Complete genome sequence of a commensal bacterium, Hafnia alvei CBA7124, isolated from human feces

• Published in: Gut pathogens Vol. 9; no. 1; pp. 41 - 5
• Main Authors: Song, Hye Seon, Kim, Joon Yong, Kim, Yeon Bee, Jeong, Myeong Seon, Kang, Jisu, Rhee, Jin-Kyu, Kwon, Joseph, Kim, Ju Suk, Choi, Jong-Soon, Choi, Hak-Jong, Nam, Young-Do, Roh, Seong Woon
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 27.07.2017; BioMed Central; BMC
• Subjects: Annotations; Antibiotic resistance; Antimicrobial agents; Antimicrobial resistance; Bacteria; Biofilms; Comparative genomics; Complete genome sequence; Deoxyribonucleic acid; DNA; Drug resistance; E coli; Enterobacteriaceae; Feces; Food; Genes; Genetic aspects; Genome Report; Genomes; Genomic analysis; Genomics; Genotypes; Gut microbiota; Hafnia alvei CBA7124; Health aspects; Intestine; Metabolism; Morphology; Nucleotide sequence; Opportunist infection; Pathogenesis; Pathogenicity; Pathogens; Proteins; rRNA 16S; rRNA 23S; rRNA 5S; Servers; Sewage; Streptococcus infections; tRNA; Virulence (Microbiology); Complete genome sequence; Gut microbiota; Comparative genomics; Hafnia alvei CBA7124
• ISSN: 1757-4749; 1757-4749
• DOI: 10.1186/s13099-017-0190-0

Members of the genus have been isolated from the feces of mammals, birds, reptiles, and fish, as well as from soil, water, sewage, and foods. 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 from human feces and performed sequencing as well as comparative genomic analysis to better understand its pathogenicity. The genome of 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. We revealed the complete genome sequence of the opportunistic gut pathogen, CBA7124. We also performed comparative genomic analysis of the sequences in the genome of 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 strains.