Cargando…
A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage
MultiLocus Variable number of tandem repeat Analysis (MLVA) has been extensively used to examine epidemiological and evolutionary issues on monomorphic human pathogenic bacteria, but not on bacterial plant pathogens of agricultural importance albeit such tools would improve our understanding of thei...
Autores principales: | , , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2014
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4045669/ https://www.ncbi.nlm.nih.gov/pubmed/24897119 http://dx.doi.org/10.1371/journal.pone.0098129 |
_version_ | 1782319355382464512 |
---|---|
author | Pruvost, Olivier Magne, Maxime Boyer, Karine Leduc, Alice Tourterel, Christophe Drevet, Christine Ravigné, Virginie Gagnevin, Lionel Guérin, Fabien Chiroleu, Frédéric Koebnik, Ralf Verdier, Valérie Vernière, Christian |
author_facet | Pruvost, Olivier Magne, Maxime Boyer, Karine Leduc, Alice Tourterel, Christophe Drevet, Christine Ravigné, Virginie Gagnevin, Lionel Guérin, Fabien Chiroleu, Frédéric Koebnik, Ralf Verdier, Valérie Vernière, Christian |
author_sort | Pruvost, Olivier |
collection | PubMed |
description | MultiLocus Variable number of tandem repeat Analysis (MLVA) has been extensively used to examine epidemiological and evolutionary issues on monomorphic human pathogenic bacteria, but not on bacterial plant pathogens of agricultural importance albeit such tools would improve our understanding of their epidemiology, as well as of the history of epidemics on a global scale. Xanthomonas citri pv. citri is a quarantine organism in several countries and a major threat for the citrus industry worldwide. We screened the genomes of Xanthomonas citri pv. citri strain IAPAR 306 and of phylogenetically related xanthomonads for tandem repeats. From these in silico data, an optimized MLVA scheme was developed to assess the global diversity of this monomorphic bacterium. Thirty-one minisatellite loci (MLVA-31) were selected to assess the genetic structure of 129 strains representative of the worldwide pathological and genetic diversity of X. citri pv. citri. Based on Discriminant Analysis of Principal Components (DAPC), four pathotype-specific clusters were defined. DAPC cluster 1 comprised strains that were implicated in the major geographical expansion of X. citri pv. citri during the 20(th) century. A subset of 12 loci (MLVA-12) resolved 89% of the total diversity and matched the genetic structure revealed by MLVA-31. MLVA-12 is proposed for routine epidemiological identification of X. citri pv. citri, whereas MLVA-31 is proposed for phylogenetic and population genetics studies. MLVA-31 represents an opportunity for international X. citri pv. citri genotyping and data sharing. The MLVA-31 data generated in this study was deposited in the Xanthomonas citri genotyping database (http://www.biopred.net/MLVA/). |
format | Online Article Text |
id | pubmed-4045669 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-40456692014-06-09 A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage Pruvost, Olivier Magne, Maxime Boyer, Karine Leduc, Alice Tourterel, Christophe Drevet, Christine Ravigné, Virginie Gagnevin, Lionel Guérin, Fabien Chiroleu, Frédéric Koebnik, Ralf Verdier, Valérie Vernière, Christian PLoS One Research Article MultiLocus Variable number of tandem repeat Analysis (MLVA) has been extensively used to examine epidemiological and evolutionary issues on monomorphic human pathogenic bacteria, but not on bacterial plant pathogens of agricultural importance albeit such tools would improve our understanding of their epidemiology, as well as of the history of epidemics on a global scale. Xanthomonas citri pv. citri is a quarantine organism in several countries and a major threat for the citrus industry worldwide. We screened the genomes of Xanthomonas citri pv. citri strain IAPAR 306 and of phylogenetically related xanthomonads for tandem repeats. From these in silico data, an optimized MLVA scheme was developed to assess the global diversity of this monomorphic bacterium. Thirty-one minisatellite loci (MLVA-31) were selected to assess the genetic structure of 129 strains representative of the worldwide pathological and genetic diversity of X. citri pv. citri. Based on Discriminant Analysis of Principal Components (DAPC), four pathotype-specific clusters were defined. DAPC cluster 1 comprised strains that were implicated in the major geographical expansion of X. citri pv. citri during the 20(th) century. A subset of 12 loci (MLVA-12) resolved 89% of the total diversity and matched the genetic structure revealed by MLVA-31. MLVA-12 is proposed for routine epidemiological identification of X. citri pv. citri, whereas MLVA-31 is proposed for phylogenetic and population genetics studies. MLVA-31 represents an opportunity for international X. citri pv. citri genotyping and data sharing. The MLVA-31 data generated in this study was deposited in the Xanthomonas citri genotyping database (http://www.biopred.net/MLVA/). Public Library of Science 2014-06-04 /pmc/articles/PMC4045669/ /pubmed/24897119 http://dx.doi.org/10.1371/journal.pone.0098129 Text en © 2014 Pruvost et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article Pruvost, Olivier Magne, Maxime Boyer, Karine Leduc, Alice Tourterel, Christophe Drevet, Christine Ravigné, Virginie Gagnevin, Lionel Guérin, Fabien Chiroleu, Frédéric Koebnik, Ralf Verdier, Valérie Vernière, Christian A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage |
title | A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage |
title_full | A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage |
title_fullStr | A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage |
title_full_unstemmed | A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage |
title_short | A MLVA Genotyping Scheme for Global Surveillance of the Citrus Pathogen Xanthomonas citri pv. citri Suggests a Worldwide Geographical Expansion of a Single Genetic Lineage |
title_sort | mlva genotyping scheme for global surveillance of the citrus pathogen xanthomonas citri pv. citri suggests a worldwide geographical expansion of a single genetic lineage |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4045669/ https://www.ncbi.nlm.nih.gov/pubmed/24897119 http://dx.doi.org/10.1371/journal.pone.0098129 |
work_keys_str_mv | AT pruvostolivier amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT magnemaxime amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT boyerkarine amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT leducalice amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT tourterelchristophe amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT drevetchristine amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT ravignevirginie amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT gagnevinlionel amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT guerinfabien amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT chiroleufrederic amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT koebnikralf amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT verdiervalerie amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT vernierechristian amlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT pruvostolivier mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT magnemaxime mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT boyerkarine mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT leducalice mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT tourterelchristophe mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT drevetchristine mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT ravignevirginie mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT gagnevinlionel mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT guerinfabien mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT chiroleufrederic mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT koebnikralf mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT verdiervalerie mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage AT vernierechristian mlvagenotypingschemeforglobalsurveillanceofthecitruspathogenxanthomonascitripvcitrisuggestsaworldwidegeographicalexpansionofasinglegeneticlineage |