Genomic Inference of Recombination-Mediated Evolution in Xanthomonas euvesicatoria and X. perforans

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Population genomic insights into variation and evolution of Xanthomonas oryzae pv. oryzae

(2017) Samriti Midha et al.   Scientific Reports

How clonal are bacteria over time?

(2016) B Jesse Shapiro   CURRENT OPINION IN MICROBIOLOGY

EDGAR 2.0: an enhanced software platform for comparative gene content analyses

(2016) Jochen Blom et al.   NUCLEIC ACIDS RESEARCH

Steady at the wheel: conservative sex and the benefits of bacterial transformation

(2016) Ole Herman Ambur et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Analysis of Sequenced Genomes ofXanthomonas perforansIdentifies Candidate Targets for Resistance Breeding in Tomato

(2016) Sujan Timilsina et al.   PHYTOPATHOLOGY

A Multiplex Real-Time PCR Assay Differentiates Four Xanthomonas Species Associated with Bacterial Spot of Tomato

(2016) A. L. Strayer et al.   PLANT DISEASE

Not So Simple After All: Bacteria, Their Population Genetics, and Recombination

(2016) William P. Hanage   Cold Spring Harbor Perspectives in Biology

Recombination Does Not Hinder Formation or Detection of Ecological Species of Synechococcus Inhabiting a Hot Spring Cyanobacterial Mat

(2016) Melanie C. Melendrez et al.   Frontiers in Microbiology

Whole-Genome Sequences of Xanthomonas euvesicatoria Strains Clarify Taxonomy and Reveal a Stepwise Erosion of Type 3 Effectors

(2016) Jeri D. Barak et al.   Frontiers in Plant Science

Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host ranges

(2015) Jonathan L. Gordon et al.   BMC GENOMICS

Ecological genomics in Xanthomonas: the nature of genetic adaptation with homologous recombination and host shifts

(2015) Chao-Li Huang et al.   BMC GENOMICS

The Landscape of Realized Homologous Recombination in Pathogenic Bacteria

(2015) Koji Yahara et al.   MOLECULAR BIOLOGY AND EVOLUTION

Secretion systems in Gram-negative bacteria: structural and mechanistic insights

(2015) Tiago R. D. Costa et al.   NATURE REVIEWS MICROBIOLOGY

First Report of Atypical Xanthomonas euvesicatoria Strains Causing Bacterial Spot of Tomato in Nigeria

(2015) M. O. Jibrin et al.   PLANT DISEASE

Genetic characterization of strains named asXanthomonas axonopodispv.dieffenbachiaeleads to a taxonomic revision of theX. axonopodisspecies complex

(2015) E. C. Constantin et al.   PLANT PATHOLOGY

Recombinant transfer in the basic genome ofEscherichia coli

(2015) Purushottam D. Dixit et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rates of Lateral Gene Transfer in Prokaryotes: High but Why?

(2015) Michiel Vos et al.   TRENDS IN MICROBIOLOGY

ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

(2015) Xavier Didelot et al.   PLoS Computational Biology

Phylogenomics of Xanthomonas field strains infecting pepper and tomato reveals diversity in effector repertoires and identifies determinants of host specificity

(2015) Allison R. Schwartz et al.   Frontiers in Microbiology

Mechanisms and impact of genetic recombination in the evolution of Streptococcus pneumoniae

(2015) Chrispin Chaguza et al.   Computational and Structural Biotechnology Journal

Using Whole Genome Analysis to Examine Recombination across Diverse Sequence Types of Staphylococcus aureus

(2015) Elizabeth M. Driebe et al.   PLoS One

Multilocus Sequence Analysis of Xanthomonads Causing Bacterial Spot of Tomato and Pepper Plants Reveals Strains Generated by Recombination among Species and Recent Global Spread of Xanthomonas gardneri

(2014) Sujan Timilsina et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mobile elements drive recombination hotspots in the core genome of Staphylococcus aureus

(2014) Richard G. Everitt et al.   Nature Communications

Type III chaperones & Co in bacterial plant pathogens: a set of specialized bodyguards mediating effector delivery

(2014) David Lohou   Frontiers in Plant Science

Effects of DNA Size on Transformation and Recombination Efficiencies in Xylella fastidiosa

(2013) Stephanie H. Kung et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

GET_HOMOLOGUES, a Versatile Software Package for Scalable and Robust Microbial Pangenome Analysis

(2013) Bruno Contreras-Moreira et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Draft genome sequence of Xanthomonas fragariae reveals reductive evolution and distinct virulence-related gene content

(2013) Joachim Vandroemme et al.   BMC GENOMICS

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

IMG/M 4 version of the integrated metagenome comparative analysis system

(2013) Victor M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

Identification of Zeoliarus oppositus (Hemiptera: Cixiidae) as a Vector of ‘Candidatus Phytoplasma australiense’

(2013) C. J. Winks et al.   PLANT DISEASE

A genome-wide study of recombination rate variation in Bartonella henselae

(2012) Lionel Guy et al.   BMC EVOLUTIONARY BIOLOGY

Five Species of Xanthomonads Associated with Bacterial Leaf Spot Symptoms in Tomato from Tanzania

(2012) E. R. Mbega et al.   PLANT DISEASE

Comparative genomics reveals diversity among xanthomonads infecting tomato and pepper

(2011) Neha Potnis et al.   BMC GENOMICS

A Model for the Effect of Homologous Recombination on Microbial Diversification

(2011) James R. Doroghazi et al.   Genome Biology and Evolution

Analysing recombination in nucleotide sequences

(2011) DARREN P. MARTIN et al.   Molecular Ecology Resources

HrpG and HrpX Play Global Roles in Coordinating Different Virulence Traits ofXanthomonas axonopodispv.citri

(2011) Yinping Guo et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Pathogenomics of Xanthomonas: understanding bacterium–plant interactions

(2011) Robert P. Ryan et al.   NATURE REVIEWS MICROBIOLOGY

Detection of recombination events in bacterial genomes from large population samples

(2011) Pekka Marttinen et al.   NUCLEIC ACIDS RESEARCH

Recombination and Population Structure in Salmonella enterica

(2011) Xavier Didelot et al.   PLoS Genetics

Impact of recombination on bacterial evolution

(2010) Xavier Didelot et al.   TRENDS IN MICROBIOLOGY

Durability of Resistance in Tomato and Pepper to Xanthomonads Causing Bacterial Spot

(2009) Robert E. Stall et al.   Annual Review of Phytopathology

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

The type III effectors ofXanthomonas

(2009) FRANK F. WHITE et al.   MOLECULAR PLANT PATHOLOGY

Allelic Variants of thePseudomonas syringaeType III Effector HopZ1 Are Differentially Recognized by Plant Resistance Systems

(2009) Huanbin Zhou et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Shifting the genomic gold standard for the prokaryotic species definition

(2009) Michael Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA