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Martins LB, Balint-Kurti P, Reberg-Horton SC. Genome-wide association study for morphological traits and resistance to Peryonella pinodes in the USDA pea single plant plus collection. G3 (BETHESDA, MD.) 2022; 12:jkac168. [PMID: 35792880 PMCID: PMC9434253 DOI: 10.1093/g3journal/jkac168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/12/2022] [Accepted: 06/28/2022] [Indexed: 11/30/2022]
Abstract
Peas (Pisum sativum) are the second most cultivated pulse crop in the world. They can serve as human food, fodder, and cover crop. The most serious foliar disease of pea cultivars worldwide is Ascochyta blight, which can be caused by several pathogens. Of these, Peyronella pinodes is the most aggressive and prevalent worldwide. Several traits, including resistance to Peyronella pinodes, stem diameter, internode length between nodes 2-3 and 5-6, and area of 7th leaf, were measured in 269 entries of the pea single plant plus collection. The heritability (H2) of the morphological traits was relatively high, while disease resistance had low heritability. Using 53,196 single-nucleotide polymorphism markers to perform a genome-wide association study to identify genomic loci associated with variation in all the traits measured, we identified 27 trait-locus associations, 5 of which were associated with more than 1 trait.
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Affiliation(s)
- Lais B Martins
- Department of Crop and Soil Sciences, NC State University, Raleigh, NC 27607, USA
| | - Peter Balint-Kurti
- Department of Entomology and Plant Pathology, NC State University, Raleigh, NC 27607, USA
- Plant Science Research Unit USDA-ARS, NC State University, Raleigh, NC 27695, USA
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Derbyshire MC, Newman TE, Khentry Y, Owolabi Taiwo A. The evolutionary and molecular features of the broad-host-range plant pathogen Sclerotinia sclerotiorum. MOLECULAR PLANT PATHOLOGY 2022; 23:1075-1090. [PMID: 35411696 PMCID: PMC9276942 DOI: 10.1111/mpp.13221] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Revised: 03/09/2022] [Accepted: 03/25/2022] [Indexed: 05/21/2023]
Abstract
Sclerotinia sclerotiorum is a pathogenic fungus that infects hundreds of plant species, including many of the world's most important crops. Key features of S. sclerotiorum include its extraordinary host range, preference for dicotyledonous plants, relatively slow evolution, and production of protein effectors that are active in multiple host species. Plant resistance to this pathogen is highly complex, typically involving numerous polymorphisms with infinitesimally small effects, which makes resistance breeding a major challenge. Due to its economic significance, S. sclerotiorum has been subjected to a large amount of molecular and evolutionary research. In this updated pathogen profile, we review the evolutionary and molecular features of S. sclerotiorum and discuss avenues for future research into this important species.
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Affiliation(s)
- Mark C. Derbyshire
- Centre for Crop and Disease ManagementSchool of Molecular and Life SciencesCurtin UniversityPerthWestern AustraliaAustralia
| | - Toby E. Newman
- Centre for Crop and Disease ManagementSchool of Molecular and Life SciencesCurtin UniversityPerthWestern AustraliaAustralia
| | - Yuphin Khentry
- Centre for Crop and Disease ManagementSchool of Molecular and Life SciencesCurtin UniversityPerthWestern AustraliaAustralia
| | - Akeem Owolabi Taiwo
- Centre for Crop and Disease ManagementSchool of Molecular and Life SciencesCurtin UniversityPerthWestern AustraliaAustralia
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Mwape VW, Khoo KHP, Chen K, Khentry Y, Newman TE, Derbyshire MC, Mather DE, Kamphuis LG. Identification of Sclerotinia stem rot resistance quantitative trait loci in a chickpea ( Cicer arietinum) recombinant inbred line population. FUNCTIONAL PLANT BIOLOGY : FPB 2022; 49:634-646. [PMID: 35339205 DOI: 10.1071/fp21216] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Accepted: 03/04/2022] [Indexed: 06/14/2023]
Abstract
Sclerotinia stem rot (SSR), caused by Sclerotinia sclerotiorum , is one of the most economically devastating diseases in chickpea (Cicer arietinum L.). No complete resistance is available in chickpea to this disease, and the inheritance of partial resistance is not understood. Two hundred F7 recombinant inbred lines (RILs) derived from a cross between a partially resistant variety PBA HatTrick, and a highly susceptible variety Kyabra were characterised for their responses to SSR inoculation. Quantitative trait locus (QTL) analysis was conducted for the area under the disease progress curve (AUDPC) after RIL infection with S. sclerotiorum . Four QTLs on chromosomes, Ca4 (qSSR4-1, qSSR4-2), Ca6 (qSSR6-1) and Ca7 (qSSR7-1), individually accounted for between 4.2 and 15.8% of the total estimated phenotypic variation for the response to SSR inoculation. Candidate genes located in these QTL regions are predicted to be involved in a wide range of processes, including phenylpropanoid biosynthesis, plant-pathogen interaction, and plant hormone signal transduction. This is the first study investigating the inheritance of resistance to S. sclerotiorum in chickpea. Markers associated with the identified QTLs could be employed for marker-assisted selection in chickpea breeding.
