Identification of Novel SNP in Promoter Sequence of TaGW2-6A Associated with Grain Weight and Other Agronomic Traits in Wheat (Triticum aestivum L.).
Identification of Novel SNP in Promoter Sequence of TaGW2-6A Associated with Grain Weight and Other Agronomic Traits in Wheat (Triticum aestivum L.).
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DOI：
10.1371/journal.pone.0129400
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Gupta PK
中科院分区：
文献类型：
--
作者：
Jaiswal V;Gahlaut V;Mathur S;Agarwal P;Khandelwal MK;Khurana JP;Tyagi AK;Balyan HS;Gupta PK
TaGW2是水稻基因OsGW2的同源基因，该基因编码E3 RING泛素连接酶并控制水稻晶粒大小。在小麦中，TaGW2的3个拷贝已被鉴定并定位在小麦同源类群6上，即TaGW2- 6a、TaGW2- 6b和TaGW2- 6d。在本研究中，我们利用多达207个印度小麦基因型，在TaGW2-6A启动子序列中鉴定出4个snp，其中包括两个新的snp （SNP-988和SNP-494）。4个snp均为G/A或A/G取代（跃迁）。在四个snp中，SNP-494是因果关系，因为它被发现与谷物重量有关。携带SNP-494_A基因型的平均TGW （41.1 g）显著高于携带SNP-494_G基因型的平均TGW （38.6 g）。SNP-494还能调控TaGW2-6A的表达，使得含有SNP-494_G的小麦基因型表达量高、TGW低，而含有SNP-494_A的小麦基因型表达量低、TGW高。此外，SNP-494还与籽粒长宽比、芒长、穗长、籽粒蛋白质含量、花序梗长和株高相关。这表明TaGW2-6A基因不仅控制籽粒大小，还控制其他农艺性状。在启动子区域，SNP-494存在于“CGCG”基序中，该基序在Ca2+/钙调蛋白介导的基因调控中起重要作用。此外，还开发了一种易于使用的CAPS标记，用于鉴定致病SNP （SNP-494）的理想等位基因，用于小麦粒重改良的标记辅助选择。利用4个snp，鉴定出5个单倍型；其中，Hap_5 （G_A_G_A）是理想的单倍型，其粒重（41.13g）显著高于其他4个单倍型（36.33-39.16 g）。
TaGW2 is an orthologue of rice gene OsGW2, which encodes E3 RING ubiquitin ligase and controls the grain size in rice. In wheat, three copies of TaGW2 have been identified and mapped on wheat homoeologous group 6 viz. TaGW2-6A, TaGW2-6B and TaGW2-6D. In the present study, using as many as 207 Indian wheat genotypes, we identified four SNPs including two novel SNPs (SNP-988 and SNP-494) in the promoter sequence of TaGW2-6A. All the four SNPs were G/A or A/G substitutions (transitions). Out of the four SNPs, SNP-494 was causal, since it was found associated with grain weight. The mean TGW (41.1 g) of genotypes with the allele SNP-494_A was significantly higher than mean TGW (38.6 g) of genotypes with the allele SNP-494_G. SNP-494 also regulates the expression of TaGW2-6A so that the wheat genotypes with SNP-494_G have higher expression and lower TGW and the genotypes with SNP-494_A have lower expression but higher TGW. Besides, SNP-494 was also found associated with grain length-width ratio, awn length, spike length, grain protein content, peduncle length and plant height. This suggested that gene TaGW2-6A not only controls grain size, but also controls other agronomic traits. In the promoter region, SNP-494 was present in ‘CGCG’ motif that plays an important role in Ca2+/calmodulin mediated regulation of genes. A user-friendly CAPS marker was also developed to identify the desirable allele of causal SNP (SNP-494) for use in marker-assisted selection for improvement of grain weight in wheat. Using four SNPs, five haplotypes were identified; of these, Hap_5 (G_A_G_A) was found to be a desirable haplotype having significantly higher grain weight (41.13g) relative to other four haplotypes (36.33-39.16 g).
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影响因子：
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作者：
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通讯作者：
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影响因子：
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