Identification and fine genetic mapping of the golden pod gene (pv-ye) from the snap bean (Phaseolus vulgaris L.)
Identification and fine genetic mapping of the golden pod gene (pv-ye) from the snap bean (Phaseolus vulgaris L.)
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DOI：
10.1007/s00122-021-03928-6
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发表时间：
2021-08
影响因子：
5.4
通讯作者：
Xiaoxu Yang;Chang Liu;Yanmei Li;Zhishan Yan;Dajun Liu;Guojun Feng
中科院分区：
文献类型：
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作者：
Xiaoxu Yang;Chang Liu;Yanmei Li;Zhishan Yan;Dajun Liu;Guojun Feng
关键信息利用混合分离分析结合下一代测序，我们定位了负责油豆角品种A18-1金荚性状的pv-ye基因。序列分析表明Phvul.002G006200为候选基因。豆荚的商业用途主要受其颜色的影响。消费者似乎更喜欢金色豆荚。本研究的目的是确定在油豆角的金荚性状的基因负责。以金豆品种A18-1和绿色品种仁那亚为试验材料。遗传分析表明，金荚性状受一对隐性基因pv-ye控制。利用混合分离分析结合全基因组测序将4.24 Mb的候选区域定位于染色体Pv 02。在该区域，F_2群体的连锁分析将pv-yegene定位在SSR标记77和SSR标记93之间的182.9kb的间隔内。该区域包含16个基因（12个来自P. vulgarisdatabase和4个功能未知的基因）。结合转录组测序结果，我们确定Phvul.002G006200为pv-ye的潜在候选基因。对Phvul.002G006200基因进行测序，发现在pv-ye中存在一个单核苷酸多态性（SNP）。设计一对覆盖该SNP的引物，对该片段进行测序，筛选出1086株具有“A18-1”表型的F2代植株。我们的研究结果表明，在1086个定位的个体中，SNP与“A18-1”表型共分离。研究结果为揭示油豆角金荚性状的分子机制奠定了基础。
Key messageUsing bulked segregant analysis combined with next-generation sequencing, we delimited the pv-ye gene responsible for the golden pod trait of snap bean cultivar A18-1. Sequence analysis identified Phvul.002G006200 as the candidate gene.AbstractThe pod is the main edible part of snap beans (Phaseolus vulgarisL.). The commercial use of the pods is mainly affected by their color. Consumers seem to prefer golden pods. The aim of the present study was to identify the gene responsible for the golden pod trait in the snap bean. ‘A18-1’ (a golden bean cultivar) and ‘Renaya’ (a green bean cultivar) were chosen as the experimental materials. Genetic analysis indicated that a single recessive gene,pv-ye, controls the golden pod trait. A candidate region of 4.24 Mb was mapped to chromosome Pv 02 using bulked-segregant analysis coupled with whole-genome sequencing. In this region, linkage analysis in an F2population localized thepv-yegene to an interval of 182.9 kb between the simple sequence repeat markers SSR77 and SSR93. This region comprised 16 genes (12 annotated genes from theP. vulgarisdatabase and 4 functionally unknown genes). Combined with transcriptome sequencing results, we identifiedPhvul.002G006200as the potential candidate gene forpv-ye. Sequencing ofPhvul.002G006200identified a single-nucleotide polymorphism (SNP) inpv-ye. A pair of primers covering the SNP were designed, and the fragment was sequenced to screen 1086 F2plants with the ‘A18-1’ phenotype. Our findings showed that among the 1086 mapped individuals, the SNP cosegregated with the ‘A18-1’ phenotype. The findings presented here could form the basis to reveal the molecular mechanism of the golden pod trait in the snap bean.