Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci
Race-specific resistance loci, whether having qualitative or quantitative effects, present plant-breeding challenges for phenotypic selection and deciding which loci to select or stack with other resistance loci for improved durability. Previously, resistance to grapevine powdery mildew (GPM, caused...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2021-09-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2021.733899/full |
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| author | Avinash Karn Cheng Zou Siraprapa Brooks Jonathan Fresnedo-Ramírez Franka Gabler Qi Sun David Ramming Rachel Naegele Craig Ledbetter Lance Cadle-Davidson Lance Cadle-Davidson |
| author_facet | Avinash Karn Cheng Zou Siraprapa Brooks Jonathan Fresnedo-Ramírez Franka Gabler Qi Sun David Ramming Rachel Naegele Craig Ledbetter Lance Cadle-Davidson Lance Cadle-Davidson |
| author_sort | Avinash Karn |
| collection | DOAJ |
| description | Race-specific resistance loci, whether having qualitative or quantitative effects, present plant-breeding challenges for phenotypic selection and deciding which loci to select or stack with other resistance loci for improved durability. Previously, resistance to grapevine powdery mildew (GPM, caused by Erysiphe necator) was predicted to be conferred by at least three race-specific loci in the mapping family B37-28 × C56-11 segregating for GPM resistance from Vitis aestivalis. In this study, 9 years of vineyard GPM disease severity ratings plus a greenhouse and laboratory assays were genetically mapped, using a rhAmpSeq core genome marker platform with 2,000 local haplotype markers. A new qualitative resistance locus, named REN11, on the chromosome (Chr) 15 was found to be effective in nearly all (11 of 12) vineyard environments on leaves, rachis, berries, and most of the time (7 of 12) stems. REN11 was independently validated in a pseudo-testcross with the grandparent source of resistance, “Tamiami.” Five other loci significantly predicted GPM severity on leaves in only one or two environments, which could indicate race-specific resistance or their roles in different timepoints in epidemic progress. Loci on Chr 8 and 9 reproducibly predicted disease severity on stems but not on other tissues and had additive effects with REN11 on the stems. The rhAmpSeq local haplotype sequences published in this study for REN11 and Chr 8 and 9 stem quantitative trait locus (QTL) can be used directly for marker-assisted selection or converted to SNP assays. In screening for REN11 in a diversity panel of 20,651 vines representing the diversity of Vitis, this rhAmpSeq haplotype had a false positive rate of 0.034% or less. The effects of the other foliar resistance loci detected in this study seem too unstable for genetic improvement regardless of quantitative effect size, whether due to race specificity or other environmental variables. |
| first_indexed | 2024-12-17T06:21:32Z |
| format | Article |
| id | doaj.art-34b955a6ad214d288c12e96662f660e1 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-17T06:21:32Z |
| publishDate | 2021-09-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Plant Science |
| spelling | doaj.art-34b955a6ad214d288c12e96662f660e12022-12-21T22:00:23ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2021-09-011210.3389/fpls.2021.733899733899Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance LociAvinash Karn0Cheng Zou1Siraprapa Brooks2Jonathan Fresnedo-Ramírez3Franka Gabler4Qi Sun5David Ramming6Rachel Naegele7Craig Ledbetter8Lance Cadle-Davidson9Lance Cadle-Davidson10School of Integrative Plant Science, Cornell AgriTech, Cornell University, Geneva, NY, United StatesBRC Bioinformatics Facility, Institute of Biotechnology, Cornell University, Ithaca, NY, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Grape Genetics Research Unit, Geneva, NY, United StatesBRC Bioinformatics Facility, Institute of Biotechnology, Cornell University, Ithaca, NY, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Commodity Protection and Quality Research, San Joaquin Valley Agricultural Sciences Center, Parlier, CA, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Grape Genetics Research Unit, Geneva, NY, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Crop Diseases, Pests and Genetics Research Unit, San Joaquin Valley Agricultural Sciences Center, Parlier, CA, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Crop Diseases, Pests and Genetics Research Unit, San Joaquin Valley Agricultural Sciences Center, Parlier, CA, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Crop Diseases, Pests and Genetics Research Unit, San Joaquin Valley Agricultural Sciences Center, Parlier, CA, United StatesSchool of Integrative Plant Science, Cornell AgriTech, Cornell University, Geneva, NY, United StatesUnited States Department of Agriculture (USDA)-Agricultural Research Service (ARS), Grape Genetics Research Unit, Geneva, NY, United StatesRace-specific resistance loci, whether having qualitative or quantitative effects, present plant-breeding challenges for phenotypic selection and deciding which loci to select or stack with other resistance loci for improved durability. Previously, resistance to grapevine powdery mildew (GPM, caused by Erysiphe necator) was predicted to be conferred by at least three race-specific loci in the mapping family B37-28 × C56-11 segregating for GPM resistance from Vitis aestivalis. In this study, 9 years of vineyard GPM disease severity ratings plus a greenhouse and laboratory assays were genetically mapped, using a rhAmpSeq core genome marker platform with 2,000 local haplotype markers. A new qualitative resistance locus, named REN11, on the chromosome (Chr) 15 was found to be effective in nearly all (11 of 12) vineyard environments on leaves, rachis, berries, and most of the time (7 of 12) stems. REN11 was independently validated in a pseudo-testcross with the grandparent source of resistance, “Tamiami.” Five other loci significantly predicted GPM severity on leaves in only one or two environments, which could indicate race-specific resistance or their roles in different timepoints in epidemic progress. Loci on Chr 8 and 9 reproducibly predicted disease severity on stems but not on other tissues and had additive effects with REN11 on the stems. The rhAmpSeq local haplotype sequences published in this study for REN11 and Chr 8 and 9 stem quantitative trait locus (QTL) can be used directly for marker-assisted selection or converted to SNP assays. In screening for REN11 in a diversity panel of 20,651 vines representing the diversity of Vitis, this rhAmpSeq haplotype had a false positive rate of 0.034% or less. The effects of the other foliar resistance loci detected in this study seem too unstable for genetic improvement regardless of quantitative effect size, whether due to race specificity or other environmental variables.https://www.frontiersin.org/articles/10.3389/fpls.2021.733899/fullgrapevine powdery mildewErysiphe necatoramplicon sequencingquantitative resistancerace specific resistance |
| spellingShingle | Avinash Karn Cheng Zou Siraprapa Brooks Jonathan Fresnedo-Ramírez Franka Gabler Qi Sun David Ramming Rachel Naegele Craig Ledbetter Lance Cadle-Davidson Lance Cadle-Davidson Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci Frontiers in Plant Science grapevine powdery mildew Erysiphe necator amplicon sequencing quantitative resistance race specific resistance |
| title | Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci |
| title_full | Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci |
| title_fullStr | Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci |
| title_full_unstemmed | Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci |
| title_short | Discovery of the REN11 Locus From Vitis aestivalis for Stable Resistance to Grapevine Powdery Mildew in a Family Segregating for Several Unstable and Tissue-Specific Quantitative Resistance Loci |
| title_sort | discovery of the ren11 locus from vitis aestivalis for stable resistance to grapevine powdery mildew in a family segregating for several unstable and tissue specific quantitative resistance loci |
| topic | grapevine powdery mildew Erysiphe necator amplicon sequencing quantitative resistance race specific resistance |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2021.733899/full |
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