Harnessing Population Genomics to Understand How Bacterial Pathogens Emerge, Adapt to Crop Hosts, and Disseminate

Impacts of Resistance Gene Genetics, Function, and Evolution on a Durable Future

(2013) Richard W. Michelmore et al.   Annual Review of Phytopathology

The Life History ofPseudomonas syringae: Linking Agriculture to Earth System Processes

(2013) Cindy E. Morris et al.   Annual Review of Phytopathology

Phylogeography and population structure of the biologically invasive phytopathogenErwinia amylovorainferred using minisatellites

(2013) Andreas Bühlmann et al.   ENVIRONMENTAL MICROBIOLOGY

Methods to Study PAMP-Triggered Immunity inBrassicaSpecies

(2013) Simon R. Lloyd et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Population genomics of post-vaccine changes in pneumococcal epidemiology

(2013) Nicholas J Croucher et al.   NATURE GENETICS

Nonagricultural reservoirs contribute to emergence and evolution ofPseudomonas syringaecrop pathogens

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

Allelic variation in two distinctPseudomonas syringaeflagellin epitopes modulates the strength of plant immune responses but not bacterial motility

(2013) Christopher R. Clarke et al.   NEW PHYTOLOGIST

Autochthonous Mouse Melanoma and Mammary Tumors do not Express the Pluripotency Genes Oct4 and Nanog

(2013) Caroline Schreiber et al.   PLoS One

Comparative Genomics of 12 Strains of Erwinia amylovora Identifies a Pan-Genome with a Large Conserved Core

(2013) Rachel A. Mann et al.   PLoS One

Evolutionary History of the Plant Pathogenic Bacterium Xanthomonas axonopodis

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

Genome-wide association study identifies vitamin B5 biosynthesis as a host specificity factor in Campylobacter

(2013) S. K. Sheppard et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pivoting the Plant Immune System from Dissection to Deployment

(2013) J. L. Dangl et al.   SCIENCE

Genomic Analysis of the Kiwifruit Pathogen Pseudomonas syringae pv. actinidiae Provides Insight into the Origins of an Emergent Plant Disease

(2013) Honour C. McCann et al.   PLoS Pathogens

Pathogenomics of theRalstonia solanacearumSpecies Complex

(2012) Stéphane Genin et al.   Annual Review of Phytopathology

Fire Blight: Applied Genomic Insights of the Pathogen and Host

(2012) Mickael Malnoy et al.   Annual Review of Phytopathology

Detecting Genetic Introgression: High Levels of Intersubspecific Recombination Found in Xylella fastidiosa in Brazil

(2012) Leonard Nunney et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic Analysis and Polyphasic Characterization of Clavibacter michiganensis Strains Isolated from Tomato Seeds Reveal that Nonpathogenic Strains Are Distinct from C. michiganensis subsp. michiganensis

(2012) Marie-Agnès Jacques et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Multilocus microsatellite analysis of 'Candidatus Liberibacter asiaticus' associated with citrus Huanglongbing worldwide

(2012) Md-Sajedul Islam et al.   BMC MICROBIOLOGY

Extensive remodeling of the Pseudomonas syringae pv. avellanae type III secretome associated with two independent host shifts onto hazelnut

(2012) Heath E O’Brien et al.   BMC MICROBIOLOGY

Plant–bacterial pathogen interactions mediated by type III effectors

(2012) Feng Feng et al.   CURRENT OPINION IN PLANT BIOLOGY

Plant pattern recognition receptor complexes at the plasma membrane

(2012) Jacqueline Monaghan et al.   CURRENT OPINION IN PLANT BIOLOGY

Characterization of Clavibacter michiganensis subsp. michiganensis strains from recent outbreaks of bacterial wilt and canker in Serbia

(2012) Svetlana Milijašević-Marčić et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

'Candidatus Phytoplasma pruni', a novel taxon associated with X-disease of stone fruits, Prunus spp.: multilocus characterization based on 16S rRNA, secY, and ribosomal protein genes

