Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.)
With progressive climate change and the associated increase in mean temperature, heat stress tolerance has emerged as one of the key traits in the product profile of the maize breeding pipeline for lowland tropics. The present study aims to identify the genomic regions associated with heat stress tolerance in tropical maize. An association mapping panel, called the heat tolerant association mapping (HTAM) panel, was constituted by involving a total of 543 tropical maize inbred lines from diverse genetic backgrounds, test-crossed and phenotyped across nine locations in South Asia under natural heat stress. The panel was genotyped using a genotyping-by-sequencing (GBS) platform. Considering the large variations in vapor pressure deficit (VPD) at high temperature (Tmax) across different phenotyping locations, genome-wide association study (GWAS) was conducted separately for each location. The individual location GWAS identified a total of 269 novel significant single nucleotide polymorphisms (SNPs) for grain yield under heat stress at a p value of < 10–5. A total of 175 SNPs were found in 140 unique gene models implicated in various biological pathway responses to different abiotic stresses. Haplotype trend regression (HTR) analysis of the significant SNPs identified 26 haplotype blocks and 96 single SNP variants significant across one to five locations. The genomic regions identified based on GWAS and HTR analysis considering genomic region x environment interactions are useful for breeding efforts aimed at developing heat stress resilient maize cultivars for current and future climatic conditions through marker-assisted introgression into elite genetic backgrounds and/or genome-wide selection.
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Nature Publishing Group
2021
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Subjects: | AGRICULTURAL SCIENCES AND BIOTECHNOLOGY, GENOMICS, HEAT TOLERANCE, MAIZE, |
Online Access: | https://hdl.handle.net/10883/21798 |
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dig-cimmyt-10883-217982022-08-31T19:54:20Z Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) Seetharam, K. Kuchanur, P.H. Koirala, K.B. Tripathi, M.P. Patil, A. Sudarsanam, V. Das, R.R. Chaurasia, R. Pandey, K. Vemuri, H. Vinayan, M.T. Nair, S.K. Babu, R. Zaidi, P.H. AGRICULTURAL SCIENCES AND BIOTECHNOLOGY GENOMICS HEAT TOLERANCE MAIZE With progressive climate change and the associated increase in mean temperature, heat stress tolerance has emerged as one of the key traits in the product profile of the maize breeding pipeline for lowland tropics. The present study aims to identify the genomic regions associated with heat stress tolerance in tropical maize. An association mapping panel, called the heat tolerant association mapping (HTAM) panel, was constituted by involving a total of 543 tropical maize inbred lines from diverse genetic backgrounds, test-crossed and phenotyped across nine locations in South Asia under natural heat stress. The panel was genotyped using a genotyping-by-sequencing (GBS) platform. Considering the large variations in vapor pressure deficit (VPD) at high temperature (Tmax) across different phenotyping locations, genome-wide association study (GWAS) was conducted separately for each location. The individual location GWAS identified a total of 269 novel significant single nucleotide polymorphisms (SNPs) for grain yield under heat stress at a p value of < 10–5. A total of 175 SNPs were found in 140 unique gene models implicated in various biological pathway responses to different abiotic stresses. Haplotype trend regression (HTR) analysis of the significant SNPs identified 26 haplotype blocks and 96 single SNP variants significant across one to five locations. The genomic regions identified based on GWAS and HTR analysis considering genomic region x environment interactions are useful for breeding efforts aimed at developing heat stress resilient maize cultivars for current and future climatic conditions through marker-assisted introgression into elite genetic backgrounds and/or genome-wide selection. 2022-01-08T01:05:16Z 2022-01-08T01:05:16Z 2021 Article Published Version https://hdl.handle.net/10883/21798 10.1038/s41598-021-93061-7 English https://www.nature.com/articles/s41598-021-93061-7#Sec16 CIMMYT manages Intellectual Assets as International Public Goods. The user is free to download, print, store and share this work. In case you want to translate or create any other derivative work and share or distribute such translation/derivative work, please contact CIMMYT-Knowledge-Center@cgiar.org indicating the work you want to use and the kind of use you intend; CIMMYT will contact you with the suitable license for that purpose Open Access London (United Kingdom) Nature Publishing Group 11 2045-2322 Nature Scientific Reports 13730 |
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AGRICULTURAL SCIENCES AND BIOTECHNOLOGY GENOMICS HEAT TOLERANCE MAIZE AGRICULTURAL SCIENCES AND BIOTECHNOLOGY GENOMICS HEAT TOLERANCE MAIZE |
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AGRICULTURAL SCIENCES AND BIOTECHNOLOGY GENOMICS HEAT TOLERANCE MAIZE AGRICULTURAL SCIENCES AND BIOTECHNOLOGY GENOMICS HEAT TOLERANCE MAIZE Seetharam, K. Kuchanur, P.H. Koirala, K.B. Tripathi, M.P. Patil, A. Sudarsanam, V. Das, R.R. Chaurasia, R. Pandey, K. Vemuri, H. Vinayan, M.T. Nair, S.K. Babu, R. Zaidi, P.H. Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) |
description |
With progressive climate change and the associated increase in mean temperature, heat stress tolerance has emerged as one of the key traits in the product profile of the maize breeding pipeline for lowland tropics. The present study aims to identify the genomic regions associated with heat stress tolerance in tropical maize. An association mapping panel, called the heat tolerant association mapping (HTAM) panel, was constituted by involving a total of 543 tropical maize inbred lines from diverse genetic backgrounds, test-crossed and phenotyped across nine locations in South Asia under natural heat stress. The panel was genotyped using a genotyping-by-sequencing (GBS) platform. Considering the large variations in vapor pressure deficit (VPD) at high temperature (Tmax) across different phenotyping locations, genome-wide association study (GWAS) was conducted separately for each location. The individual location GWAS identified a total of 269 novel significant single nucleotide polymorphisms (SNPs) for grain yield under heat stress at a p value of < 10–5. A total of 175 SNPs were found in 140 unique gene models implicated in various biological pathway responses to different abiotic stresses. Haplotype trend regression (HTR) analysis of the significant SNPs identified 26 haplotype blocks and 96 single SNP variants significant across one to five locations. The genomic regions identified based on GWAS and HTR analysis considering genomic region x environment interactions are useful for breeding efforts aimed at developing heat stress resilient maize cultivars for current and future climatic conditions through marker-assisted introgression into elite genetic backgrounds and/or genome-wide selection. |
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Article |
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AGRICULTURAL SCIENCES AND BIOTECHNOLOGY GENOMICS HEAT TOLERANCE MAIZE |
author |
Seetharam, K. Kuchanur, P.H. Koirala, K.B. Tripathi, M.P. Patil, A. Sudarsanam, V. Das, R.R. Chaurasia, R. Pandey, K. Vemuri, H. Vinayan, M.T. Nair, S.K. Babu, R. Zaidi, P.H. |
author_facet |
Seetharam, K. Kuchanur, P.H. Koirala, K.B. Tripathi, M.P. Patil, A. Sudarsanam, V. Das, R.R. Chaurasia, R. Pandey, K. Vemuri, H. Vinayan, M.T. Nair, S.K. Babu, R. Zaidi, P.H. |
author_sort |
Seetharam, K. |
title |
Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) |
title_short |
Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) |
title_full |
Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) |
title_fullStr |
Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) |
title_full_unstemmed |
Genomic regions associated with heat stress tolerance in tropical maize (Zea mays L.) |
title_sort |
genomic regions associated with heat stress tolerance in tropical maize (zea mays l.) |
publisher |
Nature Publishing Group |
publishDate |
2021 |
url |
https://hdl.handle.net/10883/21798 |
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