Genomic insights into antibiotic resistance and mobilome of lactic acid bacteria and bifidobacteria

Rozman, Vita (author), Mohar Lorbeg, Petra (author), Treven, Primož (author), Accetto, Tomaž (author), Janežič, Sandra (author), Rupnik, Maja (author), Bogovič Matijašić, Bojana (author)

Lactic acid bacteria (LAB) and Bifidobacterium sp. (bifidobacteria) can carry antimicrobial resistance genes (ARGs), yet data on resistance mechanisms in these bacteria are limited. The aim of our study was to identify the underlying genetic mechanisms of phenotypic resistance in 103 LAB and bifidobacteria using whole-genome sequencing. Sequencing data not only confirmed the presence of 36 acquired ARGs in genomes of 18 strains, but also revealed wide dissemination of intrinsic ARGs. The presence of acquired ARGs on known and novel mobile genetic elements raises the possibility of their horizontal spread. In addition, our data suggest that mutations may be a common mechanism of resistance. Several novel candidate resistance mechanisms were uncovered, providing a basis for further in vitro studies. Overall, 1,314 minimum inhibitory concentrations matched with genotypes in 92.4% of the cases; however, prediction of phenotype based on genotypic data was only partially efficient, especially with respect to aminoglycosides and chloramphenicol. Our study sheds light on resistance mechanisms and their transferability potential in LAB and bifidobacteria, which will be useful for risk assessment analysis.

• Language: English
• Keywords: genomics, functional genomics, microbiology, virology, host pathogen interaction
• Work type: Article
• Typology: 1.01 - Original Scientific Article
• Organization: BF - Biotechnical Faculty
• Publication status: Published
• Publication version: Version of Record
• Year: 2023
• Number of pages: 15 str.
• Numbering: Vol. 6, no. 4, art. e202201637
• PID: 20.500.12556/RUL-145027
• UDC: 579:575
• ISSN on article: 2575-1077
• DOI: 10.26508/lsa.202201637
• COBISS.SI-ID: 141893123
• Publication date in RUL: 30.03.2023

Record is a part of a journal

• Title: Life science alliance
• Shortened title: Life sci. alliance
• Publisher: Life Science Alliance, LLC
• ISSN: 2575-1077
• COBISS.SI-ID: 529829401

Licences

• License: CC BY 4.0, Creative Commons Attribution 4.0 International
• Link: http://creativecommons.org/licenses/by/4.0/
• Description: This is the standard Creative Commons license that gives others maximum freedom to do what they want with the work as long as they credit the author.

Secondary language

• Language: Slovenian
• Keywords: mikorbiologija, bakterije, mlečnokislinske bakterije, genetika, genomika, odpornost