(2012) R. E. Davis et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Pseudomonas syringae naturally lacking the canonical type III secretion system are ubiquitous in nonagricultural habitats, are phylogenetically diverse and can be pathogenic

(2012) Moudjahidou Demba Diallo et al.   ISME Journal

Flagellin Perception Varies Quantitatively in Arabidopsis thaliana and Its Relatives

(2012) M. M. Vetter et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transforming clinical microbiology with bacterial genome sequencing

(2012) Xavier Didelot et al.   NATURE REVIEWS GENETICS

Contamination Risks in Work with Synthetic Peptides: flg22 as an Example of a Pirate in Commercial Peptide Preparations

(2012) K. Mueller et al.   PLANT CELL

Pseudomonas syringae pv. actinidiae (PSA) Isolates from Recent Bacterial Canker of Kiwifruit Outbreaks Belong to the Same Genetic Lineage

(2012) Angelo Mazzaglia et al.   PLoS One

Supertertiary structure of the synaptic MAGuK scaffold proteins is conserved

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

Evolutionary dynamics of Staphylococcus aureus during progression from carriage to disease

(2012) B. C. Young et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Historical variations in mutation rate in an epidemic pathogen, Yersinia pestis

(2012) Y. Cui et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular tracing of the emergence, adaptation, and transmission of hospital-associated methicillin-resistant Staphylococcus aureus

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

Population Genomics of Early Events in the Ecological Differentiation of Bacteria

(2012) B. J. Shapiro et al.   SCIENCE

MultiLocus Sequence Analysis- and Amplified Fragment Length Polymorphism-based characterization of xanthomonads associated with bacterial spot of tomato and pepper and their relatedness to Xanthomonas species

(2012) A.A. Hamza et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Revised Phylogeny and Novel Horizontally Acquired Virulence Determinants of the Model Soft Rot Phytopathogen Pectobacterium wasabiae SCC3193

(2012) Johanna Nykyri et al.   PLoS Pathogens

Multilocus Sequence Typing as a Replacement for Serotyping in Salmonella enterica

(2012) Mark Achtman et al.   PLoS Pathogens

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

(2012) Arthur Wasukira et al.   Genes

Understanding and Exploiting Late Blight Resistance in the Age of Effectors

(2011) Vivianne G.A.A. Vleeshouwers et al.   Annual Review of Phytopathology

Natural Competence and Recombination in the Plant Pathogen Xylella fastidiosa

(2011) Stephanie H. Kung et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Sensing and adhesion are adaptive functions in the plant pathogenic xanthomonads

(2011) Nadia Mhedbi-Hajri et al.   BMC EVOLUTIONARY BIOLOGY

Comparative genomics reveals diversity among xanthomonads infecting tomato and pepper

(2011) Neha Potnis et al.   BMC GENOMICS

Emigration of the plant pathogen Pseudomonas syringae from leaf litter contributes to its population dynamics in alpine snowpack

(2011) Caroline L. Monteil et al.   ENVIRONMENTAL MICROBIOLOGY

Reconstructing host range evolution of bacterial plant pathogens using Pseudomonas syringae pv. tomato and its close relatives as a model

(2011) Rongman Cai et al.   INFECTION GENETICS AND EVOLUTION

Contrasting recombination patterns and demographic histories of the plant pathogen Ralstonia solanacearum inferred from MLSA

(2011) Emmanuel Wicker et al.   ISME Journal

Two New Complete Genome Sequences Offer Insight into Host and Tissue Specificity of Plant Pathogenic Xanthomonas spp.

