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Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum
In temperate climates, earlier planting of tropical-origin crops can provide longer growing seasons, reduce water loss, suppress weeds, and escape post-flowering drought stress. However, chilling sensitivity of sorghum, a tropical-origin cereal crop, limits early planting, and over 50 years of conve...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10411554/ https://www.ncbi.nlm.nih.gov/pubmed/37232400 http://dx.doi.org/10.1093/g3journal/jkad116 |
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author | Marla, Sandeep Felderhoff, Terry Hayes, Chad Perumal, Ramasamy Wang, Xu Poland, Jesse Morris, Geoffrey P |
author_facet | Marla, Sandeep Felderhoff, Terry Hayes, Chad Perumal, Ramasamy Wang, Xu Poland, Jesse Morris, Geoffrey P |
author_sort | Marla, Sandeep |
collection | PubMed |
description | In temperate climates, earlier planting of tropical-origin crops can provide longer growing seasons, reduce water loss, suppress weeds, and escape post-flowering drought stress. However, chilling sensitivity of sorghum, a tropical-origin cereal crop, limits early planting, and over 50 years of conventional breeding has been stymied by coinheritance of chilling tolerance (CT) loci with undesirable tannin and dwarfing alleles. In this study, phenomics and genomics-enabled approaches were used for prebreeding of sorghum early-season CT. Uncrewed aircraft systems (UAS) high-throughput phenotyping platform tested for improving scalability showed moderate correlation between manual and UAS phenotyping. UAS normalized difference vegetation index values from the chilling nested association mapping population detected CT quantitative trait locus (QTL) that colocalized with manual phenotyping CT QTL. Two of the 4 first-generation Kompetitive Allele Specific PCR (KASP) molecular markers, generated using the peak QTL single nucleotide polymorphisms (SNPs), failed to function in an independent breeding program as the CT allele was common in diverse breeding lines. Population genomic fixation index analysis identified SNP CT alleles that were globally rare but common to the CT donors. Second-generation markers, generated using population genomics, were successful in tracking the donor CT allele in diverse breeding lines from 2 independent sorghum breeding programs. Marker-assisted breeding, effective in introgressing CT allele from Chinese sorghums into chilling-sensitive US elite sorghums, improved early-planted seedling performance ratings in lines with CT alleles by up to 13–24% compared to the negative control under natural chilling stress. These findings directly demonstrate the effectiveness of high-throughput phenotyping and population genomics in molecular breeding of complex adaptive traits. |
format | Online Article Text |
id | pubmed-10411554 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-104115542023-08-10 Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum Marla, Sandeep Felderhoff, Terry Hayes, Chad Perumal, Ramasamy Wang, Xu Poland, Jesse Morris, Geoffrey P G3 (Bethesda) Plant Genetics and Genomics In temperate climates, earlier planting of tropical-origin crops can provide longer growing seasons, reduce water loss, suppress weeds, and escape post-flowering drought stress. However, chilling sensitivity of sorghum, a tropical-origin cereal crop, limits early planting, and over 50 years of conventional breeding has been stymied by coinheritance of chilling tolerance (CT) loci with undesirable tannin and dwarfing alleles. In this study, phenomics and genomics-enabled approaches were used for prebreeding of sorghum early-season CT. Uncrewed aircraft systems (UAS) high-throughput phenotyping platform tested for improving scalability showed moderate correlation between manual and UAS phenotyping. UAS normalized difference vegetation index values from the chilling nested association mapping population detected CT quantitative trait locus (QTL) that colocalized with manual phenotyping CT QTL. Two of the 4 first-generation Kompetitive Allele Specific PCR (KASP) molecular markers, generated using the peak QTL single nucleotide polymorphisms (SNPs), failed to function in an independent breeding program as the CT allele was common in diverse breeding lines. Population genomic fixation index analysis identified SNP CT alleles that were globally rare but common to the CT donors. Second-generation markers, generated using population genomics, were successful in tracking the donor CT allele in diverse breeding lines from 2 independent sorghum breeding programs. Marker-assisted breeding, effective in introgressing CT allele from Chinese sorghums into chilling-sensitive US elite sorghums, improved early-planted seedling performance ratings in lines with CT alleles by up to 13–24% compared to the negative control under natural chilling stress. These findings directly demonstrate the effectiveness of high-throughput phenotyping and population genomics in molecular breeding of complex adaptive traits. Oxford University Press 2023-05-26 /pmc/articles/PMC10411554/ /pubmed/37232400 http://dx.doi.org/10.1093/g3journal/jkad116 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of The Genetics Society of America. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Plant Genetics and Genomics Marla, Sandeep Felderhoff, Terry Hayes, Chad Perumal, Ramasamy Wang, Xu Poland, Jesse Morris, Geoffrey P Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum |
title | Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum |
title_full | Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum |
title_fullStr | Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum |
title_full_unstemmed | Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum |
title_short | Genomics and phenomics enabled prebreeding improved early-season chilling tolerance in Sorghum |
title_sort | genomics and phenomics enabled prebreeding improved early-season chilling tolerance in sorghum |
topic | Plant Genetics and Genomics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10411554/ https://www.ncbi.nlm.nih.gov/pubmed/37232400 http://dx.doi.org/10.1093/g3journal/jkad116 |
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