TY - JOUR
T1 - Complete genome sequence of a commensal bacterium, Hafnia alvei CBA7124, isolated from human feces
AU - Song, Hye Seon
AU - Kim, Joon Yong
AU - Kim, Yeon Bee
AU - Jeong, Myeong Seon
AU - Kang, Jisu
AU - Rhee, Jin Kyu
AU - Kwon, Joseph
AU - Kim, Ju Suk
AU - Choi, Jong Soon
AU - Choi, Hak Jong
AU - Nam, Young Do
AU - Roh, Seong Woon
N1 - Publisher Copyright:
© 2017 The Author(s).
PY - 2017/7/27
Y1 - 2017/7/27
N2 - Background: Members of the genus Hafnia have been isolated from the feces of mammals, birds, reptiles, and fish, as well as from soil, water, sewage, and foods. Hafnia alvei is an opportunistic pathogen that has been implicated in intestinal and extraintestinal infections in humans. However, its pathogenicity is still unclear. In this study, we isolated H. alvei from human feces and performed sequencing as well as comparative genomic analysis to better understand its pathogenicity. Results: The genome of H. alvei CBA7124 comprised a single circular chromosome with 4,585,298 bp and a GC content of 48.8%. The genome contained 25 rRNA genes (9 5S rRNA genes, 8 16S rRNA genes, and 8 23S rRNA genes), 88 tRNA genes, and 4043 protein-coding genes. Using comparative genomic analysis, the genome of this strain was found to have 72 strain-specific singletons. The genome also contained genes for antibiotic and antimicrobial resistance, as well as toxin-antitoxin systems. Conclusions: We revealed the complete genome sequence of the opportunistic gut pathogen, H. alvei CBA7124. We also performed comparative genomic analysis of the sequences in the genome of H. alvei CBA7124, and found that it contained strain-specific singletons, antibiotic resistance genes, and toxin-antitoxin systems. These results could improve our understanding of the pathogenicity and the mechanism behind the antibiotic resistance of H. alvei strains.
AB - Background: Members of the genus Hafnia have been isolated from the feces of mammals, birds, reptiles, and fish, as well as from soil, water, sewage, and foods. Hafnia alvei is an opportunistic pathogen that has been implicated in intestinal and extraintestinal infections in humans. However, its pathogenicity is still unclear. In this study, we isolated H. alvei from human feces and performed sequencing as well as comparative genomic analysis to better understand its pathogenicity. Results: The genome of H. alvei CBA7124 comprised a single circular chromosome with 4,585,298 bp and a GC content of 48.8%. The genome contained 25 rRNA genes (9 5S rRNA genes, 8 16S rRNA genes, and 8 23S rRNA genes), 88 tRNA genes, and 4043 protein-coding genes. Using comparative genomic analysis, the genome of this strain was found to have 72 strain-specific singletons. The genome also contained genes for antibiotic and antimicrobial resistance, as well as toxin-antitoxin systems. Conclusions: We revealed the complete genome sequence of the opportunistic gut pathogen, H. alvei CBA7124. We also performed comparative genomic analysis of the sequences in the genome of H. alvei CBA7124, and found that it contained strain-specific singletons, antibiotic resistance genes, and toxin-antitoxin systems. These results could improve our understanding of the pathogenicity and the mechanism behind the antibiotic resistance of H. alvei strains.
KW - Comparative genomics
KW - Complete genome sequence
KW - Gut microbiota
KW - Hafnia alvei CBA7124
UR - http://www.scopus.com/inward/record.url?scp=85026243438&partnerID=8YFLogxK
U2 - 10.1186/s13099-017-0190-0
DO - 10.1186/s13099-017-0190-0
M3 - Article
AN - SCOPUS:85026243438
SN - 1757-4749
VL - 9
JO - Gut Pathogens
JF - Gut Pathogens
IS - 1
M1 - 41
ER -