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Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice
Tillering and plant biomass are key determinants of rice crop productivity. Tillering at the vegetative stage is associated with weed competition, nutrient uptake, and methane emissions. However, little information is available on quantitative trait loci (QTLs) associated with tiller number (qTN), r...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Nature Publishing Group UK
2022
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9349274/ https://www.ncbi.nlm.nih.gov/pubmed/35922462 http://dx.doi.org/10.1038/s41598-022-17109-y |
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author | Barnaby, Jinyoung Y. McClung, Anna M. Edwards, Jeremy D. Pinson, Shannon R. M. |
author_facet | Barnaby, Jinyoung Y. McClung, Anna M. Edwards, Jeremy D. Pinson, Shannon R. M. |
author_sort | Barnaby, Jinyoung Y. |
collection | PubMed |
description | Tillering and plant biomass are key determinants of rice crop productivity. Tillering at the vegetative stage is associated with weed competition, nutrient uptake, and methane emissions. However, little information is available on quantitative trait loci (QTLs) associated with tiller number (qTN), root biomass (qRB), and shoot biomass (qSB) at the active tillering stage which occurs approximately 6 weeks after planting. Here, we mapped tiller and biomass QTLs with ~ 250 recombinant inbred lines derived from a ‘Francis’ by ‘Rondo’ cross using data collected at the maximum tillering stage from two years of greenhouse study, and further compared these QTLs with those mapped at the harvest stage from a field study. Across these three studies, we discovered six qTNs, two qRBs, and three qSBs. Multiple linear regression further indicated that qTN1-2, qTN3-3, qTN4-1, qRB3-1, and qRB5-1 were significant at the maximum tillering stage while qTN3-2 was detected only at the harvest stage. Moreover, qTN3-1 was consistently significant across different developmental stages and growing environments. The genes identified from the peak target qTN regions included a carotenoid metabolism enzyme, a MYB transcription factor, a CBS domain-containing protein, a SAC3/GANP family protein, a TIFY motif containing protein, and an ABC transporter protein. Two genes in the qRB peak target regions included an expressed protein and a WRKY gene. This knowledge of the QTLs, associated markers, candidate genes, and germplasm resources with high TN, RB and SB is of value to rice cultivar improvement programs. |
format | Online Article Text |
id | pubmed-9349274 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-93492742022-08-05 Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice Barnaby, Jinyoung Y. McClung, Anna M. Edwards, Jeremy D. Pinson, Shannon R. M. Sci Rep Article Tillering and plant biomass are key determinants of rice crop productivity. Tillering at the vegetative stage is associated with weed competition, nutrient uptake, and methane emissions. However, little information is available on quantitative trait loci (QTLs) associated with tiller number (qTN), root biomass (qRB), and shoot biomass (qSB) at the active tillering stage which occurs approximately 6 weeks after planting. Here, we mapped tiller and biomass QTLs with ~ 250 recombinant inbred lines derived from a ‘Francis’ by ‘Rondo’ cross using data collected at the maximum tillering stage from two years of greenhouse study, and further compared these QTLs with those mapped at the harvest stage from a field study. Across these three studies, we discovered six qTNs, two qRBs, and three qSBs. Multiple linear regression further indicated that qTN1-2, qTN3-3, qTN4-1, qRB3-1, and qRB5-1 were significant at the maximum tillering stage while qTN3-2 was detected only at the harvest stage. Moreover, qTN3-1 was consistently significant across different developmental stages and growing environments. The genes identified from the peak target qTN regions included a carotenoid metabolism enzyme, a MYB transcription factor, a CBS domain-containing protein, a SAC3/GANP family protein, a TIFY motif containing protein, and an ABC transporter protein. Two genes in the qRB peak target regions included an expressed protein and a WRKY gene. This knowledge of the QTLs, associated markers, candidate genes, and germplasm resources with high TN, RB and SB is of value to rice cultivar improvement programs. Nature Publishing Group UK 2022-08-03 /pmc/articles/PMC9349274/ /pubmed/35922462 http://dx.doi.org/10.1038/s41598-022-17109-y Text en © This is a U.S. Government work and not under copyright protection in the US; foreign copyright protection may apply 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Barnaby, Jinyoung Y. McClung, Anna M. Edwards, Jeremy D. Pinson, Shannon R. M. Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
title | Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
title_full | Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
title_fullStr | Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
title_full_unstemmed | Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
title_short | Identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
title_sort | identification of quantitative trait loci for tillering, root, and shoot biomass at the maximum tillering stage in rice |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9349274/ https://www.ncbi.nlm.nih.gov/pubmed/35922462 http://dx.doi.org/10.1038/s41598-022-17109-y |
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