The Prophage and Plasmid Mobilome as a Likely Driver of Mycobacterium abscessus Diversity

Mycobacterium abscessus Strain Morphotype Determines Phage Susceptibility, the Repertoire of Therapeutically Useful Phages, and Phage Resistance

(2021) Rebekah M. Dedrick et al.   mBio

The arms race between bacteria and their phage foes

(2020) Hannah G. Hampton et al.   NATURE

Protein-Mediated and RNA-Based Origins of Replication of Extrachromosomal Mycobacterial Prophages

(2020) Katherine S. Wetzel et al.   mBio

A bacterial cytidine deaminase toxin enables CRISPR-free mitochondrial base editing

(2020) Beverly Y. Mok et al.   NATURE

Structural characterization of three noncanonical NTF2-like superfamily proteins: implications for polyketide biosynthesis

(2020) Nemanja Vuksanovic et al.   Acta Crystallographica Section F-Structural Biology Communications

Phage Therapy in the Resistance Era: Where Do We Stand and Where Are We Going?

(2020) Tiffany Luong et al.   CLINICAL THERAPEUTICS

Characterization of integrated prophages within diverse species of clinical nontuberculous mycobacteria

(2020) Cody Glickman et al.   Virology Journal

Actinobacteriophages: Genomics, Dynamics, and Applications

(2020) Graham F. Hatfull   Annual Review of Virology

Yet More Evidence of Collusion: a New Viral Defense System Encoded by Gordonia Phage CarolAnn

(2019) Matthew T. Montgomery et al.   mBio

More Evidence of Collusion: a New Prophage-Mediated Viral Defense System Encoded by Mycobacteriophage Sbash

(2019) Gabrielle M. Gentile et al.   mBio

Engineered bacteriophages for treatment of a patient with a disseminated drug-resistant Mycobacterium abscessus

(2019) Rebekah M. Dedrick et al.   NATURE MEDICINE

Evolution of Superinfection Immunity in Cluster A Mycobacteriophages

(2019) Travis N. Mavrich et al.   mBio

The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities

(2019) James J Davis et al.   NUCLEIC ACIDS RESEARCH

Blending genomes: distributive conjugal transfer in mycobacteria, a sexier form of HGT

(2018) Todd A. Gray et al.   MOLECULAR MICROBIOLOGY

Identification of genes required forMycobacterium abscessusgrowth in vivo with a prominent role of the ESX-4 locus

(2018) Laura Laencina et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mycobacterium abscessus ESX-3 plays an important role in host inflammatory and pathological responses during infection

(2017) Yi Sak Kim et al.   MICROBES AND INFECTION

Bacteriophages of Gordonia spp. Display a Spectrum of Diversity and Genetic Relationships

(2017) Welkin H. Pope et al.   mBio

Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads

(2017) Ryan R. Wick et al.   PLoS Computational Biology

Prophage-mediated defence against viral attack and viral counter-defence

(2017) Rebekah M. Dedrick et al.   Nature Microbiology

PhagesDB: the actinobacteriophage database

(2016) Daniel A Russell et al.   BIOINFORMATICS

Mycobacterial Pan-Genome Analysis Suggests Important Role of Plasmids in the Radiation of Type VII Secretion Systems

(2016) Emilie Dumas et al.   Genome Biology and Evolution

Prophages mediate defense against phage infection through diverse mechanisms

(2016) Joseph Bondy-Denomy et al.   ISME Journal

Function, expression, specificity, diversity and incompatibility of actinobacteriophageparABSsystems

(2016) Rebekah M. Dedrick et al.   MOLECULAR MICROBIOLOGY

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

Fast and sensitive mapping of nanopore sequencing reads with GraphMap

(2016) Ivan Sović et al.   Nature Communications

Mycobacteriophage-repressor-mediated immunity as a selectable genetic marker: Adephagia and BPs repressor selection

(2015) Zaritza O. Petrova et al.   MICROBIOLOGY-SGM

The tuberculosis necrotizing toxin kills macrophages by hydrolyzing NAD

(2015) Jim Sun et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

New Players in the Toxin Field: Polymorphic Toxin Systems in Bacteria

(2015) Anne Jamet et al.   mBio

The tuberculosis necrotizing toxin kills macrophages by hydrolyzing NAD

(2015) Jim Sun et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity

(2015) Welkin H Pope et al.   eLife

Mycobacteriophage-drived diversification of Mycobacterium abscessus

(2014) Mohamed Sassi et al.   Biology Direct

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

(2014) Hongshan Jiang et al.   BMC BIOINFORMATICS

Genome Sequencing of Mycobacterium abscessus Isolates from Patients in the United States and Comparisons to Globally Diverse Clinical Strains

(2014) R. M. Davidson et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms

(2014) Rolf S. Kaas et al.   PLoS One

Identification of a Novel Conjugative Plasmid in Mycobacteria That Requires Both Type IV and Type VII Secretion

(2014) R. Ummels et al.   mBio

Remarkable Mechanisms in Microbes to Resist Phage Infections

(2014) Ron L. Dy et al.   Annual Review of Virology

Consed: a graphical editor for next-generation sequencing

(2013) David Gordon et al.   BIOINFORMATICS

Cluster M Mycobacteriophages Bongo, PegLeg, and Rey with Unusually Large Repertoires of tRNA Isotypes

(2013) W. H. Pope et al.   JOURNAL OF VIROLOGY

Polymorphic toxin systems: Comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics

(2012) Dapeng Zhang et al.   Biology Direct

Draft Genome Sequence of Mycobacterium abscessus subsp. bolletii BDT

(2012) G.-E. Choi et al.   JOURNAL OF BACTERIOLOGY

Complete Genome Sequence of Mycobacterium massiliense

(2012) T. Raiol et al.   JOURNAL OF BACTERIOLOGY

Integration-Dependent Bacteriophage Immunity Provides Insights into the Evolution of Genetic Switches

(2012) Gregory W. Broussard et al.   MOLECULAR CELL

On the nature of mycobacteriophage diversity and host preference

(2012) Deborah Jacobs-Sera et al.   VIROLOGY

Phamerator: a bioinformatic tool for comparative bacteriophage genomics

(2011) Steven G Cresawn et al.   BMC BIOINFORMATICS

Comparative Genomic Analysis of 60 Mycobacteriophage Genomes: Genome Clustering, Gene Acquisition, and Gene Size

(2010) Graham F. Hatfull et al.   JOURNAL OF MOLECULAR BIOLOGY

Non Mycobacterial Virulence Genes in the Genome of the Emerging Pathogen Mycobacterium abscessus

(2009) Fabienne Ripoll et al.   PLoS One

The phage abortive infection system, ToxIN, functions as a protein–RNA toxin–antitoxin pair

(2009) Peter C. Fineran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

BRED: A Simple and Powerful Tool for Constructing Mutant and Recombinant Bacteriophage Genomes

(2008) Laura J. Marinelli et al.   PLoS One