Gut Microbiota and Dysbiosis in Alzheimer’s Disease: Implications for Pathogenesis and Treatment

1Alzheimer’s disease (AD) is a progressive neurodegenerative disorder of the central nervous system (CNS) characteristic of gradual cognitive decline. The presence of extracellular amyloid-beta (Aβ) deposition as neuritic plaques and intracellular accumulation of hyperphosphorylated tau as neurofibrillary tangles (NFTs) remain the primary neuropathological criteria for AD diagnosis. As the most prevalent form of dementia, AD has emerged as a global public health priority affecting an estimated total of 50 million people worldwide. The consistently growing prevalence and the heavy burden of AD render it more urgent than ever for researchers to dissect the mechanisms underlying the pathogenesis of AD and to seek disease-modifying therapies (Fig. 1).

2Since it was first proposed by Hardy and Higgins in 1992, the amyloid cascade hypothesis has been the dominant theory of AD pathogenesis which holds that the accumulation of Aβ peptides derived from amyloid precursor protein (APP) is the initial event of AD pathogenesis. Over the ensuing decades, this hypothesis has evolved from a neuron-centric linear cascade, which postulates that Aβ results in hyperphosphorylated tau and neurodegeneration, to an integrative model that also involves feedback and feedforward responses of impaired vasculature, oxidative stress (OS), microgliosis, and dysregulation of neuronal proteolysis. Extensive research suggests that aggregated, hyperphosphorylated forms of tau may also lead to synaptic communication disturbance as well as neuronal death. Although candidate drugs that affect the formation, aggregation, and clearance of Aβ and tau have yielded encouraging results in some preclinical trials, none have progressed to the clinical stage.

3Mounting evidence suggests that neuroinflammation is not just a consequence but a vital contributor to the development and progression of AD. As such, the “inflammation hypothesis” is emerging as a surrogate mechanism of AD (Fig. 1). In this scenario, synaptic impairment and neuronal death are at least partially mediated by excessive or non-resolving innate immune activation. Extrinsic factors like infections and traumatic brain injury (TBI) can possibly interfere with the central immune homeostasis and accelerate disease progression. The “inflammation hypothesis” was fueled by the discovery of inflammation susceptibility genes (e.g., CD33, TREM2) for AD through large-scale genome-wide association studies.

4Extensive research argues mitochondrial dysfunction, insulin resistance (IR), and cerebral hypoperfusion may mediate, drive, or possibly even initiate pathologic molecular cascades in AD and finally promote Aβ accumulation, tau hyperphosphorylation, synaptic degeneration, and neuronal dysfunction. However, current hypotheses in this regard are unable to satisfactorily explain the etiology and underlying pathophysiological mechanisms of AD. In recent years, the microbiota-gut-brain axis has emerged as a focal point of biomedical research and a potential therapeutic target for the treatment of CNS disorders. In particular, dysfunction of the microbiota-gut-brain axis has been implicated in the pathogenesis of AD. In this review, we will summarize the knowledge on the characteristics of the gut microbiota and the communication pathways of the microbiota-gut-brain axis, analyze the role of dysbiosis of the gut microbiota in the pathogenesis of AD, and highlight the modification of gut microbiota composition as a preventive or therapeutic approach for AD.

5The human gut is an anaerobic bioreactor with a diverse population of microorganisms, including bacteria, yeast, archaea, viruses, protozoa, and parasites such as helminths, collectively known as microbiota, which occupy different niches of the mucosal surfaces in the gastrointestinal (GI) tract. The application of DNA sequencing and metagenomic and metabolomic analysis technologies has reshaped our view of human gut flora and provided new insights into the characterization of microbiota and its intricate interplay with human health [18]. The microorganisms residing in the gut make up the vast majority of the human microbial population, including at least 1000 different bacterial species and approximately 150 times as many genes as in the human genome. The distinct microenvironment of each gut compartment selects the growth of specific microbiota, with the distal gut being the predominant habitat of the gut microbial community. Firmicutes and Bacteroidetes constitute the most abundant phyla in human intestinal microbiota. Initial colonization of the GI tract by gut microbiota is thought to commence at birth when the infant becomes exposed to maternal microbiota and other environmental factors during birth. Importantly, the gut microbiota of vaginally born infants closely resembles the microbial compositions of the mothers’ vagina, while newborns delivered via cesarean section are enriched with microbes found on human skin and in the surrounding environment. Gut microbiota composition exhibits a large interindividual variability and heterogeneity that may be explained by an influence of both extrinsic, e.g., diet, antibiotics, lifestyle, and disease, and intrinsic factors, e.g., genetics. The diverse commensal microbiota undergoes dynamic changes throughout life, as is evidenced by the fact that the number of species and the richness of gut microbiota composition decline prominently with age. Intestinal microbiota is proposed as an essential “organ” which imparts substantial physiological functions related to innate immunity, appetite, and energy metabolism locally and systematically [16, ]. Abnormal changes in the composition of gut flora, a phenomenon known as dysbiosis, is also directly involved in the pathophysiology of diseases affecting several distant organs. Gut dysbiosis may be associated with pathologies such as asthma, cardiovascular disease, type 2 diabetes mellitus (T2DM), renal failure, and sarcopenia.

