Comparative genomic analysis of Enterococcus faecalis: insights into their environmental adaptations

BMC Genomics
Qiuwen HeZhi Zhong

Abstract

Enterococcus faecalis is widely studied as a common gut commensal and a nosocomial pathogen. In fact, Enterococcus faecalis is ubiquitous in nature, and it has been isolated from various niches, including the gastrointestinal tract, faeces, blood, urine, water, and fermented foods (such as dairy products). In order to elucidate the role of habitat in shaping the genome of Enterococcus faecalis, we performed a comparative genomic analysis of 78 strains of various origins. Although no correlation was found between the strain isolation habitat and the phylogeny of Enterococcus faecalis from our whole genome-based phylogenetic analysis, our results revealed some environment-associated features in the analysed Enterococcus faecalis genomes. Significant differences were found in the genome size and the number of predicted open reading frames (ORFs) between strains originated from different environments. In general, strains from water sources had the smallest genome size and the least number of predicted ORFs. We also identified 293 environment-specific genes, some of which might link to the adaptive strategies for survival in particular environments. In addition, the number of antibiotic resistance genes was significantly different b...Continue Reading

References

Jun 11, 1992·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·R C Moellering
Sep 1, 1989·Antimicrobial Agents and Chemotherapy·D F SahmB Clarke
Jan 1, 1969·Annual Review of Biochemistry·W Arber, S Linn
Jun 6, 2000·Microbiology and Molecular Biology Reviews : MMBR·N E Murray
Sep 13, 2003·BMC Bioinformatics·Roman L TatusovDarren A Natale
Dec 21, 2004·Nucleic Acids Research·Lihong ChenQi Jin
May 26, 2005·The Journal of Antimicrobial Chemotherapy·Keith Poole
Dec 3, 2005·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Patrice Courvalin
Jan 24, 2007·Bioinformatics·Arthur L DelcherSteven L Salzberg
Sep 25, 2007·International Journal of Food Microbiology·Jean-Claude Ogier, Pascale Serror
Feb 12, 2008·BMC Genomics·Ramy K AzizOlga Zagnitko
Apr 21, 2009·Molecular Biology and Evolution·Morgan N PriceAdam P Arkin
Apr 26, 2011·BMC Bioinformatics·Vincent MieleLaurent Duret
Dec 4, 2012·Microbiology and Molecular Biology Reviews : MMBR·Muruleedhara N ByappanahalliValerie J Harwood
May 8, 2013·Antimicrobial Agents and Chemotherapy·Andrew G McArthurGerard D Wright
Dec 1, 2011·Environmental Microbiology Reports·Miriam MoscosoErnesto García
Feb 28, 2014·Environmental Science & Technology·Michael R WeigandJorge W Santo Domingo
Sep 1, 2015·Environmental Monitoring and Assessment·Katarina VeljovićMilan Kojić
May 5, 2016·Nucleic Acids Research·David ArndtDavid S Wishart
May 24, 2016·Nature Microbiology·Kathy E RavenSharon J Peacock
Aug 31, 2016·Nature Microbiology·Kathy E RavenSharon J Peacock
Nov 27, 2016·Genome Biology·Ola BrynildsrudVegard Eldholm

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Citations

Jan 12, 2020·Critical Reviews in Food Science and Nutrition·Ken GrahamRosemary Rea
Apr 22, 2021·Scientific Data·Tae Woong WhonSeong Woon Roh

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Methods Mentioned

BETA
phosphotransferase
restriction modification

Software Mentioned

MUSCLE
BLAST
SPSS Statistics
Scoary
FastTree
GLIMMER
PHASTER
RAST
GapCloser
SOAPdenovo

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