Identification of the Cold-Related Genes COLD11 and OsCTS11 via BSA-seq and Fine Mapping at the Rice Seedling Stage.

IF 4.8 1区 农林科学 Q1 AGRONOMY
Rice Pub Date : 2024-11-22 DOI:10.1186/s12284-024-00749-1
Bian Wu, Minghui Fu, Jinghua Du, Mengjing Wang, Siyue Zhang, Sanhe Li, Junxiao Chen, Wenjun Zha, Changyan Li, Kai Liu, Huashan Xu, Huiying Wang, Shaojie Shi, Yan Wu, Peide Li, Aiqing You, Lei Zhou
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引用次数: 0

Abstract

Cold stress has a significantly negative effect on the growth, development, and yield of rice. However, the genetic basis for the differences in the cold tolerance of Xian/indica and Geng/japonica rice seedlings is still largely unknown. In this study, an RIL population was generated by crossing of the cold-tolerant japonica variety Nipponbare and the cold-sensitive indica variety WD16343 for BSA-seq analysis, and a major cold tolerance QTL qCTS11 was identified on chromosome 11. This locus was narrowed to the 584 kb region through fine mapping. Sequence alignment and expression analysis identified the cloned gene COLD11 and a novel cold-related gene OsCTS11. According to the reported functional variation of COLD11, Nipponbare (TCG + 3GCG)×2 presented more GCG repeats in the 1st exon than WD16343 (TCG + 3GCG), partially explaining the difference in cold tolerance between the parents. OsCTS11, encoding a stress enhanced protein based on phylogenetic analysis, was strongly induced by cold stress and located in the chloroplast and the nucleus. oscts11-mutant lines generated via CRISPR/Cas9 system improved the cold tolerance of rice seedlings. Our study not only reveals novel genetic loci associated with cold tolerance, but also provides potentially valuable gene resources for the cultivation of cold-tolerant rice.

通过 BSA-seq 和水稻幼苗期精细图谱鉴定冷相关基因 COLD11 和 OsCTS11。
冷胁迫对水稻的生长、发育和产量有明显的负面影响。然而,湘/籼稻和耿/粳稻秧苗耐寒性差异的遗传基础在很大程度上仍然未知。本研究通过耐寒的粳稻品种 Nipponbare 和对寒冷敏感的籼稻品种 WD16343 杂交产生了一个 RIL 群体,进行了 BSA-seq 分析,并在 11 号染色体上鉴定出了一个主要的耐寒 QTL qCTS11。通过精细作图,该基因座被缩小到 584 kb 区域。序列比对和表达分析确定了克隆基因 COLD11 和一个新的耐寒相关基因 OsCTS11。根据已报道的 COLD11 的功能变异,与 WD16343(TCG + 3GCG)相比,Nipponbare(TCG + 3GCG)×2 在第 1 外显子中出现了更多的 GCG 重复,这部分解释了亲本之间耐寒性的差异。通过CRISPR/Cas9系统产生的oscts11突变株提高了水稻幼苗的耐寒性。我们的研究不仅揭示了与耐寒性相关的新基因位点,还为耐寒水稻的培育提供了潜在的宝贵基因资源。
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来源期刊
Rice
Rice AGRONOMY-
CiteScore
10.10
自引率
3.60%
发文量
60
审稿时长
>12 weeks
期刊介绍: Rice aims to fill a glaring void in basic and applied plant science journal publishing. This journal is the world''s only high-quality serial publication for reporting current advances in rice genetics, structural and functional genomics, comparative genomics, molecular biology and physiology, molecular breeding and comparative biology. Rice welcomes review articles and original papers in all of the aforementioned areas and serves as the primary source of newly published information for researchers and students in rice and related research.
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