6The term “microbiota-gut-brain axis” broadened from “gut-brain axis” indicates the significant role of gut microbiota in modulating brain function. Albeit nascent in terms of the delineation of the mode of communication between gut microbiota and the brain, research using germ-free (GF) mice, antibiotic treatments, and prebiotic/probiotic complementation has provided persuasive evidence for several major potential pathways underlying the two-way communications between the GI tract and the CNS. At least five separate lines of evidence converged to support the hypothesis that gut microbiota can effectively communicate with the brain. First, it has long been known that a clinical situation, i.e., hepatic encephalopathy, is associated with gut dysbiosis and can be broadly treated by targeting the microbiota with antibiotics in humans; second, studies in GF animals showed that the brain function is affected by the absence of microbiota; third, low-level infections alter the behaviors of animals and humans even in the absence of immune activation; fourth, specific strains of exogenous bacteria alter the behaviors of animals and humans; and finally, antibiotic administration has long-lasting effects on the nervous system. In this section, we will summarize the updated knowledge on role of the microbiota-gut-brain axis in health and disease from the perspective of metabolites, endocrine regulation (the hypothalamic-pituitary-adrenal [HPA] axis), neural transmission, and immunomodulation (Fig. 2).

7The ability of bacteria to produce bioactive products provides a mechanistic basis to understand the role of gut microbiota in modulating central physiological and pathological processes. Moreover, the emerging notion that the interplay between bacterial products and the brain can modulate behavior is intriguing. Different bacterial genera and species produce gamma-amino butyric acid (GABA), serotonin (5-HT), histamine, and dopamine (Table 1), which are all involved in a range of mood-related, behavioral, and cognitive functions as neurotransmitters or neurotransmitter precursors. During metabolism, the host and its gut microbiota coproduce a spectrum of metabolites, such as short-chain fatty acids (SCFAs), that are essential for host health. SCFAs, which mainly consist of acetate, propionate, and butyrate, function through either G protein coupled receptors or histone deacetylases. Such microbial products are active mediators of gut-brain communication and may serve as potential therapeutic targets for neurodevelopmental and neurodegenerative disorders.

8The HPA axis, as one of the main neuroendocrine systems in the human body, is a principal regulator of the response to stress. In a pioneering study linking gut microbiota to the HPA axis, plasma adrenocorticotropic hormone and/or corticosterone elevation in response to restraint stress was more remarkable in adult GF mice than in specific-pathogen-free (SPF) mice (with a normal composition of microbiota and no specific pathogens). The exaggerated stress response in GF mice could be partially reversed at 9 weeks of age by reconstitution with feces from the control mice. Paradoxically, reduced anxiety-like behavior and central neurochemical change were observed in GF mice as compared to SPF mice. Significant decrease in N-methyl-D-aspartate receptor subunit NR2B mRNA expression in the central amygdala and 5-hydroxytryptamine 1A receptor mRNA expression in the dentate gyrus may contribute to the altered HPA function in GF animals. Although GF animals have been a cornerstone for investigating whether gut microbiota is involved in HPA axis regulation, they have many limitations in terms of dysregulated hormone signaling, aberrant neurodevelopment, and an impaired immune system due to a lack of exposure to microorganisms since birth. Translational studies are therefore still limited, because no equivalent obliteration of gut microbiota can be conducted in humans.

9The vagus nerve (VN) originates in the medulla oblongata of the CNS and innervates numerous structures such as the heart and the GI tract, which is the key neural pathway between the gut and the brain, containing 80% and 20% of afferent and efferent fibers, respectively. As a vast variety of chemical and mechanosensitive receptors are expressed on vagal afferents, and due to their role in interoceptive awareness, they respond to a variety of mechanical, chemical, and hormonal stimuli from gut microbiota and transfer gut information to the CNS. However, this chemo- and mechanosensitive perception cannot be conducted directly, because vagal afferents do not cross the epithelial layer. Interestingly, a subtype of gut enteroendocrine cells (EECs) were found to synapse with vagal neurons and transmit the information to the brain directly; these EECs were named neuropod cells. Perhaps the most striking observation regarding the role of the VN in the microbiota-gut-brain axis comes from vagotomy studies. Mice treated with Lactobacillus rhamnosus showed reduced anxiety- and depression-related behavior, which was not observed in mice with VN ablation. Furthermore, vagotomy reduced the proliferation and survival of newborn cells and decreased the number of immature neurons and the activation of microglia in the dentate gyrus of the hippocampus. Whether VN targeting by stimulation or vagotomy translates to microbial-based CNS therapeutics remains a tempting possibility and merits further investigation.

