Widespread transfer of mobile antibiotic resistance genes within individual gut microbiomes revealed through bacterial Hi-C
Published 2020 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Widespread transfer of mobile antibiotic resistance genes within individual gut microbiomes revealed through bacterial Hi-C
Authors
Keywords
-
Journal
Nature Communications
Volume 11, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2020-09-01
DOI
10.1038/s41467-020-18164-7
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Linking the resistome and plasmidome to the microbiome
- (2019) Thibault Stalder et al. ISME Journal
- Hybrid metagenomic assembly enables high-resolution analysis of resistance determinants and mobile elements in human microbiomes
- (2019) Denis Bertrand et al. NATURE BIOTECHNOLOGY
- MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies
- (2019) Dongwan D. Kang et al. PeerJ
- Salmonella persisters promote the spread of antibiotic resistance plasmids in the gut
- (2019) Erik Bakkeren et al. NATURE
- Comprehensive analysis of chromosomal mobile genetic elements in the gut microbiome reveals phylum-level niche-adaptive gene pools
- (2019) Xiaofang Jiang et al. PLoS One
- Tracking microbial evolution in the human gut using Hi-C reveals extensive horizontal gene transfer, persistence and adaptation
- (2019) Eitan Yaffe et al. Nature Microbiology
- Comparative genomic analysis of novel bacteriophages infecting Vibrio parahaemolyticus isolated from western and southern coastal areas of Korea
- (2018) Junhyeok Yu et al. ARCHIVES OF VIROLOGY
- PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures
- (2018) Pawel S Krawczyk et al. NUCLEIC ACIDS RESEARCH
- Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen
- (2018) Robert D. Stewart et al. Nature Communications
- Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
- (2018) Christian M. K. Sieber et al. Nature Microbiology
- Methicillin-Resistant Staphylococcus aureus: Molecular Characterization, Evolution, and Epidemiology
- (2018) Sahreena Lakhundi et al. CLINICAL MICROBIOLOGY REVIEWS
- metaSPAdes: a new versatile metagenomic assembler
- (2017) Sergey Nurk et al. GENOME RESEARCH
- Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software
- (2017) Alexander Sczyrba et al. NATURE METHODS
- Inflammation boosts bacteriophage transfer between Salmonella spp.
- (2017) Médéric Diard et al. SCIENCE
- Scaffolding bacterial genomes and probing host-virus interactions in gut microbiome by proximity ligation (chromosome capture) assay
- (2017) Martial Marbouty et al. Science Advances
- Aminoglycoside Resistance
- (2016) Yohei Doi et al. INFECTIOUS DISEASE CLINICS OF NORTH AMERICA
- Mobile genes in the human microbiome are structured from global to individual scales
- (2016) I. L. Brito et al. NATURE
- PHASTER: a better, faster version of the PHAST phage search tool
- (2016) David Arndt 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
- Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability
- (2016) Moran Yassour et al. Science Translational Medicine
- Topoisomerase Inhibitors: Fluoroquinolone Mechanisms of Action and Resistance
- (2016) David C. Hooper et al. Cold Spring Harbor Perspectives in Medicine
- More Is Better: Selecting for Broad Host Range Bacteriophages
- (2016) Alexa Ross et al. Frontiers in Microbiology
- Faecalibacterium prausnitzii A2-165 has a high capacity to induce IL-10 in human and murine dendritic cells and modulates T cell responses
- (2016) Oriana Rossi et al. Scientific Reports
- MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
- (2015) Yu-Wei Wu et al. BIOINFORMATICS
- The Pfam protein families database: towards a more sustainable future
- (2015) Robert D. Finn et al. NUCLEIC ACIDS RESEARCH
- Temperate and lytic bacteriophages programmed to sensitize and kill antibiotic-resistant bacteria
- (2015) Ido Yosef et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED
- (2015) James Kaminski et al. PLoS Computational Biology
- Insights into the Role of Erysipelotrichaceae in the Human Host
- (2015) Nadeem O. Kaakoush Frontiers in Cellular and Infection Microbiology
- In SilicoDetection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing
- (2014) Alessandra Carattoli et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- Extensive Horizontal Gene Transfer during Staphylococcus aureus Co-colonization In Vivo
- (2014) Alex J. McCarthy et al. Genome Biology and Evolution
- Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology
- (2014) Molly K Gibson et al. ISME Journal
- Prevalence of Antimicrobial Use in US Acute Care Hospitals, May-September 2011
- (2014) Shelley S. Magill et al. JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
- Minor Fitness Costs in an Experimental Model of Horizontal Gene Transfer in Bacteria
- (2014) Anna Knöppel et al. MOLECULAR BIOLOGY AND EVOLUTION
- Sequence-specific antimicrobials using efficiently delivered RNA-guided nucleases
- (2014) Robert J Citorik et al. NATURE BIOTECHNOLOGY
- Binning metagenomic contigs by coverage and composition
- (2014) Johannes Alneberg et al. NATURE METHODS
- Species-Level Deconvolution of Metagenome Assemblies with Hi-C–Based Contact Probability Maps
- (2014) Joshua N. Burton et al. G3-Genes Genomes Genetics
- Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms
- (2014) Martial Marbouty et al. eLife
- Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products
- (2014) Christopher W. Beitel et al. PeerJ
- Horizontal gene transfer in the human gastrointestinal tract: potential spread of antibiotic resistance genes
- (2014) Jennifer R Huddleston Infection and Drug Resistance
- The Comprehensive Antibiotic Resistance Database
- (2013) Andrew G. McArthur et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome
- (2013) Sheetal R. Modi et al. NATURE
- Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions
- (2013) Jaina Mistry et al. NUCLEIC ACIDS RESEARCH
- PATRIC, the bacterial bioinformatics database and analysis resource
- (2013) Alice R. Wattam et al. NUCLEIC ACIDS RESEARCH
- Cytotoxic Chromosomal Targeting by CRISPR/Cas Systems Can Reshape Bacterial Genomes and Expel or Remodel Pathogenicity Islands
- (2013) Reuben B. Vercoe et al. PLoS Genetics
- Quality control and preprocessing of metagenomic datasets
- (2011) R. Schmieder et al. BIOINFORMATICS
- Ecology drives a global network of gene exchange connecting the human microbiome
- (2011) Chris S. Smillie et al. NATURE
- Prodigal: prokaryotic gene recognition and translation initiation site identification
- (2010) Doug Hyatt et al. BMC BIOINFORMATICS
- Fast and accurate short read alignment with Burrows-Wheeler transform
- (2009) H. Li et al. BIOINFORMATICS
- Genome assembly reborn: recent computational challenges
- (2009) M. Pop BRIEFINGS IN BIOINFORMATICS
- Plasmid-Mediated Quinolone Resistance: a Multifaceted Threat
- (2009) J. Strahilevitz et al. CLINICAL MICROBIOLOGY REVIEWS
- ACLAME: A CLAssification of Mobile genetic Elements, update 2010
- (2009) Raphaël Leplae et al. NUCLEIC ACIDS RESEARCH
- Functional Characterization of the Antibiotic Resistance Reservoir in the Human Microflora
- (2009) M. O. A. Sommer et al. SCIENCE
- Genetic diversity and composition of a plasmid metagenome from a wastewater treatment plant
- (2008) Andreas Schlüter et al. JOURNAL OF BIOTECHNOLOGY
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationCreate your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create Now