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Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize

Maize productivity is significantly impacted by drought; therefore, improvement of drought tolerance is a critical goal in maize breeding. To achieve this, a better understanding of the genetic basis of drought tolerance is necessary. Our study aimed to identify genomic regions associated with droug...

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Autores principales: Sarkar, Basudeb, Varalaxmi, Yellisetty, Vanaja, Maddi, RaviKumar, Nakka, Prabhakar, Mathyam, Yadav, Sushil Kumar, Maheswari, Mandapaka, Singh, Vinod Kumar
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10200936/
https://www.ncbi.nlm.nih.gov/pubmed/37223807
http://dx.doi.org/10.3389/fpls.2023.1124619
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author Sarkar, Basudeb
Varalaxmi, Yellisetty
Vanaja, Maddi
RaviKumar, Nakka
Prabhakar, Mathyam
Yadav, Sushil Kumar
Maheswari, Mandapaka
Singh, Vinod Kumar
author_facet Sarkar, Basudeb
Varalaxmi, Yellisetty
Vanaja, Maddi
RaviKumar, Nakka
Prabhakar, Mathyam
Yadav, Sushil Kumar
Maheswari, Mandapaka
Singh, Vinod Kumar
author_sort Sarkar, Basudeb
collection PubMed
description Maize productivity is significantly impacted by drought; therefore, improvement of drought tolerance is a critical goal in maize breeding. To achieve this, a better understanding of the genetic basis of drought tolerance is necessary. Our study aimed to identify genomic regions associated with drought tolerance-related traits by phenotyping a mapping population of recombinant inbred lines (RILs) for two seasons under well-watered (WW) and water-deficit (WD) conditions. We also used single nucleotide polymorphism (SNP) genotyping through genotyping-by-sequencing to map these regions and attempted to identify candidate genes responsible for the observed phenotypic variation. Phenotyping of the RILs population revealed significant variability in most of the traits, with normal frequency distributions, indicating their polygenic nature. We generated a linkage map using 1,241 polymorphic SNPs distributed over 10 chromosomes (chrs), covering a total genetic distance of 5,471.55 cM. We identified 27 quantitative trait loci (QTLs) associated with various morphophysiological and yield-related traits, with 13 QTLs identified under WW conditions and 12 under WD conditions. We found one common major QTL (qCW2–1) for cob weight and a minor QTL (qCH1–1) for cob height that were consistently identified under both water regimes. We also detected one major and one minor QTL for the Normalized Difference Vegetation Index (NDVI) trait under WD conditions on chr 2, bin 2.10. Furthermore, we identified one major QTL (qCH1–2) and one minor QTL (qCH1–1) on chr 1 that were located at different genomic positions to those identified in earlier studies. We found co-localized QTLs for stomatal conductance and grain yield on chr 6 (qg(s)6–2 and qGY6–1), while co-localized QTLs for stomatal conductance and transpiration rate were identified on chr 7 (qg(s)7–1 and qTR7–1). We also attempted to identify the candidate genes responsible for the observed phenotypic variation; our analysis revealed that the major candidate genes associated with QTLs detected under water deficit conditions were related to growth and development, senescence, abscisic acid (ABA) signaling, signal transduction, and transporter activity in stress tolerance. The QTL regions identified in this study may be useful in designing markers that can be utilized in marker-assisted selection breeding. In addition, the putative candidate genes can be isolated and functionally characterized so that their role in imparting drought tolerance can be more fully understood.
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spelling pubmed-102009362023-05-23 Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize Sarkar, Basudeb Varalaxmi, Yellisetty Vanaja, Maddi RaviKumar, Nakka Prabhakar, Mathyam Yadav, Sushil Kumar Maheswari, Mandapaka Singh, Vinod Kumar Front Plant Sci Plant Science Maize productivity is significantly impacted by drought; therefore, improvement of drought tolerance is a critical goal in maize breeding. To achieve this, a better understanding of the genetic basis of drought tolerance is necessary. Our study aimed to identify genomic regions associated with drought tolerance-related traits by phenotyping a mapping population of recombinant inbred lines (RILs) for two seasons under well-watered (WW) and water-deficit (WD) conditions. We also used single nucleotide polymorphism (SNP) genotyping through genotyping-by-sequencing to map these regions and attempted to identify candidate genes responsible for the observed phenotypic variation. Phenotyping of the RILs population revealed significant variability in most of the traits, with normal frequency distributions, indicating their polygenic nature. We generated a linkage map using 1,241 polymorphic SNPs distributed over 10 chromosomes (chrs), covering a total genetic distance of 5,471.55 cM. We identified 27 quantitative trait loci (QTLs) associated with various morphophysiological and yield-related traits, with 13 QTLs identified under WW conditions and 12 under WD conditions. We found one common major QTL (qCW2–1) for cob weight and a minor QTL (qCH1–1) for cob height that were consistently identified under both water regimes. We also detected one major and one minor QTL for the Normalized Difference Vegetation Index (NDVI) trait under WD conditions on chr 2, bin 2.10. Furthermore, we identified one major QTL (qCH1–2) and one minor QTL (qCH1–1) on chr 1 that were located at different genomic positions to those identified in earlier studies. We found co-localized QTLs for stomatal conductance and grain yield on chr 6 (qg(s)6–2 and qGY6–1), while co-localized QTLs for stomatal conductance and transpiration rate were identified on chr 7 (qg(s)7–1 and qTR7–1). We also attempted to identify the candidate genes responsible for the observed phenotypic variation; our analysis revealed that the major candidate genes associated with QTLs detected under water deficit conditions were related to growth and development, senescence, abscisic acid (ABA) signaling, signal transduction, and transporter activity in stress tolerance. The QTL regions identified in this study may be useful in designing markers that can be utilized in marker-assisted selection breeding. In addition, the putative candidate genes can be isolated and functionally characterized so that their role in imparting drought tolerance can be more fully understood. Frontiers Media S.A. 2023-05-08 /pmc/articles/PMC10200936/ /pubmed/37223807 http://dx.doi.org/10.3389/fpls.2023.1124619 Text en Copyright © 2023 Sarkar, Varalaxmi, Vanaja, RaviKumar, Prabhakar, Yadav, Maheswari and Singh https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Sarkar, Basudeb
Varalaxmi, Yellisetty
Vanaja, Maddi
RaviKumar, Nakka
Prabhakar, Mathyam
Yadav, Sushil Kumar
Maheswari, Mandapaka
Singh, Vinod Kumar
Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
title Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
title_full Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
title_fullStr Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
title_full_unstemmed Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
title_short Mapping of QTLs for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
title_sort mapping of qtls for morphophysiological and yield traits under water-deficit stress and well-watered conditions in maize
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10200936/
https://www.ncbi.nlm.nih.gov/pubmed/37223807
http://dx.doi.org/10.3389/fpls.2023.1124619
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