Online searching platform for the antibiotic resistome in bacterial tree of life and global habitats

ABSTRACT Metagenomic analysis reveals that antibiotic-resistance genes (ARGs) are widely distributed in both human-associated and non-human-associated habitats. However, it is difficult to equally compare ARGs between samples without a standard method. Here, we constructed a comprehensive profile of...

Full description

Saved in:
Bibliographic Details
Published in:FEMS microbiology ecology Vol. 96; no. 7; p. 1
Main Authors: Zhang, An Ni, Hou, Chen-Ju, Negi, Mishty, Li, Li-Guan, Zhang, Tong
Format: Journal Article
Language:English
Published: England Oxford University Press 01.07.2020
Subjects:
Amides
Antibiotic resistance
Antibiotics
Bacteria
Drug resistance
Drug resistance in microorganisms
Ecology
Genes
Genetic aspects
Genomes
Habitats
Internet
Metagenomics
Microbiological research
Microbiology
β Lactamase
β-Lactam antibiotics
China
metagenomic analysis
anthropogenicity
environmental selection
global antibiotic resistome
genomic analysis
Genomic analysis
ISSN:0168-6496, 1574-6941, 1574-6941
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:ABSTRACT Metagenomic analysis reveals that antibiotic-resistance genes (ARGs) are widely distributed in both human-associated and non-human-associated habitats. However, it is difficult to equally compare ARGs between samples without a standard method. Here, we constructed a comprehensive profile of the distribution of potential ARGs in bacterial tree of life and global habitats by investigating ARGs in 55 000 bacterial genomes, 16 000 bacterial plasmid sequences, 3000 bacterial integron sequences and 850 metagenomes using a standard pipeline. We found that >80% of all known ARGs are not carried by any plasmid or integron sequences. Among potential mobile ARGs, tetracycline and beta-lactam resistance genes (such as tetA, tetM and class A beta-lactamase gene) distribute in multiple pathogens across bacterial phyla, indicating their clinical relevance and importance. We showed that class 1 integrases (intI1) display a poor linear relationship with total ARGs in both non-human-associated and human-associated environments. Furthermore, both total ARGs and intI1 genes show little correlation with the degree of anthropogenicity. These observations highlight the need to differentiate ARGs of high clinical relevance. This profile is published on an online platform (ARGs-OSP, http://args-osp.herokuapp.com/) as a valuable resource for the most challenging topics in this field, i.e. the risk, evolution and emergence of ARGs. Online searching platform for antibiotic resistome in bacterial tree of life and global habitats by big data mining into 54 718 bacterial genomes, 15 738 bacterial plasmids, 3000 bacterial integrons and 854 environmental metagenomes.
Bibliography:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 14
content type line 23
ISSN:0168-6496
1574-6941
1574-6941
DOI:10.1093/femsec/fiaa107