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- Title
Phylogenomic Analysis of β-Lactamase in Archaea and Bacteria Enables the Identification of Putative New Members.
- Authors
Keshri, Vivek; Panda, Arup; Levasseur, Anthony; Rolain, Jean-Marc; Pontarotti, Pierre; Raoult, Didier
- Abstract
β-lactamases are enzymes which are commonly produced by bacteria and which degrade the β-lactam ring of β-lactam antibiotics, namely penicillins, cephalosporins, carbapenems, and monobactams, and inactivate these antibiotics. We performed a rational and comprehensive investigation of β-lactamases in different biological databases. In this study, we constructed hidden Markov model profiles as well as the ancestral sequence of four classes of b-lactamases (A, B, C, and D), which were used to identify potential β-lactamases from environmental metagenomic (1206), human microbiome metagenomic (6417), human microbiome reference genome (1310), and NCBI's nonredundant databases (44101). Our analysis revealed the existence of putative β-lactamases in the metagenomic databases, which appeared to be similar to the four different molecular classes (A-D). This is the first report on the large-scale phylogenetic diversity of new members of β-lactamases, and our results revealed that metagenomic database dark-matter contains β-lactamase-like antibiotic resistance genes.
- Subjects
BETA lactamases; BACTERIA phylogeny; HUMAN microbiota; MARKOV processes; CARBAPENEMS
- Publication
Genome Biology & Evolution, 2018, Vol 10, Issue 4, p1106
- ISSN
1759-6653
- Publication type
Article
- DOI
10.1093/gbe/evy028