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Affiliation(s)
- Virginia W Mwape
- Centre for Crop Disease Management, Curtin University, Bentley, WA 6102, Australia; and Commonwealth Scientific and Industrial Research Organization, Agriculture and Food, Floreat, WA 6913, Australia
| | - Kelvin H P Khoo
- School of Agriculture, Food and Wine, Waite Research Institute, University of Adelaide, Urrbrae, SA 5064, Australia
| | - Kefei Chen
- Statistics for the Australian Grains Industry - West, Curtin University, Bentley, WA 6102, Australia
| | - Yuphin Khentry
- Centre for Crop Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Toby E Newman
- Centre for Crop Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Mark C Derbyshire
- Centre for Crop Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Diane E Mather
- School of Agriculture, Food and Wine, Waite Research Institute, University of Adelaide, Urrbrae, SA 5064, Australia
| | - Lars G Kamphuis
- Centre for Crop Disease Management, Curtin University, Bentley, WA 6102, Australia; and Commonwealth Scientific and Industrial Research Organization, Agriculture and Food, Floreat, WA 6913, Australia
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Parihar AK, Kumar J, Gupta DS, Lamichaney A, Naik SJ S, Singh AK, Dixit GP, Gupta S, Toklu F. Genomics Enabled Breeding Strategies for Major Biotic Stresses in Pea ( Pisum sativum L.). FRONTIERS IN PLANT SCIENCE 2022; 13:861191. [PMID: 35665148 PMCID: PMC9158573 DOI: 10.3389/fpls.2022.861191] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Accepted: 03/28/2022] [Indexed: 06/15/2023]
Abstract
Pea (Pisum sativum L.) is one of the most important and productive cool season pulse crops grown throughout the world. Biotic stresses are the crucial constraints in harnessing the potential productivity of pea and warrant dedicated research and developmental efforts to utilize omics resources and advanced breeding techniques to assist rapid and timely development of high-yielding multiple stress-tolerant-resistant varieties. Recently, the pea researcher's community has made notable achievements in conventional and molecular breeding to accelerate its genetic gain. Several quantitative trait loci (QTLs) or markers associated with genes controlling resistance for fusarium wilt, fusarium root rot, powdery mildew, ascochyta blight, rust, common root rot, broomrape, pea enation, and pea seed borne mosaic virus are available for the marker-assisted breeding. The advanced genomic tools such as the availability of comprehensive genetic maps and linked reliable DNA markers hold great promise toward the introgression of resistance genes from different sources to speed up the genetic gain in pea. This review provides a brief account of the achievements made in the recent past regarding genetic and genomic resources' development, inheritance of genes controlling various biotic stress responses and genes controlling pathogenesis in disease causing organisms, genes/QTLs mapping, and transcriptomic and proteomic advances. Moreover, the emerging new breeding approaches such as transgenics, genome editing, genomic selection, epigenetic breeding, and speed breeding hold great promise to transform pea breeding. Overall, the judicious amalgamation of conventional and modern omics-enabled breeding strategies will augment the genetic gain and could hasten the development of biotic stress-resistant cultivars to sustain pea production under changing climate. The present review encompasses at one platform the research accomplishment made so far in pea improvement with respect to major biotic stresses and the way forward to enhance pea productivity through advanced genomic tools and technologies.
