Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.)
Anthracnose (ANT), caused by Colletotrichum lindemuthianum, is the most devastating disease affecting common bean (Phaseolus vulgaris L.), leading to significant yield losses in the Western Himalayas. The study provides a comprehensive understanding of ANT resistance via trait phenotyping, biochemic...
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| Format: | Article |
| Language: | English |
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Elsevier
2024-12-01
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| Series: | Plant Stress |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667064X24002628 |
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| author | Safoora Shafi Mohd Tahir Vanya Bawa Farkhandah Jan Neeraj Choudhary Mohd Anwar Khan Yogita Singh Upendra Kumar Bilal Ahmad Bhat Waseem Ahmad Dar Parvaze Ahmad Sofi Mohd. Ashraf Bhat Bilal Ahmad Padder Asif Bashir Shikari Rajneesh Paliwal Rajeev Kumar Varshney Reyazul Rouf Mir |
| author_facet | Safoora Shafi Mohd Tahir Vanya Bawa Farkhandah Jan Neeraj Choudhary Mohd Anwar Khan Yogita Singh Upendra Kumar Bilal Ahmad Bhat Waseem Ahmad Dar Parvaze Ahmad Sofi Mohd. Ashraf Bhat Bilal Ahmad Padder Asif Bashir Shikari Rajneesh Paliwal Rajeev Kumar Varshney Reyazul Rouf Mir |
| author_sort | Safoora Shafi |
| collection | DOAJ |
| description | Anthracnose (ANT), caused by Colletotrichum lindemuthianum, is the most devastating disease affecting common bean (Phaseolus vulgaris L.), leading to significant yield losses in the Western Himalayas. The study provides a comprehensive understanding of ANT resistance via trait phenotyping, biochemical profiling, genome-wide association studies (GWASs), and RNA sequencing. The assessment of bean association mapping panel in different environments revealed a diverse spectrum of resistance levels. Biochemical analysis revealed distinctive defense responses against ANT infection among different genotypes. GWAS approach identified 24 significant marker‒trait associations (MTAs) distributed across all 11 bean chromosomes. Notably, 03 MTAs (BMr205, BMr269 and BMr244) present on chromosome Pv07 were validated for ANT, and the remaining MTAs were novel MTAs for ANT. Transcriptome sequencing of resistant (PBG-3) and susceptible (PBG-26) genotypes under mock and 120-hour post inoculation conditions revealed key differentially expressed genes, such as leucine-rich repeat domain-containing protein (PHAVU_007G087700g), NB-ARC domain-containing protein (PHAVU_003G002500g) and transcription factors pivotal for disease resistance. The expression patterns of four genes (PHAVU_007G087700g, PHAVU_003G002500g, PHAVU_007G056100g and PHAVU_003G003000g) were validated through quantitative reverse transcription polymerase chain reaction (qRT‒PCR). Furthermore, the integration of GWAS-identified candidate genes with transcriptomics and cross-referencing with previous studies validated overlapping regions and common candidate genes, enriching our understanding of the genetic basis of ANT resistance. Therefore, the results offer a holistic perspective on ANT resistance in common bean, providing a foundation for targeted breeding efforts. The identified potential candidate genes and associated pathways will contribute valuable insights into the development of ANT resistant common bean varieties. |
| format | Article |
| id | doaj-art-4d7f64347fd54f69b5d7cdebd1e9a228 |
| institution | Kabale University |
| issn | 2667-064X |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Plant Stress |
| spelling | doaj-art-4d7f64347fd54f69b5d7cdebd1e9a2282024-12-19T11:01:56ZengElsevierPlant Stress2667-064X2024-12-0114100609Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.)Safoora Shafi0Mohd Tahir1Vanya Bawa2Farkhandah Jan3Neeraj Choudhary4Mohd Anwar Khan5Yogita Singh6Upendra Kumar7Bilal Ahmad Bhat8Waseem Ahmad Dar9Parvaze Ahmad Sofi10Mohd. Ashraf Bhat11Bilal Ahmad Padder12Asif Bashir Shikari13Rajneesh Paliwal14Rajeev Kumar Varshney15Reyazul Rouf Mir16Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore-193201, Kashmir, J&K, IndiaDivision of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore-193201, Kashmir, J&K, IndiaDivision of Plant Breeding and Genetics, Sher-e-Kashmir University of Agricultural Sciences & Technology of Jammu (SKUAST-J), Chatha, Jammu, Jammu & Kashmir, IndiaDivision of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore-193201, Kashmir, J&K, IndiaDivision of Plant Breeding and Genetics, Sher-e-Kashmir University of Agricultural Sciences & Technology of Jammu (SKUAST-J), Chatha, Jammu, Jammu & Kashmir, IndiaCorresponding author; Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore-193201, Kashmir, J&K, IndiaStockbridge School of Agriculture, University of Massachusetts, Amherst, USADepartment of Plant Science, Mahatma Jyotiba Phule Rohilkhand University, Bareilly 243006Mountain Agriculture Research and Extension station (MARES), SKUAST-Kashmir, Izmarg, Gurez, Bandipora, Kashmir, IndiaMountain Agriculture Research and Extension station (MARES), SKUAST-Kashmir, Izmarg, Gurez, Bandipora, Kashmir, IndiaDivision of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore-193201, Kashmir, J&K, IndiaDivision of Plant Biotechnology, Faculty of Horticulture (FoH), SKUAST-Kashmir, Shalimar Campus, Srinagar, Kashmir, J&K, IndiaDivision of Plant Pathology, Faculty of Horticulture (FoH), SKUAST-Kashmir, Shalimar Campus, Srinagar, Kashmir, J&K, IndiaDivision of Vegetable Science, Faculty of Horticulture (FoH), SKUAST-Kashmir, Shalimar Campus, Srinagar, Kashmir, J&K, IndiaThe International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, NigeriaCentre for Crop and Food Innovation, WA State Agricultural Biotechnology Centre, Murdoch University, Murdoch WA 6150, AustraliaDivision of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore-193201, Kashmir, J&K, India; Corresponding authorAnthracnose (ANT), caused by Colletotrichum lindemuthianum, is the most devastating disease affecting common bean (Phaseolus vulgaris L.), leading to significant yield losses in the Western Himalayas. The study provides a comprehensive understanding of ANT resistance via trait phenotyping, biochemical profiling, genome-wide association studies (GWASs), and RNA sequencing. The assessment of bean association mapping panel in different environments revealed a diverse spectrum of resistance levels. Biochemical analysis revealed distinctive defense responses against ANT infection among different genotypes. GWAS approach identified 24 significant marker‒trait associations (MTAs) distributed across all 11 bean chromosomes. Notably, 03 MTAs (BMr205, BMr269 and BMr244) present on chromosome Pv07 were validated for ANT, and the remaining MTAs were novel MTAs for ANT. Transcriptome sequencing of resistant (PBG-3) and susceptible (PBG-26) genotypes under mock and 120-hour post inoculation conditions revealed key differentially expressed genes, such as leucine-rich repeat domain-containing protein (PHAVU_007G087700g), NB-ARC domain-containing protein (PHAVU_003G002500g) and transcription factors pivotal for disease resistance. The expression patterns of four genes (PHAVU_007G087700g, PHAVU_003G002500g, PHAVU_007G056100g and PHAVU_003G003000g) were validated through quantitative reverse transcription polymerase chain reaction (qRT‒PCR). Furthermore, the integration of GWAS-identified candidate genes with transcriptomics and cross-referencing with previous studies validated overlapping regions and common candidate genes, enriching our understanding of the genetic basis of ANT resistance. Therefore, the results offer a holistic perspective on ANT resistance in common bean, providing a foundation for targeted breeding efforts. The identified potential candidate genes and associated pathways will contribute valuable insights into the development of ANT resistant common bean varieties.http://www.sciencedirect.com/science/article/pii/S2667064X24002628Common beanAnthracnoseColletotrichum lindemuthianumGWASTranscriptomicsqRT‒PCR |
| spellingShingle | Safoora Shafi Mohd Tahir Vanya Bawa Farkhandah Jan Neeraj Choudhary Mohd Anwar Khan Yogita Singh Upendra Kumar Bilal Ahmad Bhat Waseem Ahmad Dar Parvaze Ahmad Sofi Mohd. Ashraf Bhat Bilal Ahmad Padder Asif Bashir Shikari Rajneesh Paliwal Rajeev Kumar Varshney Reyazul Rouf Mir Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) Plant Stress Common bean Anthracnose Colletotrichum lindemuthianum GWAS Transcriptomics qRT‒PCR |
| title | Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) |
| title_full | Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) |
| title_fullStr | Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) |
| title_full_unstemmed | Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) |
| title_short | Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) |
| title_sort | biochemical defense arsenal genes qtls and transcripts for imparting anthracnose resistance in common bean phaseolus vulgaris l |
| topic | Common bean Anthracnose Colletotrichum lindemuthianum GWAS Transcriptomics qRT‒PCR |
| url | http://www.sciencedirect.com/science/article/pii/S2667064X24002628 |
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