Metagenomic analysis reveals the shared and distinct features of the soil resistome across tundra, temperate prairie, and tropical ecosystems

Glycopeptide Antibiotic Resistance Genes: Distribution and Function in the Producer Actinomycetes

(2020) Oleksandr Yushchuk et al.   Frontiers in Microbiology

Metagenomic characterization of antibiotic resistance genes in Antarctic soils

(2019) Ke Yuan et al.   ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY

Review, Evaluation, and Directions for Gene-Targeted Assembly for Ecological Analyses of Metagenomes

(2019) Jiarong Guo et al.   Frontiers in Genetics

ARGs-OAP v2.0 with an expanded SARG database and Hidden Markov Models for enhancement characterization and quantification of antibiotic resistance genes in environmental metagenomes

(2018) Xiaole Yin et al.   BIOINFORMATICS

The fate of antibiotic resistance genes and their potential hosts during bio-electrochemical treatment of high-salinity pharmaceutical wastewater

(2018) Ning Guo et al.   WATER RESEARCH

Tracking antibiotic resistance gene pollution from different sources using machine-learning classification

(2018) Li-Guan Li et al.   Microbiome

A reservoir of ‘historical’ antibiotic resistance genes in remote pristine Antarctic soils

(2018) Marc W. Van Goethem et al.   Microbiome

DeepARG: a deep learning approach for predicting antibiotic resistance genes from metagenomic data

(2018) Gustavo Arango-Argoty et al.   Microbiome

Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity

(2018) Luis M. Rodriguez-R et al.   mSystems

Microbes follow Humboldt: temperature drives plant and soil microbial diversity patterns from the Amazon to the Andes

(2018) Andrew T. Nottingham et al.   ECOLOGY

Structure and function of the global topsoil microbiome

(2018) Mohammad Bahram et al.   NATURE

Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States

(2018) Rachel Mackelprang et al.   Frontiers in Microbiology

Long-Term Effect of Different Fertilization and Cropping Systems on the Soil Antibiotic Resistome

(2018) Fang Wang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Antibiotic Resistance Genes and Associated Microbial Community Conditions in Aging Landfill Systems

(2017) Dong Wu et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Warming enhances old organic carbon decomposition through altering functional microbial communities

(2017) Lei Cheng et al.   ISME Journal

Prevalence of antibiotic resistance genes in soils after continually applied with different manure for 30 years

(2017) Shuang Peng et al.   JOURNAL OF HAZARDOUS MATERIALS

A communal catalogue reveals Earth’s multiscale microbial diversity

(2017) Luke R. Thompson et al.   NATURE

Vinasse fertirrigation alters soil resistome dynamics: an analysis based on metagenomic profiles

(2017) Lucas P. P. Braga et al.   BioData Mining

ARGs-OAP: online analysis pipeline for antibiotic resistance genes detection from metagenomic data using an integrated structured ARG-database

(2016) Ying Yang et al.   BIOINFORMATICS

Long-term field application of sewage sludge increases the abundance of antibiotic resistance genes in soil

(2016) Qinglin Chen et al.   ENVIRONMENT INTERNATIONAL

Influence of Soil Characteristics and Proximity to Antarctic Research Stations on Abundance of Antibiotic Resistance Genes in Soils

(2016) Fang Wang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Variable effects of oxytetracycline on antibiotic resistance gene abundance and the bacterial community during aerobic composting of cow manure

(2016) Xun Qian et al.   JOURNAL OF HAZARDOUS MATERIALS

Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center

(2016) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database

(2016) Baofeng Jia et al.   NUCLEIC ACIDS RESEARCH

Clusters of Antibiotic Resistance Genes Enriched Together Stay Together in Swine Agriculture

(2016) Timothy A. Johnson et al.   mBio

Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem

(2016) Eric R. Johnston et al.   Frontiers in Microbiology

Microbial Community Analysis with Ribosomal Gene Fragments from Shotgun Metagenomes

(2015) Jiarong Guo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Co-occurrence of resistance genes to antibiotics, biocides and metals reveals novel insights into their co-selection potential

(2015) Chandan Pal et al.   BMC GENOMICS

Metagenomic Assembly Reveals Hosts of Antibiotic Resistance Genes and the Shared Resistome in Pig, Chicken, and Human Feces

(2015) Liping Ma et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Metagenomic and network analysis reveal wide distribution and co-occurrence of environmental antibiotic resistance genes

(2015) Bing Li et al.   ISME Journal

Xander: employing a novel method for efficient gene-targeted metagenomic assembly

(2015) Qiong Wang et al.   Microbiome

Plant diversity predicts beta but not alpha diversity of soil microbes across grasslands worldwide

(2014) Suzanne M. Prober et al.   ECOLOGY LETTERS

Prevalence of Antibiotic Resistance Genes and Bacterial Pathogens in Long-Term Manured Greenhouse Soils As Revealed by Metagenomic Survey

(2014) Hua Fang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

High Throughput Profiling of Antibiotic Resistance Genes in Urban Park Soils with Reclaimed Water Irrigation

(2014) Feng-Hua Wang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology

(2014) Molly K Gibson et al.   ISME Journal

What is a resistance gene? Ranking risk in resistomes

(2014) José L. Martínez et al.   NATURE REVIEWS MICROBIOLOGY

Tackling soil diversity with the assembly of large, complex metagenomes

(2014) Adina Chuang Howe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of the natural environment in the emergence of antibiotic resistance in Gram-negative bacteria

(2013) Elizabeth MH Wellington et al.   LANCET INFECTIOUS DISEASES

Diverse and abundant antibiotic resistance genes in Chinese swine farms

(2013) Yong-Guan Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The soil resistome: The anthropogenic, the native, and the unknown

(2013) Eddie Cytryn   SOIL BIOLOGY & BIOCHEMISTRY

Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities

(2012) J. L. M. Rodrigues et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Antibiotic resistance is ancient

(2011) Vanessa M. D’Costa et al.   NATURE

Acquired Antibiotic Resistance Genes: An Overview

(2011) Angela H. A. M. van Hoek et al.   Frontiers in Microbiology

Novel Florfenicol and Chloramphenicol Resistance Gene Discovered in Alaskan Soil by Using Functional Metagenomics

(2010) K. S. Lang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

Effects of experimental warming of air, soil and permafrost on carbon balance in Alaskan tundra

(2010) SUSAN M. NATALI et al.   GLOBAL CHANGE BIOLOGY

Origins and Evolution of Antibiotic Resistance

(2010) J. Davies et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Update on macrolide-lincosamide-streptogramin, ketolide, and oxazolidinone resistance genes

(2008) Marilyn C. Roberts   FEMS MICROBIOLOGY LETTERS

Functional metagenomics reveals diverse β-lactamases in a remote Alaskan soil

(2008) Heather K Allen et al.   ISME Journal

Bacteria Subsisting on Antibiotics

(2008) G. Dantas et al.   SCIENCE