Natural variation in GmSW17 controls seed size in soybean

IF 14.7 1区综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES

Nature Communications Pub Date : 2024-08-28 DOI:10.1038/s41467-024-51798-5

Shan Liang, Zongbiao Duan, Xuemei He, Xia Yang, Yaqin Yuan, Qianjin Liang, Yi Pan, Guoan Zhou, Min Zhang, Shulin Liu, Zhixi Tian

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Abstract

Seed size/weight plays an important role in determining crop yield, yet only few genes controlling seed size have been characterized in soybean. Here, we perform a genome-wide association study and identify a major quantitative trait locus (QTL), named GmSW17 (Seed Width 17), on chromosome 17 that determine soybean seed width/weight in natural population. GmSW17 encodes a ubiquitin-specific protease, an ortholog to UBP22, belonging to the ubiquitin-specific protease (USPs/UBPs) family. Further functional investigations reveal that GmSW17 interacts with GmSGF11 and GmENY2 to form a deubiquitinase (DUB) module, which influences H2Bub levels and negatively regulates the expression of GmDP-E2F-1, thereby inhibiting the G1-to-S transition. Population analysis demonstrates that GmSW17 undergo artificial selection during soybean domestication but has not been fixed in modern breeding. In summary, our study identifies a predominant gene related to soybean seed weight, providing potential advantages for high-yield breeding in soybean.

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GmSW17 的自然变异控制着大豆的种子大小

种子大小/重量在决定作物产量方面起着重要作用，但大豆中控制种子大小的基因却很少。在此，我们进行了一项全基因组关联研究，并在第 17 号染色体上鉴定出一个主要的数量性状位点（QTL），命名为 GmSW17（种子宽度 17），它决定了自然群体中大豆种子的宽度/重量。GmSW17 编码一种泛素特异性蛋白酶，与 UBP22 同源，属于泛素特异性蛋白酶（USPS/UBPs）家族。进一步的功能研究发现，GmSW17 与 GmSGF11 和 GmENY2 相互作用，形成一个去泛素酶（DUB）模块，从而影响 H2Bub 的水平并负向调节 GmDP-E2F-1 的表达，从而抑制 G1 到 S 的转化。群体分析表明，GmSW17 在大豆驯化过程中经历了人工选择，但在现代育种中并未固定下来。总之，我们的研究发现了一个与大豆籽粒重量相关的优势基因，为大豆的高产育种提供了潜在的优势。

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来源期刊

Nature Communications Biological Science Disciplines-

CiteScore

24.90

自引率

2.40%

发文量

6928

审稿时长

3.7 months

期刊介绍： Nature Communications, an open-access journal, publishes high-quality research spanning all areas of the natural sciences. Papers featured in the journal showcase significant advances relevant to specialists in each respective field. With a 2-year impact factor of 16.6 (2022) and a median time of 8 days from submission to the first editorial decision, Nature Communications is committed to rapid dissemination of research findings. As a multidisciplinary journal, it welcomes contributions from biological, health, physical, chemical, Earth, social, mathematical, applied, and engineering sciences, aiming to highlight important breakthroughs within each domain.