Evidence for plasmid-mediated salt tolerance in the human gut microbiome and potential mechanisms

FEMS Microbiology Ecology

Volumn 92, Issue 3, 2016, Pages

  Broaders, Eileen ^a,b   O'Brien, Ciarán ^b   Gahan, Cormac G M ^a,b   Marchesi, Julian R ^a,c,d  

^a UNIVERSITY COLLEGE CORK   (Ireland)

^b UNIVERSITY COLLEGE CORK   (Ireland)

^c CARDIFF UNIVERSITY   (United Kingdom)

^d IMPERIAL COLLEGE LONDON   (United Kingdom)

Author keywords

Gut; Microbiome; Mobile genetic elements; Osmotolerance

Indexed keywords

ADAPTATION; BACTERIUM; COMMENSAL; DIGESTIVE SYSTEM; FECES; GENETIC ANALYSIS; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; PHENOTYPE; PLASMID; SALINITY TOLERANCE;

BACTERIA (MICROORGANISMS); PROTEOBACTERIA;

SODIUM CHLORIDE;

BACTERIUM; CLASSIFICATION; FECES; GENETICS; HUMAN; INTESTINE FLORA; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; PLASMID; SALT TOLERANCE;

BACTERIA; FECES; GASTROINTESTINAL MICROBIOME; HUMANS; PLASMIDS; SALT-TOLERANCE; SODIUM CHLORIDE;

EID: 84962160046     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1093/femsec/fiw019     Document Type: Article

References (41)

