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BMC genomics
01 06, 2017;18 (1): 41.

The extracellular proteome of two Bifidobacterium species reveals different adaptation strategies to low iron conditions.

Pamela Vazquez-Gutierrez, Marc J A Stevens, Peter Gehrig, Simon Barkow-Oesterreicher, Christophe Lacroix, Christophe Chassard
Author Information
  1. Pamela Vazquez-Gutierrez: Laboratory of Food Biotechnology, ETH Zurich, Institute of Food, Nutrition and Health, Schmelzbergstrasse 7, 8092, Zurich, Switzerland.
  2. Marc J A Stevens: Laboratory of Food Biotechnology, ETH Zurich, Institute of Food, Nutrition and Health, Schmelzbergstrasse 7, 8092, Zurich, Switzerland.
  3. Peter Gehrig: Functional Genomics Center Zurich, Winterthurerstrasse 190, 8057, Zurich, Switzerland.
  4. Simon Barkow-Oesterreicher: Functional Genomics Center Zurich, Winterthurerstrasse 190, 8057, Zurich, Switzerland.
  5. Christophe Lacroix: Laboratory of Food Biotechnology, ETH Zurich, Institute of Food, Nutrition and Health, Schmelzbergstrasse 7, 8092, Zurich, Switzerland. christophe.lacroix@hest.ethz.ch.
  6. Christophe Chassard: Laboratory of Food Biotechnology, ETH Zurich, Institute of Food, Nutrition and Health, Schmelzbergstrasse 7, 8092, Zurich, Switzerland.
PMID: 28061804 DOI: 10.1186/s12864-016-3472-x

Abstract

BACKGROUND: Bifidobacteria are among the first anaerobic bacteria colonizing the gut. Bifidobacteria require iron for growth and their iron-sequestration mechanisms are important for their fitness and possibly inhibit enteropathogens. Here we used combined genomic and proteomic analyses to characterize adaptations to low iron conditions of B. kashiwanohense PV20-2 and B. pseudolongum PV8-2, 2 strains isolated from the feces of iron-deficient African infants and selected for their high iron-sequestering ability.
RESULTS: Analyses of the genome contents revealed evolutionary adaptation to low iron conditions. A ferric and a ferrous iron operon encoding binding proteins and transporters were found in both strains. Remarkably, the ferric iron operon of B. pseudolongum PV8-2 is not found in other B. pseudolongum strains and likely acquired via horizontal gene transfer. The genome B. kashiwanohense PV20-2 harbors a unique region encoding genes putatively involved in siderophore production. Additionally, the secretomes of the two strains grown under low-iron conditions were analyzed using a combined genomic-proteomic approach. A ferric iron transporter was found in the secretome of B. pseudolongum PV8-2, while ferrous binding proteins were detected in the secretome of B. kashiwanohense PV20-2, suggesting different strategies to take up iron in the strains. In addition, proteins such as elongation factors, a glyceraldehyde-3-phosphate dehydrogenase, and the stress proteins GroEL and DnaK were identified in both secretomes. These proteins have been previously associated with adhesion of lactobacilli to epithelial cells.
CONCLUSION: Analyses of the genome and secretome of B. kashiwanohense PV20-2 and B. pseudolongum PV8-2 revealed different adaptations to low iron conditions and identified extracellular proteins for iron transport. The identified extracellular proteins might be involved in competition for iron in the gastrointestinal tract.

Keywords

Bifidobacterium kashiwanohense Bifidobacterium pseudolongum Genomics Iron binding Proteomics

