[目的]揭示南方高蛋白大豆遗传变异提供理论参考.[方法]通过高通量测序技术对南方高蛋白大豆品种福豆 234进行全基因组重测序.[结果]共获得 64 757 037条Clean reads,测序深度为 17×,基因组覆盖度分别达98.08%(1×)和96.25%(5×).共鉴定出1478393个单核苷酸多态性(Single nucleotide polymorphism,SNP)位点和356739个小片段插入缺失(Small insertion-deletion,Small InDel)位点.其中共鉴定出 14323个非同义SNP突变的基因,4186个Small Indel的突变基因位于编码区(Coding sequence,CDS).通过COG(Clusters of orthologous groups of proteins)分析发现信号传导机制、转录、碳水化合物转输和代谢等和 KEGG(Kyoto encyclopedia of genes and genomes)分析发现碳代谢、淀粉和蔗糖代谢、氨基酸生物合成、植物激素信号传导、内质网蛋白质加工等通路与福豆 234遗传变异相关.此外,本研究以大豆籽粒蛋白质含量数量性状基因座(Quantitative trait locus,QTL)的两个主要区段内的候选基因进行分析,发现有 65个基因发生SNP或Small InDel水平的变异,其中,SNP变异类型达10种,Small InDel变异类型达 7种.[结论]本研究初步揭示南方高蛋白大豆的遗传变异规律,为高蛋白大豆品种选育和分子标记的开发提供数据支持和理论依据.
Abstract
[Objective]Genetic variations in the southern high-protein soybeans were revealed by re-sequencing the whole genome.[Method]High-throughput sequencing was conducted on the whole genome of the southern high-protein soybean Fudou 234 to detect genetic variations.[Result]In the 64757037 clean reads,the sequencing depth was 17×with genome coverage of 98.08%(1×)and 96.25%(5×).There were 1478393 single nucleotide polymorphisms(SNPs)and 356739 small insertion-deletions(Small InDels)identified.Among them,14323 non-synonymous SNP mutations and 4186Small InDel mutated genes were found in the coding sequence(CDS).Analysis by COG(Clusters of orthologous groups of proteins)revealed that signal transduction mechanisms,transcription,carbohydrate translocation and metabolism and KEGG(Kyoto encyclopedia of genes and genomes)analyses revealed that the pathways of carbon metabolism,starch and sucrose metabolism,amino acid biosynthesis,phytohormone signalling,and endoplasmic reticulum protein processing were associated with genetic variation in Fudou 234.In addition,by studying the candidate genes in two major segments of soybean kernel protein quantitative trait locus(QTL),10 SNP and 7 Small InDel type variations were discovered in 65 genes.[Conclusion]The genetic variations in the southern high-protein soybeans deviated from the regular varieties were unveiled to provide new venue for breeding and developing molecular markers in studying soybeans.
维普
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