10The densest concentration of immune cells, such as B cells, T cells, macrophages, and dendritic cells, is found in the intestine. Gut microbiota can profoundly affect the development of organized lymphoid structures and the activation of both the innate and adaptive immune systems. Microbiota-host immune interactions in the gut lead to the release of proinflammatory mediators, e.g., cytokines and chemokines, and specific antibodies involved in the regulation of brain immunity. Metabolites produced by gut microbiota also regulate the maturation, differentiation, and activation of microglia and astrocytes, which mediate several neurophysiological processes, including maintenance of blood-brain-barrier (BBB) integrity, neural development, neurotransmission, and CNS immune activation. Therefore, a complex immunoregulatory network of interactions exists among gut microbiota, the intestinal mucosal immune system, and the brain.

11Alterations of gut microbiota in animals and patients with AD are summarized in Table 2. Key questions as to how the axis contributes to the onset and/or progression of AD, however, remain unanswered. In this section, we review the roles of the microbiota-gut-brain axis in the pathogenesis of AD so as to elucidate the possible pathophysiological mechanism underlying the modulation of gut microbiota in AD (Fig. 3).

12Neurological disorders such as AD, Parkinson’s disease (PD), and amyotrophic lateral sclerosis are characterized by the gradual accumulation of abnormal proteins in the CNS. The proclamation “all disease begins in the gut,” purported by the Greek physician Hippocrates 2000 years ago, has been an intriguing one and continues to influence medical researchers and practitioners. One hypothesis regarding the pathogenesis of PD claims that the initial induction and subsequent aggregation of α-synuclein probably originate in the enteric nervous system and spread upwards progressively to the CNS, propagating trans-synaptically from nerve cell to nerve cell in a virtually self-promoting pathological process. Gut dysbiosis is mainly characterized by an increase in the Firmicutes/Bacteroidetes ratio, which could cause intestinal APP accumulation since the earliest stages of AD. Changes in the composition of gut microbiota in APP/PS1 mice were related to an increase in Aβ levels in the CNS and impaired spatial learning and memory. Moreover, aberrant accumulation of Aβ in myenteric neurons and activation of intestinal innate immunity appear before the onset of CNS neuroinflammation in AD mice. Likewise, gut dysbiosis, intestinal epithelial barrier dysfunction, and vascular Aβ deposition in the gut occur before the onset of cerebral Aβ depositions in Tg2576 mice (a transgenic mouse model of AD). The presence of Aβ deposits is also noted in intestinal autopsies of patients with AD. Hence, a hypothesis which assumed that Aβ accumulation in the gut precedes that in the brain came into being. However, research aimed at elucidating the relationship between gut dysbiosis, intestinal Aβ accumulation, and AD onset is lacking and a causal relationship between them has not been established. Early manipulation of gut physiology and microbiota as a means to possibly reverse the pathology of AD needs further investigation.

13Another possible mechanism is related to the release of certain bacterial metabolites by gut microbiota. SCFAs demonstrate efficacy in interfering with protein-protein interactions that are indispensable for Aβ assemblies. The microbial-derived metabolite trimethylamine N-oxide (TMAO) has been implicated in the pathogenesis of AD as well. TMAO causes cognitive deterioration and pathological processes in AD by increasing β-secretase activity and thus aggravating Αβ accumulation. Moreover, gut microbiota, through the generation of TMAO, contributes to platelet hyperreactivity by enhancing the stimulus-dependent release of calcium ions from intracellular stores, promoting the Aβ produced in platelets to enter the circulation and reach the brain. Through a mechanism very similar to that of prion molecules, Aβ may seed in the brain from neuron to neuron, contributing to the progression of cytopathological lesions in AD. These data suggest that specific personalized nutrition interventions might represent an effective strategy to modify the production and aggregation of Aβ.

14Increased circulating bacterially produced bile acids (BAs) may increase BBB permeability via the disruption of tight junctions and permit BAs or peripheral cholesterol to reach the CNS. Mounting cellular cholesterol in the brain leads to direct binding to APP and thus facilitates APP insertion into the phospholipid monolayers of the lipid rafts where Aβ formation takes place, eventually promoting the production of Aβ. More importantly, cholesterol accumulation in the brain may be induced via effects mediated by BAs on the farnesoid X receptor, which downregulates the expression of the cholesterol-metabolizing enzyme CYP46A. From this perspective, BAs perturb cholesterol elimination pathways, cause cholesterol accumulation, and further increase Aβ production. Of note is the contribution of bacterial amyloids to Aβ accumulation. A well-described bacterial amyloid is curli, which is produced by Escherichia coli. Through molecular mimicry, bacterial amyloids may act as prion proteins to cross-seed and aggregate host amyloids. Other amyloids produced by microbes include FapC by Pseudomonas fluorescens, phenol-soluble modulins by Staphylococcus aureus, chaplins by Streptomyces coelicolor, and MccE492 by Klebsiella pneumonia.

