EDTA is not metabolized and is poorly absorbed (1%-3%) from the gastrointestinal tract, but with TJs disruption 51Cr-EDTA crosses the intestinal barrier through the paracellular pathway. NAFLD patients had significantly increased gut permeability and three times the small intestinal bacterial overgrowth compared to control. 51Cr-EDTA excretion levels and small intestinal bacterial overgrowth prevalence increased with the degree of liver steatosis. At histology, NAFLD patients had reduced duodenal ZO-1 expression. Increased gut permeability and small intestinal bacterial overgrowth were independent with the severity of liver inflammation, fibrosis, and NASH. NALFD children had increased gut permeability as confirmed by urinary excretion of orally administered lactulose and mannitol (L/M ratio). L/M ratio further increased in NASH patients. The increased LPS is a marker of bacterial translocation while the extent of hepatic inflammation and fibrosis is proportional to the degree of gut permeability. As compared with healthy controls, children with mild NAFLD (simple steatosis grade 1) show higher serum levels of alanine aminotransferase, inflammatory markers and insulin resistance. NAFLD children also showed higher levels of plasma bacterial endotoxin (+50%) and lipopolysaccharide-binding protein (LBP, +24%). Results from the cited study also revealed a positive association between plasma endotoxin/LBP levels and the proinflammatory markers plasminogen activator inhibitor-1, c-reactive protein, interleukin-6 and leptin, with no effects from the extent of insulin resistance. These data point to the possibility of an alter intestinal barrier already present in the early phase of pediatric NAFLD.

174The homeostatic mechanisms responsible for normal intestinal permeability can be altered in the presence of diffused liver diseases as cirrhosis and NAFLD.

175In a recent study, we assessed urine recovery of orally administered sucrose, lactulose/mannitol, and sucralose by triple quadrupole mass-spectrometry and high-performance liquid chromatography. Increased colonic (but not stomach and small gut) permeability occurred in obesity and liver steatosis, regardless dietary habits, age, and physical activity. A summary of key events involved in the progression of changes in the gut and the liver with ongoing nonalcoholic fatty liver disease are depicted in Figure 2.

176The gut surface is exposed to the external environment and consists of a complex anatomical and functional structure encompassing the intestinal barrier. In health and disease, nutrients and metabolites interact with the gut microbiota, mucin, motility and secretions, enterocytes and junctions, immune responses, and the vascular and hepatic barrier to control and prevent the abnormal translocation and permeability of bacteria, bacterial products, and metabolites. The gut microbiota can be re-shaped by exogenous and endogenous actors and events and display a rather specific signature. The increased expression of Gram-negative bacteria such as Enterobacteria, E. coli, and Proteobacteria can elaborate a pro-inflammatory phenotype which includes the endotoxin. The gut–liver interaction drives changes bidirectionally, and factors include BA, immunity, and gut permeability as well. Mechanisms of gut permeability can be disrupted in frequent conditions including obesity and the metabolically associated liver steatosis (nonalcoholic fatty liver disease, NAFLD) (Figure 3). Consequences of impaired gut permeability represent predisposing or aggravating factors in both obesity and NAFLD. There is evidence that the close crosstalk between the gut and microbiome is essential in keeping health and can be involved in diseases, including metabolic disorders.