Cold Shock Proteins: A Minireview with Special Emphasis on Csp-family of Enteropathogenic Yersinia

1Bacteria encounter changing environmental conditions during food production and storage and they have evolved a number of mechanisms for coping with stress and adapting to changing environments. In modern food production refrigeration is one of the key elements in maintaining food safety. At cell level temperature downshift decreases the fluidity of cell membranes, which affects active transport and protein secretion. In addition, the efficiency of transcription and translation is reduced due to stabilization of the secondary structures of DNA and RNA, protein folding is inefficient, and ribosomes need to be adapted to cold before they can function properly. The aim of cold shock response is to help bacterial cells to overcome these changes.

2Bacteria respond to a rapid temperature drop (cold shock) by a transient induction of cold induced proteins (Cips) and the production of Cips increases with the severity of the cold shock. In Escherichia coli numerous Cips have been identified so far including, e.g., cold shock protein (Csp) family, RNA helicase csdA, exoribonucleases PNPase and RNaseR, initiation factors 2α and 2β, NusA and RecA. This minireview focuses on a subgroup of Cips, the small homologous Csps that are classified together in the Csp-family.

3Cold shock proteins counteract some harmful effects of temperature downshift and thus help the cells to adapt. After the immediate cold shock response, the synthesis of Csps declines and synthesis of other proteins increases. This enables the cells to grow at low temperature, although at a slower rate. Csps are known to be important during cold shock response, however, recent studies have shown that Csps might have a wider role in stress tolerance of bacteria.

4Yersinia enterocolitica and Yersinia pseudotuberculosis are enteropathogens that can cause a foodborne enteric infection called yersiniosis. In 2013, yersiniosis was the third most frequently reported zoonosis in the European Union. Food products containing pork are considered to be the main vehicles of Y. enterocolitica infection, whereas large Y. pseudotuberculosis outbreaks have been linked to contaminated vegetables, drinking water, and raw milk.

5Yersinia enterocolitica and Y. pseudotuberculosis are psychrotrophic bacteria that can grow even at temperatures close to 0°C. The control of Yersinia in the modern food chain involving refrigeration as the sole means to increase the shelf life of food products is thus challenging. To be able to efficiently control enteropathogenic Yersinia in refrigerated foods, a thorough knowledge of their cellular adaptation mechanisms to changing environments during food production and storage is needed. This minireview summarizes the current understanding of the functions of Csp-family proteins and highlights what is currently known about their role in stress response of enteropathogenic Yersinia.

6Cold shock proteins are small nucleic acid-binding proteins ranging from 65 to 75 amino acids in length and they have been found in psychrophilic, mesophilic, thermophilic and even hyperthermophilic bacteria. CspA was first described in E. coli. Later it was found that E. coli CspA family consists of nine homologous proteins named CspA through CspI that share a 46–91% amino acid sequence similarity. Similar naming has been used in other bacteria as well, but genes with identical names do not necessarily share identical structure or function in different bacteria.

7Structurally Csps are highly conserved, however, their ther- mostability varies. CspA of the psychrotrophic Listeria monocytogenes has a melting temperature of 40°C, whereas Csp of thermophilic Thermus aquaticus has a more rigid structure and a melting temperature as high as 76°C, suggesting that psychrophilic Csps need higher structural flexibility to accommodate nucleic acids upon cold shock. At 37°C, the cspA mRNA of E. coli is very unstable, its half-life being only 12 s, but after cold shock its stability increases producing a half-life of more than 20 min. Transient cspA mRNA stabilization due to low temperature is probably an important factor in the induction of CspA during cold shock.

8Csps have a highly conserved nucleic acid binding domain, called the cold shock domain (CSD). CSD contains two nucleic acid binding motifs, ribonucleoprotein 1 and 2 that facilitate binding to target RNA and DNA. demonstrated that CspA of E. coli binds weakly and with low sequence specificity to ssRNA. Csps function as RNA chaperones by destabilizing secondary structures in target RNA at low temperature so that the single-stranded state of target RNA is maintained. This enables efficient transcription and translation. The weak and low sequence specific binding of RNA is important for the chaperone function of CspA and its homologues. Otherwise the movement of ribosomes on target mRNA would be hindered. Due to the chaperone function, Csps can also act as transcription antiterminators by preventing formation of hairpin structures, which can act as transcriptional termination or pause sites in target RNA at low temperatures.

9The cspA mRNA of E. coli can sense temperature changes and adapt to these changes by adopting different functional structures. showed that at low temperature the cspA mRNA derived from E. coli undergoes a temperature dependent structural change and as a result the cspA mRNA is translated more efficiently and is less prone to degradation than the cspA mRNA structure at 37°C. Similarly, discovered that cold-induced ttcsp2 of thermophilic Thermus thermophilus acts as a thermosensor by adopting a more stable secondary structure due to a temperature drop.