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Affiliation(s)
- Ashok Kumar Parihar
- Crop Improvement Division, ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, India
| | - Jitendra Kumar
- Crop Improvement Division, ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, India
| | - Debjyoti Sen Gupta
- Crop Improvement Division, ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, India
| | - Amrit Lamichaney
- Crop Improvement Division, ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, India
| | - Satheesh Naik SJ
- Crop Improvement Division, ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, India
| | - Anil K. Singh
- Crop Improvement Division, ICAR-Indian Institute of Pulses Research (ICAR-IIPR), Kanpur, India
| | - Girish P. Dixit
- All India Coordinated Research Project on Chickpea, ICAR-IIPR, Kanpur, India
| | - Sanjeev Gupta
- Indian Council of Agricultural Research, New Delhi, India
| | - Faruk Toklu
- Department of Field Crops, Faculty of Agricultural, Cukurova University, Adana, Turkey
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Mwape VW, Khentry Y, Newman TE, Denton-Giles M, Derbyshire MC, Chen K, Berger J, Kamphuis LG. Identification of Sources of Sclerotinia sclerotiorum Resistance in a Collection of Wild Cicer Germplasm. PLANT DISEASE 2021; 105:2314-2324. [PMID: 33851865 DOI: 10.1094/pdis-02-21-0367-re] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Sclerotinia sclerotiorum is an important fungal pathogen of chickpea (Cicer arietinum L.), and it can cause yield losses up to 100%. The wild progenitors are much more diverse than domesticated chickpea, and this study describes how this relates to S. sclerotiorum resistance. Initially, the pathogenicity of nine Australian S. sclerotiorum isolates was examined on three Cicer lines to develop a robust phenotyping assay, and significant differences in isolate aggressiveness were identified with six isolates being classed as highly aggressive and three as moderately aggressive. We identified two S. sclerotiorum isolates, CU8.20 and CU10.12, to be highly aggressive and moderately aggressive, respectively. A subsequent phenotyping assay was conducted using the two isolates to evaluate 86 wild Cicer accessions (Cicer reticulatum and Cicer echinospermum) and two C. arietinum varieties for resistance to S. sclerotiorum. A subset of 12 genotypes was further evaluated, and subsequently, two wild Cicer accessions with consistently high levels of resistance to S. sclerotiorum were examined using the initially characterized nine isolates. Wild Cicer accessions Karab_084 and Deste_063 demonstrated consistent partial resistance to S. sclerotiorum. There were significant differences in responses to S. sclerotiorum across wild Cicer collection sites. The Cermik, Karabahce, and Destek sites' responses to the aggressive isolate CU8.20 ranged from resistant to susceptible, highlighting an interaction between isolate genotype and chickpea collection site for sclerotinia stem rot resistance. This is the first evidence of partial stem resistance identified in wild Cicer germplasm, which can be adopted in chickpea breeding programs to enhance S. sclerotiorum resistance in future chickpea varieties.
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Affiliation(s)
- Virginia W Mwape
- Centre for Crop and Disease Management, Curtin University, Bentley, WA 6102, Australia
- Agriculture and Food, Commonwealth Scientific and Industrial Research Organization, Floreat, WA 6104, Australia
| | - Yuphin Khentry
- Centre for Crop and Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Toby E Newman
- Centre for Crop and Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Matthew Denton-Giles
- Centre for Crop and Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Mark C Derbyshire
- Centre for Crop and Disease Management, Curtin University, Bentley, WA 6102, Australia
| | - Kefei Chen
- Statistics for the Australian Grains Industry-West, Curtin University, Bentley, WA 6102, Australia
| | - Jens Berger
- Agriculture and Food, Commonwealth Scientific and Industrial Research Organization, Floreat, WA 6104, Australia
| | - Lars G Kamphuis
- Centre for Crop and Disease Management, Curtin University, Bentley, WA 6102, Australia
- Agriculture and Food, Commonwealth Scientific and Industrial Research Organization, Floreat, WA 6104, Australia
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