15Microglial activation is associated with AD pathology and phagocytic microglia are crucial for the uptake and engulfment of soluble Aβ species and the phagocytosis of insoluble fibrillar Aβ deposits. Activated microglia clustering around amyloid deposits may constitute a barrier that can compact amyloids, minimize damage to adjacent neuropils, and decrease the incorporation of new neurotoxic Aβ into existing plaques. Notably, gut microbiota appears to be a prerequisite for microglia maturation and function under homeostatic conditions. GF mice and SPF mice, both with reduced gut microbiota complexity, displayed defects in microglia characterized by altered cell proportions and immature phenotypes which could successfully be rescued by supplementation with SCFAs or by re-introducing live and complex microbiota, respectively. Microglia from adult GF mice also exhibited downregulated expression of genes associated with microglial maturation. Microglia in SPF mice lacking free fatty acid receptor 2 (a SCFA receptor) displayed a phenotype nearly identical to that observed in GF mice. These findings suggest that microglia are highly sensitive to perturbations in the gut microbial community and metabolites.

16Taken together, although the pathogenic role of Aβ in the pathogenesis of AD needs to be further clarified, gut dysbiosis may contribute to the neuronal damage in AD in an Aβ-dependent mechanism. Future research should focus on whether gut microbiota represents an important hinge between AD and its risk factors.

17The BBB is a multilayered unit, comprising specialized brain endothelial cells linked by tight protein junctions in the microvasculature, which acts as a semipermeable barrier to control the passage and exchange of molecules and nutrients between the circulatory system and the brain parenchyma. Structural and functional disruption of the BBB in AD may be an early and important step in the pathogenesis. A pioneering study reported that GF mice showed increased permeability of the BBB, which may partly be the consequence of disorganized tight junctions due to reduced expression of tight junction proteins, especially occludin and claudin-5; the reduced BBB permeability could be restored by recolonization of gut microbiota, implying a causal role for gut microbiota in ensuring the development of the BBB. SCFAs can enter the circulation and decrease the permeability of the BBB by increasing the expression of endothelial tight junction proteins, especially occludin and claudin-5. A propionate concentration as low as 1 μm can protect the BBB from OS by an NFE2L2-dependent mechanism. These findings implicate the ability of gut microbiota to affect the permeability of the BBB. Impaired intestinal epithelial barrier integrity may permit unregulated translocation of pathogenic microbiota out of the gut, which then undergoes dissemination in the CNS via the impaired BBB. Compared with those from control groups, brain samples from patients with AD showed an increase in bacterial populations. Several studies have revived interest in a long-standing hypothesis that there may be a possible microbial origin for AD. One piece of seminal evidence is that Aβ exhibits characteristics of an anti-microbial peptide which is active against at least 12 different microorganisms. Intriguingly, Salmonella typhimurium bacterial infection of the brains of 4-week-old 5xFAD mice led to the presence of Aβ in brain parenchyma, where it closely colocalized with the bacterial deposition. Similarly, increased Aβ deposition was present in brain parenchyma sites containing deposits of herpes simplex virus type 1. However, it is ethically challenging for validation studies conducted on humans.

18Gut microbiota also produces a remarkably complex array of proinflammatory neurotoxins that can cross the BBB and are pathogenic and highly detrimental to the homeostatic function of neurons in the CNS. In particular, the role of lipopolysaccharide (LPS) generated by Gram-negative bacteria is relatively well documented. Bacterial LPS can bind with microglial cell receptors (TLR2, TLR4, and/or CD14) to initiate the production of a cascade of cytokines and chemokines via myeloid differentiation factor 88 (MyD88) and nuclear factor kappa beta (NF-κB)-dependent signaling pathways. Interestingly, the presence of LPS has been detected in the neocortex and hippocampus of patients with AD. In a rodent model, TLR4 inhibited proliferation and neuronal differentiation upon LPS binding, while TLR2 enhanced hippocampal neurogenesis. LPS appeared to efficiently activate NF-κB signaling to increase the levels of proinflammatory miRNA-146a and miRNA-155, which resulted in the downregulation of complement factor H expression and contributed to the onset of AD. The inflammasome is a cytosolic macromolecular signaling platform which mediates activation of the cysteine protease caspase-1, leading to proteolytic processing and secretion of the proinflammatory cytokines interleukin (IL)-1β and IL-18. Inflammasome-mediated inflammation may represent a critical component of the inflammatory response in AD. Extracellular LPS has also been reported to trigger microglial NOD-like receptor protein (NLRP)3 inflammasome activation. Therefore, bacterial endotoxins may be internal contributors to inflammatory degeneration in the CNS. Aside from glial subsets, innate and adaptive immune cells, including perivascular macrophages, CD4+ T and CD8+ T cells, and mast cells, are also resident in the CNS.

