Identification of novel candidate genes for Ascochyta blight resistance in chickpea
Abstract Ascochyta blight, caused by the necrotrophic fungus Ascochyta rabiei, is a major threat to chickpea production worldwide. Resistance genes with broad-spectrum protection against virulent A. rabiei strains are required to secure chickpea yield in the US Northern Great Plains. Here, we perfor...
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Nature Portfolio
2024-12-01
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| Online Access: | https://doi.org/10.1038/s41598-024-83007-0 |
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| author | Françoise Dalprá Dariva Amlan Arman Mario Morales Harry Navasca Ramita Shah Sikiru Adeniyi Atanda Lisa Piche Hannah Worral Garrett Raymon Kevin McPhee Clarice Coyne Paulo Flores Malaika K. Ebert Nonoy Bandillo |
| author_facet | Françoise Dalprá Dariva Amlan Arman Mario Morales Harry Navasca Ramita Shah Sikiru Adeniyi Atanda Lisa Piche Hannah Worral Garrett Raymon Kevin McPhee Clarice Coyne Paulo Flores Malaika K. Ebert Nonoy Bandillo |
| author_sort | Françoise Dalprá Dariva |
| collection | DOAJ |
| description | Abstract Ascochyta blight, caused by the necrotrophic fungus Ascochyta rabiei, is a major threat to chickpea production worldwide. Resistance genes with broad-spectrum protection against virulent A. rabiei strains are required to secure chickpea yield in the US Northern Great Plains. Here, we performed a genome-wide association (GWA) study to discover novel sources of genetic variation for Ascochyta blight resistance using a worldwide germplasm collection of 219 chickpea lines. Ascochyta blight resistance was evaluated at 3, 9, 11, 13, and 14 days post-inoculation. Multiple GWA models revealed eight quantitative trait nucleotides (QTNs) across timepoints mapped to chromosomes 1, 3, 4, 6, and 7. Of these eight QTNs, only CM001767.1_28299946 on Chr 4 had previously been reported. QTN CM001766.1_36967269 on Chr 3 explained up to 33% of the variation in disease severity and was mapped to an exonic region of the pentatricopeptide repeat-containing protein At4g02750-like gene (LOC101506608). This QTN was confirmed across all models and timepoints. A total of 153 candidate genes, including genes with roles in pathogen recognition and signaling, cell wall biosynthesis, oxidative burst, and regulation of DNA transcription, were observed surrounding QTN-targeted regions. Further gene expression analysis on the QTNs identified in this study will provide insights into defense-related genes that can be further incorporated into breeding of new chickpea cultivars to minimize fungicide applications required for successful chickpea production in the US Northern Great Plains. |
| format | Article |
| id | doaj-art-6e5fceb0a7f540f4ac41a5723ddce6fb |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj-art-6e5fceb0a7f540f4ac41a5723ddce6fb2024-12-29T12:23:32ZengNature PortfolioScientific Reports2045-23222024-12-0114111410.1038/s41598-024-83007-0Identification of novel candidate genes for Ascochyta blight resistance in chickpeaFrançoise Dalprá Dariva0Amlan Arman1Mario Morales2Harry Navasca3Ramita Shah4Sikiru Adeniyi Atanda5Lisa Piche6Hannah Worral7Garrett Raymon8Kevin McPhee9Clarice Coyne10Paulo Flores11Malaika K. Ebert12Nonoy Bandillo13Department of Plant Sciences, North Dakota State UniversityDepartment of Plant Pathology, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityDepartment of Agricultural and Biosystems Engineering, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityDepartment of Plant Science and Plant Pathology, Montana State UniversityDepartment of Horticulture, Washington State UniversityDepartment of Agricultural and Biosystems Engineering, North Dakota State UniversityDepartment of Plant Pathology, North Dakota State UniversityDepartment of Plant Sciences, North Dakota State UniversityAbstract Ascochyta blight, caused by the necrotrophic fungus Ascochyta rabiei, is a major threat to chickpea production worldwide. Resistance genes with broad-spectrum protection against virulent A. rabiei strains are required to secure chickpea yield in the US Northern Great Plains. Here, we performed a genome-wide association (GWA) study to discover novel sources of genetic variation for Ascochyta blight resistance using a worldwide germplasm collection of 219 chickpea lines. Ascochyta blight resistance was evaluated at 3, 9, 11, 13, and 14 days post-inoculation. Multiple GWA models revealed eight quantitative trait nucleotides (QTNs) across timepoints mapped to chromosomes 1, 3, 4, 6, and 7. Of these eight QTNs, only CM001767.1_28299946 on Chr 4 had previously been reported. QTN CM001766.1_36967269 on Chr 3 explained up to 33% of the variation in disease severity and was mapped to an exonic region of the pentatricopeptide repeat-containing protein At4g02750-like gene (LOC101506608). This QTN was confirmed across all models and timepoints. A total of 153 candidate genes, including genes with roles in pathogen recognition and signaling, cell wall biosynthesis, oxidative burst, and regulation of DNA transcription, were observed surrounding QTN-targeted regions. Further gene expression analysis on the QTNs identified in this study will provide insights into defense-related genes that can be further incorporated into breeding of new chickpea cultivars to minimize fungicide applications required for successful chickpea production in the US Northern Great Plains.https://doi.org/10.1038/s41598-024-83007-0Ascochyta rabieiGenome-wide association studiesDisease resistancePulse crops |
| spellingShingle | Françoise Dalprá Dariva Amlan Arman Mario Morales Harry Navasca Ramita Shah Sikiru Adeniyi Atanda Lisa Piche Hannah Worral Garrett Raymon Kevin McPhee Clarice Coyne Paulo Flores Malaika K. Ebert Nonoy Bandillo Identification of novel candidate genes for Ascochyta blight resistance in chickpea Scientific Reports Ascochyta rabiei Genome-wide association studies Disease resistance Pulse crops |
| title | Identification of novel candidate genes for Ascochyta blight resistance in chickpea |
| title_full | Identification of novel candidate genes for Ascochyta blight resistance in chickpea |
| title_fullStr | Identification of novel candidate genes for Ascochyta blight resistance in chickpea |
| title_full_unstemmed | Identification of novel candidate genes for Ascochyta blight resistance in chickpea |
| title_short | Identification of novel candidate genes for Ascochyta blight resistance in chickpea |
| title_sort | identification of novel candidate genes for ascochyta blight resistance in chickpea |
| topic | Ascochyta rabiei Genome-wide association studies Disease resistance Pulse crops |
| url | https://doi.org/10.1038/s41598-024-83007-0 |
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