10Only CspA, B, CspE, G and CspI of E. coli are induced by cold shock (Table 1). discovered that in E. coli four out of nine csp genes (cspA, cspB, cspE, and cspG) had to be deleted until cold sensitive phenotype was obtained. In addition, deletion of one or two csp genes increased and prolonged the expression of the remaining cold induced csp genes. This indicates that the functions of the CspA family members overlap and they can compensate for each other. Similarly in Bacillus subtilis, the loss of one or two csp genes increased the production of remaining Csps after cold shock. In E. coli, temperature fluctuation between 37°C and 8°C increased the cspA and cspB transcription during each temperature downshift whereas transcription decreased when temperature was raised. However, the CspA and CspB protein concentrations were only increased during the first temperature downshift and the relative protein levels remained constant during temperature fluctuations suggesting that the proteins are rather stable and not degraded at higher temperature. Csps may aid bacteria to survive in extremely cold polar environment. discovered that when the CspA of psychrophilic Psychromonas arctica isolated from Artic sea sediments was overexpressed in E. coli, the survival of cells after repeated freezing and thawing increased over 10-fold.

11Mesophilic Clostridium botulinum Group I and III strains have two or three csp genes (cspA, cspB and cspC), but of the psychrotrophic Clostridium botulinum Group II strains, only one type B toxic strain carries one csp gene, whereas none of type E toxic strains has csp genes. The lack of csp genes in psychrotrophic Group II C. botulinum indicates that the cold tolerance of these strains is due to some other mechanism. In C. botulinum ATCC3502 inactivation of just one of the three csp genes, cspB, resulted in cold sensitive phenotype, suggesting that cspB is the major Csp of Group I C. botulinum. This is also supported by the fact that all C. botulinum Group I and III strains have homologues for cspB.

12The published genome sequences of enteropathogenic Yersinia reveal that they carry several putative Csp encoding genes. Y. enterocolitica and Y. pseudotuberculosis strains have 6–10, and 7–9 csp genes, respectively. The Csps of Yersinia are highly homologous, and the cold-shock proteins encoding genes of, e.g., Y. pseudotuberculosis IP32953 share 32.8–100% amino acid and 44.6–99.5% nucleotide sequence similarity (Table 2). When the csp genes of E. coli K-12 W3110 are compared to the most closely similar csp genes of Y. enterocolitica 8081 and Y. pseudotuberculosis IP32953, the amino acid sequence similarity varies between 48.6 and 98.6% (Table 1). Since some of the Csp encoding genes of enteropathogenic Yersinia share a very high amino acid sequence similarity (74.3–98.6%) with cspA, cspB, cspC, cspD, cspE, cspG, and cspI of E. coli it can be assumed that they also have common functions. Lower amino acid sequence similarity is observed with E. coli genes cspF and cspH which function in E. coli is unknown.

13Yersinia enterocolitica, Y. pseudotuberculosis, Yersinia pestis, and Yersinia ruckeri carry a locus containing a tandem cspA duplication (cspA1 and cspA2) which produces both monocistronic (CspA1) and bicistronic (CspA1/A2) mRNA templates. At high temperatures monocistronic mRNA predominates. When the temperature decreases, more bicistronic mRNA is produced but the longer the cold shock lasts, the more monocistronic mRNA is produced. Compared to E. coli, these mono- and bicistronic mRNA templates give Y. enterocolitica a better transcriptional capacity during the cold shock. Synthesis of proteins is more efficient when the transcript contains two copies of the protein.

14studied the Csp expression of Y. enterocolitica in Luria-Bertani (LB) broth, milk, and on pork meat after temperature drop from 30°C to 4°C. CspA1 and CspA2 were first detected 2 h after cold shock from LB and milk cultures, but it took as long as 8 h after cold shock to observe detectable levels of Csps on pork meat. On pork meat the delayed expression of Csps and genes might be due to the extended lag phase of Y. enterocolitica on solid meat surface compared to liquid medium. Both in LB broth and on pork meat the expression of Csps and genes continued until 24 h of cold shock suggesting that in Y. enterocolitica Csps are not only needed during the immediate cold shock response but also during the cold acclimation. At 30°C, CspA1 and CspA2 were not observed at all.

15After cold adaptation, Csp mRNAs must be degraded to liberate ribosomes for translation of mRNAs of non-Csps and thereby to enable growth to resume at low temperature. observed correlation between beginning of exponential growth of Y. enterocolitica cells and degradation of cspA1/A2 mRNA. After adaptation to cold, Y. enterocolitica cspA1/A2 transcripts were smaller than the original transcript, and all cut off at the same sequence (AGUAAA) that was later named the cold shock cut box (CSC-box). Mutation of the CSC-box caused a delayed growth resume after cold shock. The CSC-box facilitates the degradation of Csp mRNA. Endonuclease RNaseE first cuts the cspA1/A2 transcript to smaller pieces which are further degraded by PNPase. PNPase is necessary for Y. enterocolitica growth at low temperature and it regulates gene expression by selectively degrading Csp mRNAs.