(2011) A. J. Bogdanove et al.   JOURNAL OF BACTERIOLOGY

Degeneration of hrpZ gene in Pseudomonas syringae pv. tabaci to evade tobacco defence: an arms race between tobacco and its bacterial pathogen

(2011) KAZUHIKO TSUNEMI et al.   MOLECULAR PLANT PATHOLOGY

Multilocus Sequence Typing ofPseudomonas syringaeSensu Lato Confirms Previously Described Genomospecies and Permits Rapid Identification ofP. syringaepv.coriandricolaandP. syringaepv.apiiCausing Bacterial Leaf Spot on Parsley

(2011) Carolee T. Bull et al.   PHYTOPATHOLOGY

Interfamily Transfer of Tomato Ve1 Mediates Verticillium Resistance in Arabidopsis

(2011) E. F. Fradin et al.   PLANT PHYSIOLOGY

Ralstonia syzygii, the Blood Disease Bacterium and Some Asian R. solanacearum Strains Form a Single Genomic Species Despite Divergent Lifestyles

(2011) Benoît Remenant et al.   PLoS One

Rapid Pneumococcal Evolution in Response to Clinical Interventions

(2011) N. J. Croucher et al.   SCIENCE

The Plant Pathogen Pseudomonas syringae pv. tomato Is Genetically Monomorphic and under Strong Selection to Evade Tomato Immunity

(2011) Rongman Cai et al.   PLoS Pathogens

Dynamic Evolution of Pathogenicity Revealed by Sequencing and Comparative Genomics of 19 Pseudomonas syringae Isolates

(2011) David A. Baltrus et al.   PLoS Pathogens

Genomes of three tomato pathogens within the Ralstonia solanacearum species complex reveal significant evolutionary divergence

(2010) Benoît Remenant et al.   BMC GENOMICS

So similar, yet so different: uncovering distinctive features in the genomes of Salmonella enterica serovars Typhimurium and Typhi

(2010) Sébastien C. Sabbagh et al.   FEMS MICROBIOLOGY LETTERS

Evolutionary insights from Erwinia amylovora genomics

(2010) Theo H.M. Smits et al.   JOURNAL OF BIOTECHNOLOGY

Multilocus sequence analysis reveals the genetic diversity of European fruit tree phytoplasmas and supports the existence of inter-species recombination

(2010) Jean Luc Danet et al.   MICROBIOLOGY-SGM

Pseudomonas syringaeStrains Naturally Lacking the ClassicalP. syringae hrp/hrcLocus Are Common Leaf Colonizers Equipped with an Atypical Type III Secretion System

(2010) Christopher R. Clarke et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Molecular and Evolutionary Analyses ofPseudomonas syringaepv.tomatoRace 1

(2010) Suparat Kunkeaw et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Understanding the Plant Immune System

(2010) Fumiaki Katagiri et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Complete Genome Sequence of the Fire Blight PathogenErwinia amylovoraCFBP 1430 and Comparison to OtherErwiniaspp.

(2010) Theo H. M. Smits et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Ralstonia solanacearumVirulence Increased Following Large Interstrain Gene Transfers by Natural Transformation

(2010) Bénédicte Coupat-Goutaland et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Interfamily transfer of a plant pattern-recognition receptor confers broad-spectrum bacterial resistance

(2010) Séverine Lacombe et al.   NATURE BIOTECHNOLOGY

Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity

(2010) Giovanna Morelli et al.   NATURE GENETICS

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

(2010) Nalvo F. Almeida et al.   PHYTOPATHOLOGY

Comparative Genome Analysis Provides Insights into the Evolution and Adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum

(2010) Sarah Green et al.   PLoS One

Population Genomic Analysis of a Bacterial Plant Pathogen: Novel Insight into the Origin of Pierce's Disease of Grapevine in the U.S.

(2010) Leonard Nunney et al.   PLoS One

A multilocus sequence analysis of Xanthomonas campestris reveals a complex structure within crucifer-attacking pathovars of this species

(2010) E. Fargier et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Impact of recombination on bacterial evolution

(2010) Xavier Didelot et al.   TRENDS IN MICROBIOLOGY

Inferring the Evolutionary History of the Plant Pathogen Pseudomonas syringae from Its Biogeography in Headwaters of Rivers in North America, Europe, and New Zealand

(2010) C. E. Morris et al.   mBio

Microevolution of Helicobacter pylori during Prolonged Infection of Single Hosts and within Families

