Details
| Original language | English |
|---|---|
| Article number | e79704 |
| Journal | PLoS ONE |
| Volume | 8 |
| Issue number | 11 |
| Publication status | Published - 22 Nov 2013 |
| Externally published | Yes |
Abstract
Xanthomonas axonopodis pv. manihotis (Xam) is the causal agent of bacterial blight of cassava, which is among the main components of human diet in Africa and South America. Current information about the molecular pathogenicity factors involved in the infection process of this organism is limited. Previous studies in other bacteria in this genus suggest that advanced draft genome sequences are valuable resources for molecular studies on their interaction with plants and could provide valuable tools for diagnostics and detection. Here we have generated the first manually annotated high-quality draft genome sequence of Xam strain CIO151. Its genomic structure is similar to that of other xanthomonads, especially Xanthomonas euvesicatoria and Xanthomonas citri pv. citri species. Several putative pathogenicity factors were identified, including type III effectors, cell wall-degrading enzymes and clusters encoding protein secretion systems. Specific characteristics in this genome include changes in the xanthomonadin cluster that could explain the lack of typical yellow color in all strains of this pathovar and the presence of 50 regions in the genome with atypical nucleotide composition. The genome sequence was used to predict and evaluate 22 variable number of tandem repeat (VNTR) loci that were subsequently demonstrated as polymorphic in representative Xam strains. Our results demonstrate that Xanthomonas axonopodis pv. manihotis strain CIO151 possesses ten clusters of pathogenicity factors conserved within the genus Xanthomonas. We report 126 genes that are potentially unique to Xam, as well as potential horizontal transfer events in the history of the genome. The relation of these regions with virulence and pathogenicity could explain several aspects of the biology of this pathogen, including its ability to colonize both vascular and non-vascular tissues of cassava plants. A set of 16 robust, polymorphic VNTR loci will be useful to develop a multi-locus VNTR analysis scheme for epidemiological surveillance of this disease.
ASJC Scopus subject areas
- Biochemistry, Genetics and Molecular Biology(all)
- General Biochemistry,Genetics and Molecular Biology
- Agricultural and Biological Sciences(all)
- General Agricultural and Biological Sciences
- General
Sustainable Development Goals
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In: PLoS ONE, Vol. 8, No. 11, e79704, 22.11.2013.
Research output: Contribution to journal › Article › Research › peer review
}
TY - JOUR
T1 - Genomic survey of pathogenicity determinants and VNTR markers in the cassava bacterial pathogen Xanthomonas axonopodis pv. manihotis strain CIO151
AU - Arrieta-Ortiz, Mario L.
AU - Rodríguez-R, Luis M.
AU - Pérez-Quintero, Álvaro L.
AU - Poulin, Lucie
AU - Díaz, Ana C.
AU - Rojas, Nathalia Arias
AU - Trujillo, Cesar
AU - Benavides, Mariana Restrepo
AU - Bart, Rebecca
AU - Boch, Jens
AU - Boureau, Tristan
AU - Darrasse, Armelle
AU - David, Perrine
AU - De Bernonville, Thomas Dugé
AU - Fontanilla, Paula
AU - Gagnevin, Lionel
AU - Guérin, Fabien
AU - Jacques, Marie Agnès
AU - Lauber, Emmanuelle
AU - Lefeuvre, Pierre
AU - Medina, Cesar
AU - Medina, Edgar
AU - Montenegro, Nathaly
AU - Bodnar, Alejandra Muñoz
AU - Noël, Laurent D.
AU - Ortiz Quiñones, Juan F.
AU - Osorio, Daniela
AU - Pardo, Carolina
AU - Patil, Prabhu B.
AU - Poussier, Stéphane
AU - Pruvost, Olivier
AU - Robène-Soustrade, Isabelle
AU - Ryan, Robert P.
AU - Tabima, Javier
AU - Urrego Morales, Oscar G.