19Systemic inflammation is likely to interfere with the immunological processes of the brain and further promote AD progression. This hypothesis is supported by clinical studies of AD showing increased cognitive decline and exacerbation of neurodegeneration following acute and chronic systemic inflammation. Increase in levels of the proinflammatory bacteria Escherichia/Shigella and reduction in the levels of the anti-inflammatory bacteria Eubacterium rectale are associated with increased levels of IL-1β, CXCL2, and NLRP3 in the plasma of patients with cognitive impairment and brain amyloidosis. The intestinal mucosal lymphoid tissue is regarded as the largest and most important human immune organ, containing 70–80% of the immune system of the whole body. Microbe-associated molecular patterns (MAMPs) such as LPS can bind with various pattern-recognition receptors expressed on macrophages and dendritic cells in the gut, resulting in the production of inflammatory mediators such as proinflammatory cytokines. A more permeable intestinal epithelial barrier permits these inflammatory mediators to enter the circulatory system and cause systemic inflammation. Microbe-derived metabolites are additional contributors to systemic inflammation; for example, alterations of gut microbiota could lead to elevation of phenylalanine and isoleucine concentrations in the periphery of AD mice, which could provoke the infiltration of various immune cells, including T cells, B cells, natural killer cells, neutrophils, dendritic cells, and monocytes; CD4+ T helper (Th)1 cell levels were significantly correlated with M1 microglial activation in the brain during the progression of AD.

20TBI is an important risk factor for developing AD later in life, though the mechanism behind this correlation is still unclear. Gut microbiota may serve as a potential hub linking TBI, inflammation, and AD. Significant changes in gut microbiota composition at the genus and species level in injured mice highlighted the high probability of gut dysbiosis after TBI. The systemic inflammatory response resulting from gut dysbiosis exerts an influence on the vulnerable and primed microglia following brain injury to further exacerbate neuroinflammation, which in turn predisposes or accelerates the onset and progression AD. Similarly, gut microbiota may also be involved in a potential nexus between chronic psychological stress, inflammation, and AD. The HPA axis plays a significant role in the host’s response and adaptation to stress. Observations of elevated basal cortisol levels in patients with AD prompted the hypothesis that stress may predispose the brain to neurodegeneration. Indeed, chronic psychological stress leads to microglial activation, characterized by an exaggerated release of proinflammatory cytokines and chemokines. Physiological stress may alter the integrity of the intestinal epithelial barrier and the composition of gut microbiota in association with release of proinflammatory cytokines, such as IL-1β, that could activate the HPA axis; in this manner, gut microbiota can dramatically modify the body’s responsiveness to stress. In this perspective, gut microbiota located at the key position in the stress-inflammation loop might be actively involved in neuroinflammation and AD pathogenesis.

21Non-polysomal RNA and mRNA-binding proteins (RBPs) are the major components of stress granules (SGs), which form through a process of liquid-liquid phase separation (LLPS) when exposed to multiple types of stresses. SGs are generally dynamic structures that rapidly form and disassemble with acute stress, while persistent SGs form as a consequence of chronic environmental stress and have been implicated in the pathogenesis of AD.

22SGs may even be the breeding ground for the aberrant aggregation of pathological tau. Interactions between tau and SGs stimulate the formation of tau aggregates. Tau undergoes LLPS with RNA and forms tau droplets which turn into aggregates to create the initial site of filament assembly, a process associated with AD pathogenesis. SGs have a high concentration of mRNA, which probably enhances the conversion of tau into droplets. Importantly, tau co-localizes strongly with RBPs and does not undergo LLPS in the absence of RBPs. These findings advance our understanding of how these processes trigger tau protein aggregation and accelerate AD pathophysiology.

