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Special Issue:
油料作物合辑Oil Crops
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| Genome-wide association and linkage mapping strategies reveal genetic loci and candidate genes of phosphorus utilization in soybean |
| ZHANG Hua*, WU Hai-yan*, TIAN Rui, KONG You-bin, CHU Jia-hao, XING Xin-zhu, DU Hui, JIN Yuan, LI Xi-huan, ZHANG Cai-ying |
| State Key Laboratory of North China Crop Improvement and Regulation/Hebei Agricultural University, Baoding 071001, P.R.China |
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摘要
本研究利用自然群体（281份资源）和重组自交系群体（270份家系），在不同磷素处理条件下分别评价其T1（四叶期，苗期）和T2（六叶期，花期）两个需磷关键时期11个磷素利用相关性状。结果发现，200个SNPs与磷素利用相关性状显著关联，其中包括91个T1期SNPs和109个T2期SNPs；这些SNPs中，12号染色体关联SNP簇（s715611375、ss715611377、ss715611379、ss715611380）在低磷处理条件下与T1期的株高显著关联，其优势单倍型株高显著优于其它单倍型；10号染色体SNP簇（ss715606501、ss715606506、s715606543）在低磷处理下与T2期根冠比、根系干重和总干重显著关联，其优势单倍型相关性状亦显著优于其它单倍型。进一步分析发现，4个SNPs（ss715597964、ss715607012、ss715622173和ss715602331）在低磷条件下与T1和T2期相关性状共关联；同时发现，12个重组自交系群体连锁QTLs与关联位点一致。基于此，筛选出14个在低磷胁迫下差异表达候选基因，其中包括MYB转录因子、紫色酸性磷酸酶、糖转运蛋白和热激蛋白家族基因等。上述遗传位点与候选基因为大豆磷素利用效率遗传改良提供了选择标记及基因。
Abstract
Insufficient available phosphorus in soil has become an important limiting factor for the improvement of yield and quality in soybean. The mining of QTLs and candidate genes controlling soybean phosphorus utilization related traits is a necessary strategy to solve this problem. In this study, 11 phosphorus utilization related traits of a natural population of 281 typical soybean germplasms and a recombinant inbred line (RIL) population of 270 lines were evaluated under different phosphorus conditions at two critical stages: the four-leaf stage as the seedling critical stage was designated as the T1 stage, and the six-leaf stage as the flowering critical stage was designated as the T2 stage. In total, 200 single nucleotide polymorphism (SNP) loci associated with phosphorus utilization related traits were identified in the natural population, including 91 detected at the T1 stage, and 109 detected at the T2 stage. Among these SNP loci, one SNP cluster (s715611375, ss715611377, ss715611379 and ss715611380) on Gm12 was shown to be significantly associated with plant height under the low phosphorus condition at the T1 stage, and the elite haplotype showed significantly greater plant height than the others. Meanwhile, one pleiotropic SNP cluster (ss715606501, ss715606506 and ss715606543) on Gm10 was found to be significantly associated with the ratio of root/shoot, root and total dry weights under the low phosphorus condition at the T2 stage, and the elite haplotype also presented significantly higher values for related characteristics under the phosphorus starvation condition. Furthermore, four co-associated SNP loci (ss715597964, ss715607012, ss715622173 and ss715602331) were identified under the low phosphorus condition at both the T1 and T2 stages, and 12 QTLs were found to be consistent with these genetic loci in the RIL population. More importantly, 14 candidate genes, including MYB transcription factor, purple acid phosphatase, sugar transporter and HSP20-like chaperones superfamily genes, etc., showed differential expression levels after low phosphorus treatment, and three of them were further verified by qRT-PCR. Thus, these genetic loci and candidate genes could be applied in marker-assisted selection or map-based gene cloning for the genetic improvement of soybean phosphorus utilization.
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Received: 16 December 2020
Accepted: 01 April 2021
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| Fund: This research was funded by the Project of Hebei Province Science and Technology Support Program, China (17927670H and 16227516D-1). |
| About author: ZHANG Hua, Mobile: +86-15733202069, E-mail: zhanghua0316@ 163.com; WU Hai-yan, E-mail: wuhaiyan_hyw@163.com; Correspondence LI Xi-huan, Tel: +86-312-7528122, E-mail: lixihuan@hebau.edu.cn; ZHANG Cai-ying, Tel: +86-312-7521558, E-mail: zhangcaiying@hebau.edu.cn
* These authors contributed equally to this study.
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Cite this article:
ZHANG Hua, WU Hai-yan, TIAN Rui, KONG You-bin, CHU Jia-hao, XING Xin-zhu, DU Hui, JIN Yuan, LI Xi-huan, ZHANG Cai-ying.
2022.
Genome-wide association and linkage mapping strategies reveal genetic loci and candidate genes of phosphorus utilization in soybean. Journal of Integrative Agriculture, 21(9): 2521-2537.
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