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ORIGINAL RESEARCH article
Front. Plant Sci.
Sec. Plant Abiotic Stress
Volume 15 - 2024 |
doi: 10.3389/fpls.2024.1404879
This article is part of the Research Topic Genetic and Physiological Responses of Cereal Crops to Climate Change Induced Abiotic Stresses View all 3 articles
Analysis of genome-wide association studies of lowtemperature germination in Xian and Geng rice
Provisionally accepted
Kang Li
1
Muhammad Ahmad Hassan
2
Jinmeng Guo
1*
Xueyu Zhao
1*
Quan Gan
2
Cuixiang Lin
2*
Bin Ten
2*
Kunneng Zhou
2
Shi Yingyao
2
Min Li
1*
Dahu Ni
2*
Fengshun Song
2*- 1 College of Agronomy, Anhui Agricultural University, Hefei, Anhui Province, China
- 2 Rice Research Institute, Anhui Academy of Agricultural Sciences, Hefei, China
Rice is the leading global staple crop. Low temperatures pose negative impacts on rice's optimal growth and development. Rice cultivars acclimating to low temperatures exhibited improved seedling emergence under direct-seeded sowing conditions, yet little is known about the genes that regulate germination at low temperatures (LTG). In this research investigation, we've performed whole genome sequencing for the 273 rice plant materials. Using the best linear unbiased prediction (BLUP) values for each rice material, we identified 7 LTG-related traits and performed the efficient genetic analysis and genome-wide association study (GWAS). As a result of this, 95 quantitative trait loci (QTLs) and 1001 candidate genes associated with LTG in rice were identified. Haplotype analysis and functional annotation of the candidate genes resulted in the identification of three promising candidate genes (LOC_Os08g30520 for regulating LTG4 and LTG5, LOC_Os10g02625 for regulating LTG6, LTg7 and LTG8, and LOC_Os12g31460 for regulating LTG7, LTg8 and LTG9) involving in the regulation of LTG in rice. This research provides a solid foundation for addressing the LTG issue in rice and will be valuable in future direct-seeded rice breeding programs.
Keywords: rice, LtG, GWAS, QTLs, Low-temperature, Breeding
Received: 21 Mar 2024; Accepted: 15 Jul 2024.
Copyright: © 2024 Li, Hassan, Guo, Zhao, Gan, Lin, Ten, Zhou, Yingyao, Li, Ni and Song. 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) or licensor 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.
* Correspondence:
Jinmeng Guo, College of Agronomy, Anhui Agricultural University, Hefei, 230036, Anhui Province, China
Xueyu Zhao, College of Agronomy, Anhui Agricultural University, Hefei, 230036, Anhui Province, China
Cuixiang Lin, Rice Research Institute, Anhui Academy of Agricultural Sciences, Hefei, China
Bin Ten, Rice Research Institute, Anhui Academy of Agricultural Sciences, Hefei, China
Min Li, College of Agronomy, Anhui Agricultural University, Hefei, 230036, Anhui Province, China
Dahu Ni, Rice Research Institute, Anhui Academy of Agricultural Sciences, Hefei, China
Fengshun Song, Rice Research Institute, Anhui Academy of Agricultural Sciences, Hefei, China
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