Fine mapping a ClGS gene controlling dark-green stripe rind in watermelon
Fine mapping a ClGS gene controlling dark-green stripe rind in watermelon
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DOI：
10.1016/j.scienta.2021.110583
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发表时间：
2021-09-12
影响因子：
4.3
通讯作者：
Sun, Shouru
中科院分区：
文献类型：
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作者：
Wang, Dengke;Zhang, Minjuan;Sun, Shouru
条纹花纹是西瓜的一个重要农艺性状，决定着西瓜的果皮花纹和消费者的选择。然而，控制这些性状的基因在很大程度上仍然是未知的。本研究以深绿条纹小麦自交系WT 2和网纹小麦自交系WM 204为材料进行遗传分析，结果表明：深绿条纹小麦受单显性基因ClGS控制。利用WT 2与WM 204杂交获得的F-2植株，通过群体分离分析（BSA）初步将ClGS定位在西瓜第6染色体上。下一代测序辅助标记发现和由1206个F-2植物组成的大作图群体用于ClGS基因的精细作图，并且将其进一步定位到107 kb的候选区域中。在该候选区域中预测了11个基因，其中10个基因在1-DAP果皮中的两个亲本系之间差异表达。此外，在这些候选基因的CDS区域检测到64个SNP和3个Indel。为了进一步确定ClGS的候选基因，我们对74份天然西瓜材料进行了重新测序，并通过电子批量分离分析对它们的序列变异进行了研究。在所有非深绿色条纹西瓜登录组中鉴定到3-bp插入，其位于Cla 019205的第8外显子上。在F2作图群体中，该插入片段与表型共分离，电泳分析结果与另外25份西瓜材料完全一致。这些证据表明Cla 019205可能是控制西瓜深绿色条纹的候选基因。本研究结果将有助于更好地了解西瓜条纹形成和分子标记辅助选择。
The stripe pattern is an important agronomic trait in watermelon, which determines the fruit rind pattern and consumer choice. However, the genes controlling these traits are still largely unknown. In the present study, a dark-green stripe inbred line WT2 and a netted stripe inbred line WM204 were used for genetic analysis, which revealed that the dark-green stripe is controlled by a single dominant gene ClGS. By bulked-segregant analysis (BSA), the ClGS was primarily mapped on watermelon chromosome 6 by using F-2 plants developed from a cross between WT2 and WM204. Next-generation sequencing-aided marker discovery and a large mapping population consisting of 1206 F-2 plants was used for fine mapping of the ClGS gene, and it was further mapped into a 107 kb candidate region. There were 11 genes predicated in this candidate region and 10 of them were differentially expressed in the 1-DAP fruit rind between two parental lines. Furthermore, 64 SNPs and 3 Indels were detected in the CDS region of these candidate genes. To further confirm the candidate gene of ClGS, we investigated the sequence variations among 74 re-sequenced natural watermelon accessions by in silico bulk segregant analysis. A 3-bp insertion was identified in all the non-dark green stripe watermelon accession group, which was located on the 8th exon of Cla019205. A Indel marker developed harboring the insertion showed co-segregation with the phenotype in the F-2 mapping population, and it was also in completely agreement with another 25 watermelon accessions by electrophoretic analysis. These evidences suggested Cla019205 is probably the candidate gene controlling dark-green stripe in watermelon. The results of this study will be helpful for better understanding of the stripe formation and marker-assisted selection in watermelon.