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

Autor: Geoffrey Orgeur, Marie-Agnès Jacques, Corinne Audusseau, Rene Mathis, Samuel Balidas, Valérie Grimault, Anne Quillevere, Céline Fricot, Karine Durand, Valérie Olivier, Sophie Bonneau
Přispěvatelé: Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), GEVES, BioGEVES, SNES, Agence nationale de sécurité sanitaire de l'alimentation, de l'environnement et du travail (ANSES), French Ministry of Agriculture, AOP Tomates et Concombres de France, French federation of vegetable plantlet growers (SF3P)
Rok vydání: 2012
Předmět:
DNA
Bacterial
Virulence Factors
POLYMERASE-CHAIN-REACTION
[SDV]Life Sciences [q-bio]
Molecular Sequence Data
Biology
DNA
Ribosomal
Applied Microbiology and Biotechnology
Microbiology
EVOLUTIONARY GENETICS
03 medical and health sciences
Plant Microbiology
Bacterial Proteins
Solanum lycopersicum
RNA
Ribosomal
16S
Actinomycetales
Pseudomonas syringae
POPULATION-STRUCTURE
Typing
MAXIMUM-LIKELIHOOD
Phylogeny
Plant Diseases
030304 developmental biology
2. Zero hunger
0303 health sciences
Genetic diversity
Ecology
Phylogenetic tree
030306 microbiology
HOUSEKEEPING GENES
RECOMBINATION DETECTION
rpoB
biology.organism_classification
Housekeeping gene
Seeds
RELATIVE CONTRIBUTIONS
bacteria
GENETIC DIVERSITY
Multilocus sequence typing
PSEUDOMONAS-SYRINGAE
MULTILOCUS SEQUENCE-ANALYSIS
Clavibacter michiganensis
Multilocus Sequence Typing
Food Science
Biotechnology
Zdroj: Applied and Environmental Microbiology
Applied and Environmental Microbiology, American Society for Microbiology, 2012, 78 (23), pp.8388-8402. ⟨10.1128/AEM.02158-12⟩
ISSN: 1098-5336
0099-2240
DOI: 10.1128/aem.02158-12
Popis: The genus Clavibacter comprises one species and five subspecies of plant-pathogenic bacteria, four of which are classified as quarantine organisms due to the high economic threat they pose. Clavibacter michiganensis subsp. michiganensis is one of the most important pathogens of tomato, but the recommended diagnostic tools are not satisfactory due to false-negative and/or -positive results. To provide a robust analysis of the genetic relatedness among a worldwide collection of C. michiganensis subsp. michiganensis strains, relatives (strains from the four other C. michiganensis subspecies), and nonpathogenic Clavibacter -like strains isolated from tomato, we performed multilocus sequence-based analysis and typing (MLSA and MLST) based on six housekeeping genes ( atpD , dnaK , gyrB , ppK , recA , and rpoB ). We compared this “framework” with phenotypic and genotypic characteristics such as pathogenicity on tomato, reaction to two antisera by immunofluorescence and to five PCR identification tests, and the presence of four genes encoding the main C. michiganensis subsp. michiganensis pathogenicity determinants. We showed that C. michiganensis subsp. michiganensis is monophyletic and is distinct from its closest taxonomic neighbors. The nonpathogenic Clavibacter -like strains were identified as C. michiganensis using 16S rRNA gene sequencing. These strains, while cross-reacting with C. michiganensis subsp. michiganensis identification tools, are phylogenetically distinct from the pathogenic strains but belong to the C. michiganensis clade. C. michiganensis subsp. michiganensis clonal complexes linked strains from highly diverse geographical origins and also strains isolated over long periods of time in the same location. This illustrates the importance of seed transmission in the worldwide dispersion of this pathogen and its survival and adaptation abilities in a new environment once introduced.
Databáze: OpenAIRE
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