(2010) Giovanna Morelli et al.   PLoS Genetics

A Timescale for Evolution, Population Expansion, and Spatial Spread of an Emerging Clone of Methicillin-Resistant Staphylococcus aureus

(2010) Ulrich Nübel et al.   PLoS Pathogens

Phylogeny and Virulence of Naturally Occurring Type III Secretion System-Deficient Pectobacterium Strains

(2009) H.-S. Kim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Bacterial Evolution by Genomic Island Transfer Occurs via DNA Transformation In Planta

(2009) Helen C. Lovell et al.   CURRENT BIOLOGY

Amplified fragment length polymorphism and multilocus sequence analysis-based genotypic relatedness among pathogenic variants of Xanthomonas citri pv. citri and Xanthomonas campestris pv. bilvae

(2009) L. Bui Thi Ngoc et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Pantoea vagans sp. nov., Pantoea eucalypti sp. nov., Pantoea deleyi sp. nov. and Pantoea anthophila sp. nov.

(2009) C. L. Brady et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Polyphasic characterization of xanthomonads pathogenic to members of the Anacardiaceae and their relatedness to species of Xanthomonas

(2009) N. Ah-You et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Population Dynamics ofPseudomonas syringaepv.tomatoStrains on Tomato Cultivars Rio Grande and Rio Grande-Ptounder Field Conditions

(2009) David K. Willis et al.   JOURNAL OF PHYTOPATHOLOGY

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

Contributions of the effector genehopQ1-1to differences in host range betweenPseudomonas syringaepv.phaseolicolaandP. syringaepv.tabaci

(2009) PATRIZIA FERRANTE et al.   MOLECULAR PLANT PATHOLOGY

Multilocus Sequence Typing Reveals Two Evolutionary Lineages of Acidovorax avenae subsp. citrulli

(2009) Jianjun Feng et al.   PHYTOPATHOLOGY

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

Innate Immunity in Plants: An Arms Race Between Pattern Recognition Receptors in Plants and Effectors in Microbial Pathogens

(2009) T. Boller et al.   SCIENCE

The Origins of Plant Pathogens in Agro-Ecosystems

(2008) Eva H. Stukenbrock et al.   Annual Review of Phytopathology

Genetic Structure and Biology of Xylella fastidiosa Strains Causing Disease in Citrus and Coffee in Brazil

(2008) R. P. P. Almeida et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Role of Recombination in the Evolution of the Model Plant Pathogen Pseudomonas syringae pv. tomato DC3000, a Very Atypical Tomato Strain

(2008) S. Yan et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The life history of the plant pathogen Pseudomonas syringae is linked to the water cycle

(2008) Cindy E Morris et al.   ISME Journal

Naturally Occurring Nonpathogenic Isolates of the Plant Pathogen Pseudomonas syringae Lack a Type III Secretion System and Effector Gene Orthologues

(2008) T. J. Mohr et al.   JOURNAL OF BACTERIOLOGY

Phylogeny and Identification of Pantoea Species and Typing of Pantoea agglomerans Strains by Multilocus Gene Sequencing

(2008) A. Deletoile et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Niche-Specificity and the Variable Fraction of thePectobacteriumPan-Genome

(2008) J. D. Glasner et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Next-generation DNA sequencing

(2008) Jay Shendure et al.   NATURE BIOTECHNOLOGY

High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi

(2008) Kathryn E Holt et al.   NATURE GENETICS

Separable roles of thePseudomonas syringaepv.phaseolicolaaccessory protein HrpZ1 in ion-conducting pore formation and activation of plant immunity

(2008) Stefan Engelhardt et al.   PLANT JOURNAL

Frequent emergence and limited geographic dispersal of methicillin-resistant Staphylococcus aureus

(2008) U. Nubel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A multilocus sequence analysis of the genus Xanthomonas

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

Phylogeny and identification of Pantoea species associated with plants, humans and the natural environment based on multilocus sequence analysis (MLSA)

(2008) Carrie Brady et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY