Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis

• Published in: Frontiers in microbiology Vol. 14; p. 1196558
• Main Authors: Lu, Jingda, Shen, Tingting, Zhang, Yixin, Ma, Xinwei, Xu, Sheng, Awad, Sameh, Du, Muying, Zhong, Zhi
• Format: Journal Article
• Language: English
• Published: Switzerland Frontiers Media S.A 22.05.2023
• Subjects: antibiotic resistance; comparative genomics analysis; Enterococcus lactis; genome-wide association study; Microbiology; safety assessment; safety assessment; comparative genomics analysis; antibiotic resistance; genome-wide association study; Enterococcus lactis
• ISSN: 1664-302X; 1664-302X
• DOI: 10.3389/fmicb.2023.1196558

is sometimes used in food production; however, its acquisition of antibiotic resistance has become an alarming health concern. The species is closely related to and has good probiotic potential. This study aimed to investigate the antibiotic resistance of We analyzed the antibiotic resistance phenotype and whole-genome sequences of 60 isolates (23, 29, and 8 isolates from dairy products, Rice wine Koji, and human feces, respectively). These isolates showed varying degree of resistance to 13 antibiotics, and were sensitive to ampicillin and linezolid. The genomes carried only a subset of commonly reported antibiotic resistance genes (ARGs) in . Five ARGs were detected across the investigated , including two universally present genes ( and ) and three rarely detected ARGs ( , , and ). To identify other undescribed antibiotic resistance-encoding genes, a genome-wide association study was performed, returning 160 potential resistance genes that were associated with six antibiotics, namely chloramphenicol, vancomycin, clindamycin, erythromycin, quinupristin-dalfopristin, and rifampicin. Only around one-third of these genes encode known biological functions, including cellular metabolism, membrane transport, and DNA synthesis. This work identified interesting targets for future study of antibiotic resistance in . The fact that the lower number of ARGs present in supports that it may be an alternative to for use in the food industry. Data generated in this work is of interest to the dairy industry.