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

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

Genomic Insights into the Evolutionary Origin of Xanthomonas axonopodis pv. citri and Its Ecological Relatives

(2014) Samriti Midha et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Selecting optimal partitioning schemes for phylogenomic datasets

(2014) Robert Lanfear et al.   BMC EVOLUTIONARY BIOLOGY

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

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

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

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Nonagricultural reservoirs contribute to emergence and evolution ofPseudomonas syringaecrop pathogens

(2013) Caroline L. Monteil et al.   NEW PHYTOLOGIST

Evolutionary History of the Plant Pathogenic Bacterium Xanthomonas axonopodis

(2013) Nadia Mhedbi-Hajri et al.   PLoS One

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Transgenic Resistance Confers Effective Field Level Control of Bacterial Spot Disease in Tomato

(2012) Diana M. Horvath et al.   PLoS One

High-throughput genomic sequencing of cassava bacterial blight strains identifies conserved effectors to target for durable resistance

(2012) R. Bart et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plant–pathogen interactions: disease resistance in modern agriculture

(2012) Lesley A. Boyd et al.   TRENDS IN GENETICS

Genome-Wide Sequencing Reveals Two Major Sub-Lineages in the Genetically Monomorphic Pathogen Xanthomonas Campestris Pathovar Musacearum

(2012) Arthur Wasukira et al.   Genes

Comparative genomics reveals diversity among xanthomonads infecting tomato and pepper

(2011) Neha Potnis et al.   BMC GENOMICS

Comparative Genomic Analysis of Xanthomonas axonopodis pv. citrumelo F1, Which Causes Citrus Bacterial Spot Disease, and Related Strains Provides Insights into Virulence and Host Specificity

(2011) Neha Jalan et al.   JOURNAL OF BACTERIOLOGY

Avirulence Proteins AvrBs7 fromXanthomonas gardneriand AvrBs1.1 fromXanthomonas euvesicatoriaContribute to a Novel Gene-for-Gene Interaction in Pepper

(2011) Neha Potnis et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

First Report of Xanthomonas gardneri Causing Bacterial Spot of Tomato in Ohio and Michigan

(2011) X. Ma et al.   PLANT DISEASE

Novel insights into the genomic basis of citrus canker based on the genome sequences of two strains of Xanthomonas fuscans subsp. aurantifolii

(2010) Leandro M Moreira et al.   BMC GENOMICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

FASconCAT: Convenient handling of data matrices

(2010) Patrick Kück et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Xanthomonas campestrispv.vesicatoriaEffector AvrBsT Induces Cell Death in Pepper, but Suppresses Defense Responses in Tomato

(2010) Nak Hyun Kim et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

GUIDANCE: a web server for assessing alignment confidence scores

(2010) O. Penn et al.   NUCLEIC ACIDS RESEARCH

PAMDB, A Multilocus Sequence Typing and Analysis Database and Website for Plant-Associated Microbes

(2010) Nalvo F. Almeida et al.   PHYTOPATHOLOGY

Genetic and Pathological Diversity Among Xanthomonas Strains Responsible for Bacterial Spot on Tomato and Pepper in the Southwest Indian Ocean Region

(2010) A. A. Hamza et al.   PLANT DISEASE

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

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

How Xanthomonas type III effectors manipulate the host plant

(2009) Sabine Kay et al.   CURRENT OPINION IN MICROBIOLOGY

Phylogenetic structure of Xanthomonas determined by comparison of gyrB sequences

(2009) N. Parkinson et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

A «Repertoire for Repertoire» Hypothesis: Repertoires of Type Three Effectors are Candidate Determinants of Host Specificity in Xanthomonas

(2009) Ahmed Hajri et al.   PLoS One

Characterization of AvrHah1, a novel AvrBs3-like effector fromXanthomonas gardneriwith virulence and avirulence activity

(2008) Sebastian Schornack et al.   NEW PHYTOLOGIST

A multilocus sequence analysis of the genus Xanthomonas

(2008) J.M. Young et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY