Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut
Peanut (Arachis hypogaea L.), a key oilseed crop in the U.S., plays a significant role in agriculture and the economy but faces challenges from biotic and abiotic stresses, including aflatoxin contamination caused by Aspergillus flavus and A. parasiticus. Despite many large-effect QTLs identified fo...
| Main Authors: | , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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Frontiers Media
2025
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| Online Access: | https://hdl.handle.net/10568/179533 |
| _version_ | 1855531273139781632 |
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| author | Punnuri, Somashekhar M. Thudi, Mahendar Varshney, Rajeev K. Pandey, Manish K. Jyotish, Anjali Naik, Yogesh Dashrath Rangari, Sagar Krushnaji Sahu, Aakash |
| author_browse | Jyotish, Anjali Naik, Yogesh Dashrath Pandey, Manish K. Punnuri, Somashekhar M. Rangari, Sagar Krushnaji Sahu, Aakash Thudi, Mahendar Varshney, Rajeev K. |
| author_facet | Punnuri, Somashekhar M. Thudi, Mahendar Varshney, Rajeev K. Pandey, Manish K. Jyotish, Anjali Naik, Yogesh Dashrath Rangari, Sagar Krushnaji Sahu, Aakash |
| author_sort | Punnuri, Somashekhar M. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Peanut (Arachis hypogaea L.), a key oilseed crop in the U.S., plays a significant role in agriculture and the economy but faces challenges from biotic and abiotic stresses, including aflatoxin contamination caused by Aspergillus flavus and A. parasiticus. Despite many large-effect QTLs identified for yield and key traits, their use in breeding is limited by unfavorable genetic interactions. To overcome this, we aimed to identify consensus genomic regions and candidate genes linked to key traits by analyzing QTL data from 30 independent studies conducted over the past 12 years, focusing on biotic, abiotic, aflatoxin, morphological, nutritional, phenological, and yield-associated traits. Using genetic map information, we constructed consensus maps and performed a meta-analysis on 891 QTLs, leading to the identification of 70 Meta-QTLs (MQTLs) with confidence intervals ranging from 0.07 to 9.63 cM and an average of 2.33 cM. This reduction in confidence intervals enhances the precision of trait mapping, making the identified MQTLs more applicable for breeding purposes. Furthermore, we identified key genes associated with aflatoxin resistance in MQTL5.2 (serine/threonine-protein kinase, BOI-related E3 ubiquitin-protein ligase), MQTL5.3, MQTL7.3, and MQTL13.1. Similarly, for yield-related traits in MQTL3.1–MQTL3.4 (mitogen-activated protein kinase, auxin response factor), MQTL11.2 (MADS-box protein, squamosa promoter-binding protein), and MQTL14.1. Genes related to oil composition within MQTL5.2 (fatty-acid desaturase FAD2, linoleate 9S-lipoxygenase), MQTL9.3, MQTL19.1 (acyl-CoA-binding protein, fatty acyl-CoA reductase FAR1), MQTL19.4, and MQTL19.5. Nutritional traits like iron and zinc content are linked to MQTL1.1 (probable methyltransferase, ferredoxin C), MQTL10.1, and MQTL12.1. These regions and genes serve as precise targets for marker-assisted breeding to enhance peanut yield, resilience, and quality. |
| format | Journal Article |
| id | CGSpace179533 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | CGSpace1795332026-01-09T02:10:11Z Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut Punnuri, Somashekhar M. Thudi, Mahendar Varshney, Rajeev K. Pandey, Manish K. Jyotish, Anjali Naik, Yogesh Dashrath Rangari, Sagar Krushnaji Sahu, Aakash groundnuts aflatoxins abiotic stress biotic stress crop improvement Peanut (Arachis hypogaea L.), a key oilseed crop in the U.S., plays a significant role in agriculture and the economy but faces challenges from biotic and abiotic stresses, including aflatoxin contamination caused by Aspergillus flavus and A. parasiticus. Despite many large-effect QTLs identified for yield and key traits, their use in breeding is limited by unfavorable genetic interactions. To overcome this, we aimed to identify consensus genomic regions and candidate genes linked to key traits by analyzing QTL data from 30 independent studies conducted over the past 12 years, focusing on biotic, abiotic, aflatoxin, morphological, nutritional, phenological, and yield-associated traits. Using genetic map information, we constructed consensus maps and performed a meta-analysis on 891 QTLs, leading to the identification of 70 Meta-QTLs (MQTLs) with confidence intervals ranging from 0.07 to 9.63 cM and an average of 2.33 cM. This reduction in confidence intervals enhances the precision of trait mapping, making the identified MQTLs more applicable for breeding purposes. Furthermore, we identified key genes associated with aflatoxin resistance in MQTL5.2 (serine/threonine-protein kinase, BOI-related E3 ubiquitin-protein ligase), MQTL5.3, MQTL7.3, and MQTL13.1. Similarly, for yield-related traits in MQTL3.1–MQTL3.4 (mitogen-activated protein kinase, auxin response factor), MQTL11.2 (MADS-box protein, squamosa promoter-binding protein), and MQTL14.1. Genes related to oil composition within MQTL5.2 (fatty-acid desaturase FAD2, linoleate 9S-lipoxygenase), MQTL9.3, MQTL19.1 (acyl-CoA-binding protein, fatty acyl-CoA reductase FAR1), MQTL19.4, and MQTL19.5. Nutritional traits like iron and zinc content are linked to MQTL1.1 (probable methyltransferase, ferredoxin C), MQTL10.1, and MQTL12.1. These regions and genes serve as precise targets for marker-assisted breeding to enhance peanut yield, resilience, and quality. 2025-04-15 2026-01-08T17:46:39Z 2026-01-08T17:46:39Z Journal Article https://hdl.handle.net/10568/179533 en Open Access application/pdf Frontiers Media Sahu, Aakash; Rangari, Sagar Krushnaji; Naik, Yogesh Dashrath; Jyotish, Anjali; Pandey, Manish K.; Varshney, Rajeev K.; Thudi, Mahendar; & Punnuri, Somashekhar M. 2025. Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut. https://doi.org/10.3389/fpls.2025.1539641 |
| spellingShingle | groundnuts aflatoxins abiotic stress biotic stress crop improvement Punnuri, Somashekhar M. Thudi, Mahendar Varshney, Rajeev K. Pandey, Manish K. Jyotish, Anjali Naik, Yogesh Dashrath Rangari, Sagar Krushnaji Sahu, Aakash Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut |
| title | Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut |
| title_full | Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut |
| title_fullStr | Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut |
| title_full_unstemmed | Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut |
| title_short | Consensus genomic regions and key genes for biotic, abiotic and key nutritional traits identified using meta- QTL analysis in peanut |
| title_sort | consensus genomic regions and key genes for biotic abiotic and key nutritional traits identified using meta qtl analysis in peanut |
| topic | groundnuts aflatoxins abiotic stress biotic stress crop improvement |
| url | https://hdl.handle.net/10568/179533 |
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