23OS represents a condition of imbalance between the accumulation and elimination of ROS, which has various deleterious effects on the body. OS is a well-recognized condition that facilitates SG formation. Gut microbiota may influence the levels of OS in the CNS either by increasing the oxidant components or by interfering with anti-oxidant systems. Gut microbiota promotes ROS generation within the gut epithelia, which in turn disturbs gut microbiota composition and functionality and makes the intestinal epithelial barrier more permeable. Neurotoxic substances such as LPS may reach the CNS via the VN or systemic circulation, promoting microglial activation and neuroinflammation, which produces even more ROS. Another mechanism is mostly speculative but is pertinent to the hypothesis that the oxidative state of the CNS could be regulated by gut microbiota via the production of various metabolites. Decreased butyrate levels could impair mitochondrial functions, resulting in significant ROS production in Crohn’s disease. Similarly, we speculate that the relative abundance of butyrate producers may cause mitochondrial dysfunction in the brain and increased production of ROS. Hydrogen (H2), a highly diffusible bioactive gas with anti-oxidant properties, was found to be produced mainly by strains of the genus Clostridium, anaerobic cocci, and members of the Enterobacteriaceae family. Gut dysbiosis may result in low H2 production in the gut, and less gas is subsequently transferred to the portal vein, limiting the availability of the gas in the CNS. Alterations of gut microbiota may in this regard interfere with the intracranial OS level and further favor SG formation. SGs have progressively gained recognition as essential contributors to the pathogenesis of AD, which provides a new dimension to the understanding of gut microbiota and AD pathogenesis.

24Compelling preclinical and clinical evidence supports the hypothesis that impaired insulin signaling may be associated with AD pathogenesis. Considerable overlap has been identified in the molecular, biological, pathophysiological, and metabolic dysfunctions in AD and T2DM. IR is the disturbance of glucose regulation characterized by higher insulin levels. As a consequence of tissue desensitization to the action of insulin, IR occurs in peripheral tissues in patients with diabetes and obesity and has recently been shown to develop in AD brains. In light of these observations, AD has also been termed as “type 3 diabetes,” which is viewed in a sense as a degenerative metabolic disease. However, insulin signaling impairment has been observed even in the brains of patients with AD who are not diabetic. Whether IR in AD and T2DM is a parallel phenomenon arising from coincidental roots in aging or whether there is an underlying mechanistic link is unclear.

25Colonization of GF mice with gut microbial communities harvested from ob/ob mice resulted in increased body fat associated with IR. Moreover, interventions involving probiotics and antibiotics improved insulin signaling and strengthened glucose control. Alterations in gut microbiota can modulate behaviors through the regulation of brain insulin sensitivity. Increased brain insulin signaling sensitivity and reduced signs of anxiety and depression were observed in mice with diet-induced obesity treated with oral metronidazole or vancomycin. Furthermore, manipulation of gut microbiota through oral administration of probiotics ameliorated impaired glucose metabolism and cognitive dysfunction in a mouse model of AD. The current data therefore allow us to hypothesize that changes in gut microbiota may contribute to IR in patients with AD. Future research efforts should be dedicated to better clarify the causal relationship between gut microbiota, IR, and AD. The phenomenon of IR is essential to our understanding of the overlap between AD and T2DM. Given the cause-effect relationship between gut microbiota and IR, T2DM and AD may be parallel diseases arising from the same fundamental aging-related alterations in gut microbiota.

26Diet represents a pivotal determinant of gut bacterial assembly and genetic composition. Specific foods and dietary patterns can influence the composition and abundance of different types of bacteria in the gut, which can in turn maintain host homeostasis. The Mediterranean diet (MD), which includes high-level consumption of fruits, vegetables, legumes, and cereals, has long been described as a healthy dietary pattern. Higher MD slowed the progression of AD and conferred protection of 1.5 to 3.5 years against AD. The MD confers anti-inflammatory effects which are often linked with an increase in Bacteroides and Clostridium phyla and decrease in Proteobacteria and Bacillaceae phyla. Human intervention studies suggest that high-level consumption of plant-based food consistent with the MD can modulate the gut microbiome composition, increase fecal SCFA levels, and decrease urinary TMAO levels. Microbiota-accessible carbohydrate supplementation could ameliorate Western diet-induced gut dysbiosis, intestinal epithelial barrier impairment, and systemic inflammation in mice. Furthermore, microbiota-accessible carbohydrate supplementation reduced neuroglial activation and synaptic impairment, which were eliminated with the depletion of gut microbiota using wide spectrum antibiotics. The MD may serve as a potential therapeutic intervention in the treatment of AD by modulating gut microbiota. Such healthy diets merit investigation for their potential benefits with regard to brain disorders. However, much more work is still needed to determine how diet and its components imbue their effects on the microbiota-gut-brain axis and to delineate whether the effects of diets on microbiota drive changes in overall brain function.

27Disease-modifying therapies are still lacking for AD. One of the latest intriguing breakthroughs is GV-971, a sodium oligomannate extracted from algae that has been demonstrated to result in robust and consistent cognitive improvements in a phase 3 clinical trial. GV-971 was found to significantly decrease microglial activation and multiple brain proinflammatory cytokine levels by altering the composition of gut microbiota and reducing the peripheral concentrations of phenylalanine and isoleucine generated by gut microbiota. The underlying mechanism of GV-971 that improves cognition via alleviation of neuroinflammation inspires us to attempt to reduce peripheral phenylalanine and isoleucine concentrations directly by diet or pharmacological strategies instead of regulating gut microbiota.