1. Altschul SF, Madden TL, Schäffer AA et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997;25:3389-402.
2. Atuma C, Strugala V, Allen A et al. The adherent gastrointestinal mucus gel layer: thickness and physical state in vivo. Am J Physiol-Gastr L 2001;280:G922-9.
3. Bale MJ, Day MJ, Fry JC. Novel method for studying plasmid transfer in undisturbed river epilithon. Appl Environ Microb 1988;54:2756-8.
4. Booth IR, Higgins CF. Enteric bacteria and osmotic stress: intracellular potassium glutamate as a secondary signal of osmotic stress? FEMS Microbiol Rev 1990;6:239-46.
5. Brown AD, Simpson JR. Water relations of sugar-tolerant yeasts: the role of intracellular polyols. J Gen Microbiol 1972; 72:589-91.
6. Chang DE, Smalley DJ, Tucker DL et al. Carbon nutrition of Escherichia coli in the mouse intestine. P Natl Acad Sci USA 2004;101:7427-32.
7. Chatton JY, Spring KR. The sodium concentration of the lateral intercellular spaces of MDCK cells: a microspectrofluorimetric study. J Membrane Biol 1995;144:11-9.
8. Collins RE, Deming JW. An inter-order horizontal gene transfer event enables the catabolism of compatible solutes by Colwellia psychrerythraea 34H. Extremophiles 2013;17: 601-10.
9. Creeth JM. Constituents of mucus and their separation. Brit Med Bull 1978;34:17-24.
10. Csonka LN. Physiological and genetic responses of bacteria to osmotic stress. Microbiol Rev 1989;53:121-47.
11. Drønen A, Torsvik V, Goksøyr J et al. Effect of mercury addition on plasmid incidence and gene mobilizing capacity in bulk soil. FEMS Microbiol Ecol 1998;27:381-94.
12. Dronen AK, Torsvik V, Top EM. Comparison of the plasmid types obtained by two distantly related recipients in biparental exogenous plasmid isolations from soil. FEMS Microbiol Lett 1999;176:105-10.
13. EpsteinW. Osmoregulation by potassium transport in Escherichia coli. FEMS Microbiol Lett 1986;39:73-8.
14. Epstein W. The roles and regulation of potassium in bacteria. Prog Nucleic Acid Re 2003;75:293-320.
15. EpsteinW, Kim BS. Potassium transport loci in Escherichia coli K-12. J Bacteriol 1971;108:639-44.
16. Fabich AJ, Leatham MP, Grissom JE et al. Genotype and phenotypes of an intestine-adapted Escherichia coli K-12 mutant selected by animal passage for superior colonization. Infect Immun 2011;79:2430-9.
17. Fordtran JS, Rector FC, Jr, Ewton MF et al. Permeability characteristics of the human small intestine. J Clin Invest 1965;44: 1935-44.
18. Hall TA. BioEdit: a user friendly biological sequence allignmenteditor and analysis program for Windows 95/98/NT. Nucl Acid S 1999;41:95-8.
19. Higgins CF, Dorman CJ, Stirling DA et al. A physiological role for DNA supercoiling in the osmotic regulation of gene expression in S. typhimurium and E. coli. Cell 1988;52: 569-84.
20. Hill KE, Weightman AJ, Fry JC. Isolation and Screening of Plasmids from the Epilithon Which Mobilize Recombinant Plasmid pDlO. Appl Environ Microb, 1992;58:1292-300.
21. Jung K, Altendorf K. Towards an understanding of the molecular mechanisms of stimulus perception and signal transduction by the KdpD/KdpE system of Escherichia coli. J Mol Microb Biotech 2002;4:223-8.
22. Laermann V, Cudic E, Kipschull K et al. The sensor kinase KdpD of Escherichia coli senses external K+. Mol Microbiol 2013;88:1194-204.
23. Laimins LA, Rhoads DB, Epstein W. Osmotic control of kdp operon expression in Escherichia coli. P Natl Acad Sci USA 1981;78:464-8.
24. Licht TR, Christensen BB, Krogfelt KA et al. Plasmid transfer in the animal intestine and other dynamic bacterial populations: the role of community structure and environment. Microbiology 1999;145:2615-22.
25. Lobova TI, Zagrebel'nyi SN, Popova L. Influence of the salt concentration in culture on the copy number of plasmid pSH1 in cells of Micrococcus sp. 9. Mikrobiologiia 2005;74: 349-56.
26. Lucht JM, Bremer E. Characterization of mutations affecting the osmoregulated proU promoter of Escherichia coli and identification of 5' sequences required for high-level expression. J Bacteriol 1991;173:801-9.
27. Lucht JM, Bremer E. Adaptation of Escherichia coli to high osmolarity environments: osmoregulation of the high-affinity glycine betaine transport system proU. FEMS Microbiol Rev 1994;14:3-20.
28. Markowitz VM, Chen IM, Palaniappan K et al. IMG: the Integrated Microbial Genomes database and comparative analysis system. Nucleic Acids Res 2012;40:D115-22.
29. May G, Dersch P, Haardt M et al. The osmZ (bglY) gene encodes the DNA-binding protein H-NS (H1a), a component of the Escherichia coli K12 nucleoid. Mol Gen Genet 1990;224: 81-90.
30. Meyer F, Paarmann D, D'Souza M et al. The metagenomics RAST server-a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 2008;9:386.
31. Miller S, Ness LS, Wood CM et al. Identification of an ancillary protein, YabF, required for activity of the KefC glutathionegated potassium efflux system in Escherichia coli. J Bacteriol 2000;182:6536-40.
32. Qureshi JA, Malik KA. Evidence for a plasmid conferring salttolerance in the plant-root associated, diazotroph Klebsiella sp. NIAB-I. Biotechnol Lett 1990;12:783-8.
33. Sambrook J, Russell DW. Molecular Cloning a Laboratory Manual. Cold Spring Harbor, NewYork: Cold Spring Harbor Laboratory Press, 2001.
34. Smalla K, Heuer H, Gotz A et al. Exogenous isolation of antibiotic resistance plasmids from piggery manure slurries reveals a prevalence and diversity of IncQ-like plasmids. Appl Environ Microb 2000;66:4854-62.
35. Spring KR. Routes and mechanism of fluid transport by epithelia. Annu Rev Physiol 1998;60:105-19.
36. Sutherland L, Cairney J, Elmore MJ et al. Osmotic regulation of transcription: induction of the proU betaine transport gene is dependent on accumulation of intracellular potassium. J Bacteriol 1986;168:805-14.
37. Takeyama H, Grant Burgess J, Sudo H et al. Salinity-dependent copy number increase of a marine cyanobacterial endogenous plasmid. FEMS Microbiol Lett 1991;90:95-8.
38. Ueguchi C, Mizuno T. The Escherichia coli nucleoid protein HNS functions directly as a transcriptional repressor. EMBO J 1993;12:1039-46.
39. Walker AW, Ince J, Duncan SH et al. Dominant and dietresponsive groups of bacteria within the human colonic microbiota. ISME J 2011;5:220-30.
40. Wang J, Stephan R, Karczmarczyk M et al. Molecular characterization of bla ESBL-harboring conjugative plasmids identified in multi-drug resistant Escherichia coli isolated from food-producing animals and healthy humans. Front Microbiol 2013;4:188.
41. Wirth T, Falush D, Lan R et al. Sex and virulence in Escherichia coli: an evolutionary perspective. Mol Microbiol 2006;60:1136-51.