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Patterns of Genomic Variations in the Plant Pathogen Dickeya solani
The plant pathogen Dickeya solani causes soft rot and blackleg diseases in several crops including Solanum tuberosum. Unveiling the patterns of its diversity contributes to understanding the emergence and virulence of this pathogen in potato agro-systems. In this study, we analyzed the genome of sev...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9699125/ https://www.ncbi.nlm.nih.gov/pubmed/36422324 http://dx.doi.org/10.3390/microorganisms10112254 |
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author | Khayi, Slimane Chan, Kok-Gan Faure, Denis |
author_facet | Khayi, Slimane Chan, Kok-Gan Faure, Denis |
author_sort | Khayi, Slimane |
collection | PubMed |
description | The plant pathogen Dickeya solani causes soft rot and blackleg diseases in several crops including Solanum tuberosum. Unveiling the patterns of its diversity contributes to understanding the emergence and virulence of this pathogen in potato agro-systems. In this study, we analyzed the genome of several D. solani strains exhibiting an atypically high number of genetic variations. Variant calling and phylogenomics support the evidence that the strains RNS10-105-1A, A623S-20A-17 and RNS05.1.2A belong to a divergent sub-group of D. solani for which we proposed RNS05.1.2A as a reference strain. In addition, we showed that the variations (1253 to 1278 snp/indels) in strains RNS13-30-1A, RNS13-31-1A and RNS13-48-1A were caused by a horizontal gene transfer event from a donor belonging to the D. solani RNS05.1.2A subgroup. The overall results highlight the patterns driving the diversification in D. solani species. This work contributes to understanding patterns and causes of diversity in the emerging pathogen D. solani. |
format | Online Article Text |
id | pubmed-9699125 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-96991252022-11-26 Patterns of Genomic Variations in the Plant Pathogen Dickeya solani Khayi, Slimane Chan, Kok-Gan Faure, Denis Microorganisms Article The plant pathogen Dickeya solani causes soft rot and blackleg diseases in several crops including Solanum tuberosum. Unveiling the patterns of its diversity contributes to understanding the emergence and virulence of this pathogen in potato agro-systems. In this study, we analyzed the genome of several D. solani strains exhibiting an atypically high number of genetic variations. Variant calling and phylogenomics support the evidence that the strains RNS10-105-1A, A623S-20A-17 and RNS05.1.2A belong to a divergent sub-group of D. solani for which we proposed RNS05.1.2A as a reference strain. In addition, we showed that the variations (1253 to 1278 snp/indels) in strains RNS13-30-1A, RNS13-31-1A and RNS13-48-1A were caused by a horizontal gene transfer event from a donor belonging to the D. solani RNS05.1.2A subgroup. The overall results highlight the patterns driving the diversification in D. solani species. This work contributes to understanding patterns and causes of diversity in the emerging pathogen D. solani. MDPI 2022-11-14 /pmc/articles/PMC9699125/ /pubmed/36422324 http://dx.doi.org/10.3390/microorganisms10112254 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Khayi, Slimane Chan, Kok-Gan Faure, Denis Patterns of Genomic Variations in the Plant Pathogen Dickeya solani |
title | Patterns of Genomic Variations in the Plant Pathogen Dickeya solani |
title_full | Patterns of Genomic Variations in the Plant Pathogen Dickeya solani |
title_fullStr | Patterns of Genomic Variations in the Plant Pathogen Dickeya solani |
title_full_unstemmed | Patterns of Genomic Variations in the Plant Pathogen Dickeya solani |
title_short | Patterns of Genomic Variations in the Plant Pathogen Dickeya solani |
title_sort | patterns of genomic variations in the plant pathogen dickeya solani |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9699125/ https://www.ncbi.nlm.nih.gov/pubmed/36422324 http://dx.doi.org/10.3390/microorganisms10112254 |
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