AU - Vernière, Christian
AU - Carrere, Sébastien
AU - Verdier, Valérie
AU - Szurek, Boris
AU - Restrepo, Silvia
AU - López, Camilo
AU - Koebnik, Ralf
AU - Bernal, Adriana
N1 - Copyright: Copyright 2014 Elsevier B.V., All rights reserved.
PY - 2013/11/22
Y1 - 2013/11/22
N2 - Xanthomonas axonopodis pv. manihotis (Xam) is the causal agent of bacterial blight of cassava, which is among the main components of human diet in Africa and South America. Current information about the molecular pathogenicity factors involved in the infection process of this organism is limited. Previous studies in other bacteria in this genus suggest that advanced draft genome sequences are valuable resources for molecular studies on their interaction with plants and could provide valuable tools for diagnostics and detection. Here we have generated the first manually annotated high-quality draft genome sequence of Xam strain CIO151. Its genomic structure is similar to that of other xanthomonads, especially Xanthomonas euvesicatoria and Xanthomonas citri pv. citri species. Several putative pathogenicity factors were identified, including type III effectors, cell wall-degrading enzymes and clusters encoding protein secretion systems. Specific characteristics in this genome include changes in the xanthomonadin cluster that could explain the lack of typical yellow color in all strains of this pathovar and the presence of 50 regions in the genome with atypical nucleotide composition. The genome sequence was used to predict and evaluate 22 variable number of tandem repeat (VNTR) loci that were subsequently demonstrated as polymorphic in representative Xam strains. Our results demonstrate that Xanthomonas axonopodis pv. manihotis strain CIO151 possesses ten clusters of pathogenicity factors conserved within the genus Xanthomonas. We report 126 genes that are potentially unique to Xam, as well as potential horizontal transfer events in the history of the genome. The relation of these regions with virulence and pathogenicity could explain several aspects of the biology of this pathogen, including its ability to colonize both vascular and non-vascular tissues of cassava plants. A set of 16 robust, polymorphic VNTR loci will be useful to develop a multi-locus VNTR analysis scheme for epidemiological surveillance of this disease.
AB - Xanthomonas axonopodis pv. manihotis (Xam) is the causal agent of bacterial blight of cassava, which is among the main components of human diet in Africa and South America. Current information about the molecular pathogenicity factors involved in the infection process of this organism is limited. Previous studies in other bacteria in this genus suggest that advanced draft genome sequences are valuable resources for molecular studies on their interaction with plants and could provide valuable tools for diagnostics and detection. Here we have generated the first manually annotated high-quality draft genome sequence of Xam strain CIO151. Its genomic structure is similar to that of other xanthomonads, especially Xanthomonas euvesicatoria and Xanthomonas citri pv. citri species. Several putative pathogenicity factors were identified, including type III effectors, cell wall-degrading enzymes and clusters encoding protein secretion systems. Specific characteristics in this genome include changes in the xanthomonadin cluster that could explain the lack of typical yellow color in all strains of this pathovar and the presence of 50 regions in the genome with atypical nucleotide composition. The genome sequence was used to predict and evaluate 22 variable number of tandem repeat (VNTR) loci that were subsequently demonstrated as polymorphic in representative Xam strains. Our results demonstrate that Xanthomonas axonopodis pv. manihotis strain CIO151 possesses ten clusters of pathogenicity factors conserved within the genus Xanthomonas. We report 126 genes that are potentially unique to Xam, as well as potential horizontal transfer events in the history of the genome. The relation of these regions with virulence and pathogenicity could explain several aspects of the biology of this pathogen, including its ability to colonize both vascular and non-vascular tissues of cassava plants. A set of 16 robust, polymorphic VNTR loci will be useful to develop a multi-locus VNTR analysis scheme for epidemiological surveillance of this disease.
UR - http://www.scopus.com/inward/record.url?scp=84896703786&partnerID=8YFLogxK
U2 - 10.1371/journal.pone.0079704
DO - 10.1371/journal.pone.0079704
M3 - Article
C2 - 24278159
AN - SCOPUS:84896703786
VL - 8
JO - PLoS ONE
JF - PLoS ONE
SN - 1932-6203
IS - 11
M1 - e79704
ER -