References

Nat Rev Mol Cell Biol. 2006 Mar;7(3):198-210 [PMID: 16496022]
J Bacteriol. 1995 Jan;177(1):252-8 [PMID: 7798141]
PLoS Pathog. 2013;9(7):e1003436 [PMID: 23853581]
Proteomics. 2012 Feb;12(4-5):722-35 [PMID: 22247067]
Appl Environ Microbiol. 2014 Oct;80(20):6383-94 [PMID: 25107967]
Front Microbiol. 2016 Sep 22;7:1480 [PMID: 27713730]
Lancet. 2007 Aug 11;370(9586):511-20 [PMID: 17693180]
Infect Immun. 2004 Apr;72(4):2160-9 [PMID: 15039339]
Nat Protoc. 2006;1(6):2856-60 [PMID: 17406544]
Bioeng Bugs. 2012 Mar-Apr;3(2):73-9 [PMID: 22095053]
Proteomics. 2011 Feb;11(4):620-30 [PMID: 21246734]
J Proteome Res. 2008 Dec;7(12):5082-93 [PMID: 19367716]
Metallomics. 2014 Jul;6(7):1175-80 [PMID: 24531756]
J Proteomics. 2012 Jun 6;75(10):2803-10 [PMID: 22240296]
Environ Microbiol. 2013 Jan;15(1):12-23 [PMID: 22708953]
Protein Eng Des Sel. 2004 Apr;17(4):349-56 [PMID: 15115854]
Nat Rev Microbiol. 2004 Dec;2(12):946-53 [PMID: 15550940]
J Biol Inorg Chem. 2008 Nov;13(8):1205-18 [PMID: 18604568]
Mol Cell Proteomics. 2012 Feb;11(2):M111.013110 [PMID: 22122883]
Cell Host Microbe. 2012 Mar 15;11(3):227-39 [PMID: 22423963]
J Proteomics. 2014 Jan 31;97:69-87 [PMID: 24145144]
Nature. 2010 Aug 5;466(7307):779-82 [PMID: 20639861]
Mol Nutr Food Res. 2008 Jan;52(1):146-63 [PMID: 18040988]
BMC Microbiol. 2011 Feb 21;11:36 [PMID: 21338480]
Trends Ecol Evol. 2013 Aug;28(8):489-95 [PMID: 23706556]
J Sci Food Agric. 2014 Jan 30;94(2):163-8 [PMID: 23963950]
FEMS Microbiol Rev. 2014 Nov;38(6):1202-34 [PMID: 25205464]
Infect Immun. 2010 Sep;78(9):3957-68 [PMID: 20605988]
Immunity. 2014 Feb 20;40(2):173-5 [PMID: 24560194]
Front Cell Infect Microbiol. 2013 Dec 24;3:108 [PMID: 24400228]
Trends Microbiol. 2012 Oct;20(10):467-76 [PMID: 22902802]
PLoS One. 2011;6(10):e26507 [PMID: 22039501]
FEMS Microbiol Ecol. 2011 Nov;78(2):210-9 [PMID: 21658089]
J Am Chem Soc. 2006 Jan 11;128(1):22-3 [PMID: 16390102]
Int J Food Microbiol. 1994 Dec;24(1-2):199-210 [PMID: 7703014]
J Proteomics. 2014 Jan 31;97:1-2 [PMID: 24461479]
Proc Natl Acad Sci U S A. 2013 Jul 2;110(27):11151-6 [PMID: 23776216]
Biochim Biophys Acta. 2009 Jul;1790(7):600-5 [PMID: 18675317]
J Appl Microbiol. 2008 Jun;104(6):1667-74 [PMID: 18194256]
Microbiology. 2010 Nov;156(Pt 11):3243-54 [PMID: 20634238]
Gut Microbes. 2010 Jan;1(1):70-72 [PMID: 21327120]
J Dairy Sci. 2016 Feb;99(2):1011-8 [PMID: 26709174]
BMC Genomics. 2008 Feb 08;9:75 [PMID: 18261238]
Microbes Infect. 2012 Mar;14(3):207-16 [PMID: 22033148]
Cell Host Microbe. 2009 May 8;5(5):476-86 [PMID: 19454351]
Cell Host Microbe. 2013 May 15;13(5):509-19 [PMID: 23684303]
Microb Biotechnol. 2011 May;4(3):403-16 [PMID: 21375716]
J Mol Biol. 1990 Oct 5;215(3):403-10 [PMID: 2231712]
Appl Environ Microbiol. 2008 Aug;74(15):4695-702 [PMID: 18539800]
Res Microbiol. 2008 Jul-Aug;159(6):470-5 [PMID: 18619532]
BMC Microbiol. 2015 Jan 16;15:3 [PMID: 25591860]
Pharmacol Res. 2013 Mar;69(1):61-74 [PMID: 23059538]
Appl Microbiol Biotechnol. 2010 Mar;86(1):319-26 [PMID: 19898842]
Curr Opin Microbiol. 2013 Jun;16(3):284-92 [PMID: 23866974]
Eur J Immunol. 2008 Jul;38(7):1803-6 [PMID: 18546145]
Science. 2005 Mar 25;307(5717):1915-20 [PMID: 15790844]
BMC Microbiol. 2013 Oct 22;13:235 [PMID: 24148670]
Front Cell Infect Microbiol. 2014 Jan 24;4:2 [PMID: 24478990]
Nature. 2011 Oct 30;480(7376):241-4 [PMID: 22037308]
Microbiology. 2010 Nov;156(Pt 11):3232-42 [PMID: 20864471]
Am J Clin Nutr. 2010 Dec;92(6):1406-15 [PMID: 20962160]
J Food Sci. 2014 Sep;79(9):C1629-34 [PMID: 25124357]
Cell Microbiol. 2010 Dec;12(12):1691-702 [PMID: 20964797]
Nature. 2009 Aug 13;460(7257):823-30 [PMID: 19675642]
Front Biosci (Landmark Ed). 2009 Jan 01;14:4673-84 [PMID: 19273381]
Anal Chem. 2003 Sep 1;75(17):4646-58 [PMID: 14632076]
Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W327-31 [PMID: 15215404]
J Mol Microbiol Biotechnol. 2009;17(3):158-62 [PMID: 19672048]
Nat Protoc. 2006;1(1):16-22 [PMID: 17406207]
Curr Opin Microbiol. 2012 Jun;15(3):348-50 [PMID: 22632759]
Bioinformatics. 2005 Aug 15;21(16):3422-3 [PMID: 15976072]
Genome Announc. 2015 Jan 22;3(1):null [PMID: 25614572]
Genome Announc. 2015 Jan 22;3(1):null [PMID: 25614573]
Gut. 2015 May;64(5):731-42 [PMID: 25143342]
Infect Immun. 2008 May;76(5):1858-65 [PMID: 18316380]
Curr Opin Biotechnol. 2006 Apr;17(2):204-10 [PMID: 16510275]
Curr Opin Chem Biol. 2010 Apr;14(2):218-24 [PMID: 20015678]
FEMS Microbiol Lett. 2014 Aug;357(1):23-33 [PMID: 24947069]
Trends Microbiol. 2011 Jul;19(7):341-8 [PMID: 21600774]
Expert Rev Proteomics. 2012 Oct;9(5):561-75 [PMID: 23194272]

MeSH Term

Adaptation, Physiological
Bifidobacterium
Dose-Response Relationship, Drug
Evolution, Molecular
Extracellular Space
Iron
Proteomics
Species Specificity

Chemicals

Iron
Journal Article Research Support, Non-U.S. Gov't

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