16Cold shock proteins are not only produced during cold stress. A minimum of one csp gene is essential for viability of B. subtilis, suggesting that Csps are needed during non-shock growth. In E. coli CspA forms 1% of all soluble proteins at the early exponential growth phase at 37°C, suggesting that CspA has functions also at optimal growth temperature. In E. coli, both growth medium and growth phase have been shown to affect the transcription of csp genes. In MOPS defined minimal glucose medium cspE mRNA levels were higher than mRNA levels of other csp genes, whereas in MOPS defined rich glucose medium transcripts for cspA, cspB, and cspE predominated. In E. coli transcripts of cspA predominate during the lag phase and first stages of logarithmic growth whereas only small levels of cspA mRNA can be detected at other stages of growth. Also nutritional upshift has been shown to induce CspA in E. coli, although the related level of induction was only one-sixth of that caused by cold shock.

17Functions of non-cold-inducible Csps are yet poorly understood. DNA microarray analysis revealed that deletion of ttcsp1, which is the only non-cold inducible csp gene of T. thermophilus, did not alter the gene expression profile compared to wild type at optimal growth conditions. Nevertheless, expression levels of some proteins were significantly upregulated or downregulated in Δttcsp1, suggesting that ttCsp1 contributes to translational control. also suggested that different stress factors might alter the nucleotide binding affinities of some Csps. On the contrary, the whole transcriptome of a cspA mutant of Brucella melitensis revealed that a total of 446 genes were differentially expressed compared to wild type. Differences in expression were especially observed in genes associated with virulence and metabolism and the cspA mutant also showed reduced growth in minimal medium. Results suggest that cspA of B. melitensis plays a role in virulence and metabolism regulation, but the CspA-mediated regulatory mechanisms are not understood. These contrary results observed in gene expression of different csp mutants warrant that further research is needed to understand by which mechanism Csps function during normal growth and in stress responses unrelated to cold.

18In E. coli, cspD inhibits DNA replication and is induced during stationary phase to resign growth. Overproduction of this Csp is thus toxic to the cells. CspD has also been linked to biofilms and persister cell formation. Recently it was also shown that Csps might have a role in buffering deleterious mutations since overexpression of CspA improved fitness of E. coli strains that had accumulated deleterious mutations during long-term laboratory experiments. suggested that CspA and other RNA chaperones could aid misfolded RNA to adopt functional conformation and thus suppress harmful mutations that affect RNA structure. Since mutation rate can be elevated in response to stress, it would of interest to investigate whether Csps could also counteract harmful stress-induced mutations.

19revealed that cspB and cspC, but not cspA, play an important role in NaCl, pH and ethanol stress in C. botulinum ATCC3502. Mutation of cspA and cspC also reduced motility and hampered flagella formation. In L. monocytogenes CspA is the major cold-shock-responsive Csp, whereas CspB and CspD are involved in host cell invasion. Deletion of one or both of cspB and cspD resulted in severely impaired Caco-2 cell invasion, whereas deletion of cspA had no effect on cell invasion. Simultaneous deletion of cspB and cspD or deletion of all three csp genes of L. monocytogenes resulted in most severe impairment of host cell invasion and also caused reduced intracellular growth in macrophages. suggested that Csps contribute to regulation of listeriolysin O, which is a pore-forming cytolysin needed in intracellular survival. In addition, cspA contributed to oxidative stress tolerance, and single deletion of cspD, but not of cspA and cspB, resulted in impaired osmotic stress adaptation in L. monocytogenes. Since Csps promote L. monocotygenes adaptation against different stress conditions, exposure to one type of stress, e.g., during food production might induce cross-protection against others.

20Production of Csps is one of the most prominent responses of bacteria to cold shock and recent studies have shown that Csps have a much wider role in stress response of bacteria than previously assumed. Enteropathogenic Yersinia encode several Csps which show a high homology to those of E. coli. Some of these E. coli csp genes are linked to stresses other than cold. Y. enterocolitica CspA1 and CspA2 are known to be involved in cold shock response, however, it is not known what the role of other csp genes is in stress response of enteropathogenic Yersinia. Therefore, knowledge about the function of Csps is needed to be able to develop measures that limit the growth and survival of enteropathogenic Yersinia in various foods during food production and storage.

21RK-T, NH, EP, ML, and HK designed the minireview, RK-T and AH performed sequence comparisons, RK-T and NH drafted the manuscript, EP, ML, and HK critically revised the manuscript.

22The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.