28Neurotransmitters including acetylcholine, GABA, histamine, and serotonin, which can be produced by gut microbiota, are critical modulators to regulate the gut-brain axis and play a crucial role in AD pathogenesis. Exogenous manipulation of the serum concentrations of these neurotransmitters by targeting the appropriate receptors or blocking their breakdown may benefit decreased symptomology and/or disease progression. The United States Food and Drug Administration has approved four acetylcholinesterase inhibitors (AChEIs), tacrine, donepezil, rivastigmine, and galantamine, for “disease-modifying” effects on AD. Several different clinical trials on novel AChEIs and acetylcholine stimulation in AD are ongoing, with the purpose of evaluating the efficacy, safety, tolerability, and pharmacokinetics of these drugs. Ongoing studies are also being conducted to test the possibility of using GABA modulators and GABA agonists as AD therapeutics. H3 receptor antagonists/inverse agonist molecules could inhibit histamine release and reverse partial cognitive function loss in animal models. Various serotonin-mimetic compounds, selective serotonin reuptake inhibitors, and 5-HT receptor agonists or antagonists were proven to be safe and also improved cognitive disturbances. So far, no metabolite-based therapies associated with neurotransmitters are available to prevent disease processes and/or relieve the cognitive functions in patients with AD. Given the complex and significant role of neurotransmitters in AD pathogenesis, research exploring the therapeutic potential of neurotransmitters AD cannot be ignored. However, multiple cohort and longitudinal studies are still needed to this end.

29The term “probiotics” was first coined in 1974 and has conceptually evolved to its current definition as “live microorganisms that modify microbiota toward a beneficial state”. Beneficial effects of probiotic supplementation include induction of immunomodulation, protection against physiological stress, pathogen antagonism, and improvement of the intestinal epithelial barrier function. Mice treated with probiotics showed increased spatial memory and significantly lower quantities of plaques in the hippocampus. Probiotic supplementation could also considerably improve synaptic plasticity and significantly restore long-term potentiation in the Aβ-administered animals. With long-term oral ProBiotic-4 (a complex probiotic preparation) administration, senescence-accelerated mouse prone 8 mice showed significant improvement in microbiota composition of the feces and brain, cerebral neuronal and synaptic injuries, and immune response activation. The underlying mechanism is related to inhibition of both TLR4- and retinoic-acid-inducible gene-I-mediated NF-κB signaling pathways in the brain. At present, only one clinical trial has been conducted to assess the effects of probiotic supplementation on AD. Patients with AD provided with probiotics showed improvement in cognitive function and favorable changes in related plasma biomarkers such as malondialdehyde and serum triglyceride. These findings suggest that probiotic supplementation may have the therapeutic potentials to block or reverse the progression of AD. However, clinical evidence is insufficient to reach conclusions regarding the recommendation of probiotics for patients with AD. The exact mechanism by which probiotics display effects in AD remains unclear. Probiotic supplementation in humans did not seem to change the composition of intestinal flora (at least based on 16s rRNA sequencing) but induced the effect of probiotics on behavior by temporarily changing the transcriptional state of the collective microbiome, which was later confirmed in GF mice and monozygotic twins.

30Metatranscriptomic and metabolomic technologies are needed to assess the effects of probiotic intervention on gut microbiota in the host. Although probiotics have been widely promoted among the general public, many probiotic strains and formulations have contradictory clinical results. More attention should be paid to the adverse effects of probiotics, which include systemic infection, GI side effects, gene transfer from probiotics to normal microbiota, harmful metabolic effects of probiotics, immune system stimulation, etc.. Besides, future probiotic therapy for AD requires the development of means to tackle colonization resistance.

31The current definition of prebiotics is “a substrate that is selectively utilized by host micro-organisms and confers a health benefit,” proposed by the International Scientific Association for Probiotics and Prebiotics. Several different kinds of food ingredients are considered prebiotics, among which resistant starch (RS), insulin, fructooligosaccharides (FOS), galactooligosaccharides, and xylooligosaccharides are most frequently highlighted. RS is known to exert a powerful influence on metabolic and systemic health and has been extensively studied in clinical trials and animal models for evaluating treatment potential. RS2 has been shown to alter the abundance of at least some intestinal bacterial genera and species, including enrichment of Ruminococcus bromii, Bifidobacterium adolescentis, Faecalibacterium prausnitzii, and E. rectale and reductions in Oscillospira, Lachnospiraceae, and Blautia. FOS are found in natural fruits and vegetables and can promote the growth of beneficial gut microbiota such as Bifidobacterium and Lactobacillus. FOS are effective in maintaining the diversity and stability of the microbial community, alleviating neuronal apoptosis and the swelling of brain tissues, regulating the synthesis and secretion of neurotransmitters, and downregulating the expression of tau and Aβ1-42 in the brain of rats with AD-like symptoms. These findings suggest that the therapeutic effect of FOS on AD is at least partially mediated by targeting of the microbiota-gut-brain axis. Furthermore, FOS exerted beneficial effects against AD via regulating the gut microbiota glucagon-like peptide-1 (GLP-1)/GLP-1 receptor pathway in APP/PS1 transgenic mice. In humans, prebiotic supplementation exerts relatively modest effects on the microbiota and alters the expression level of cytokine genes, which may be beneficial for the elderly. Although nurturing beneficial gut microbiota using prebiotics may provide major benefits, basic knowledge on the delicate interactions between the host, gut microbiota, and prebiotics is still lacking. Many technical and pragmatic difficulties, such as ensuring it reaches the location where it can exert its potential therapeutic effect, remain to be solved. Randomized controlled studies with larger cohorts are needed to evaluate the effect of prebiotics in patients with AD and to provide clinical evidence that can be translated into clinical practice.

32Fecal microbial transplantation (FMT) is the transfer of prescreened donor stool into the GI tract of patients with the aim of increasing overall diversity and restoring the function of gut microbiota. At present, FMT is only recommended as a treatment for recurrent Clostridium difficile infection, although trials on human diseases ranging from inflammatory bowel disease to metabolic diseases, neurodegenerative diseases, and cancer are ongoing worldwide. FMT could improve cognitive deficits and lessen Aβ deposition in the brain of AD animals. Frequent transfer and transplantation of fecal microbiota from WT mice to ADLPAPT mice reduced amyloid plaque and NFT formation, glial responses, and cognitive impairment; FMT reversed the abnormal expression of intestinal macrophage activity-related genes and the increase of circulating blood inflammatory monocytes in ADLPAPT recipient mice. Given that fecal material is expected to be sourced perfectly from a highly organized stool bank and various routes of administration such as capsule, enema, or colonoscopy, opportunities to exploit FMT to treat AD are materializing and FMT may be significantly convenient and efficacious. However, due to the inherent limitations of rodent models of human brain disorders, it is advisable to caution against premature extrapolation from preclinical data. FMT clearly poses significant unique and complex challenges for both clinicians and regulators, including its poorly defined mechanisms of action, stool availability, donor selection, adverse effects, and the relative lack of long-term follow-up data. Technical standardization, safety assessment, stool bank services and management, and other aspects are still in their infancy and need to be further studied. In this context, the FMT methodology is gaining considerable attention in both preclinical and clinical research and is likely to develop rapidly over the next decade.

33Gut microbiota can modulate important processes, including microglia maturation and activation, neurogenesis, myelination, synaptic pruning, and BBB permeability. The microbiota-gut-brain axis links gut microbiota and the brain via metabolic, endocrine, neural, and immune pathways that are crucial for the maintenance of brain homeostasis. Emerging evidence indicates that gut dysbiosis may aggravate Aβ aggregation and neuroinflammation in the development of AD. Restoring and remodeling gut microbiota composition may result in a strategic breakthrough in the treatment and, more importantly, the prevention of AD.

34The development of cheaper and faster sequencing and other biological techniques has provided new insights into the characterization of gut microbiota. Human studies exploring biocommunication pathways between microbiota and the brain over time have flourished thereafter. However, some key issues need to be addressed in the future. First, the definition of normal or healthy microbiome may be one of the biggest challenges. A better description of microbial community dynamics and metabolism will help demarcate “normal” and “abnormal” human gut microbiota and identify therapeutic targets for AD. Second, factors like diet, drugs, and health status may confound the research on gut microbiota and AD. Cross-sectional clinical studies have demonstrated specific changes in the composition and functionality of gut microbiota in patients with AD. Longitudinal studies combining metagenomics sequencing and in-depth phylogenetic analysis with a comprehensive phenotypic characterization of patients with AD using up-to-date omics (metagenomics, metabolomics, transcriptomics, and metatranscriptomics) are urgently needed. Third, instead of purely observational studies, causal and functional ones should be strengthened. Although association analysis may provide important information for cause-effect deduction, correlation does not necessarily mean causation. Fourth, basic research targeting the microbiota-gut-brain axis in AD merits optimization; specifically, appropriate model systems are to be carefully selected. Host-specific interactions with microbiota, differences in environment and exposure, and the structural complexity of the brain should be taken into consideration. Finally, translation of basic research results into clinically relevant effects in humans should be expedited. The majority of data on the role of gut microbiota in AD are based on animal studies. Preclinical animal studies frequently end up with unexpected failures during clinical transition due to unidentified reasons. Alternatively, future therapeutic interventions will likely be based on individual gut microbiota composition due to significant differences in gut microbiota configurations and compositions among human populations.