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首页> 外文期刊>BMC Genomics >Construction of a high-density genetic map and the X/Y sex-determining gene mapping in spinach based on large-scale markers developed by specific-locus amplified fragment sequencing (SLAF-seq)
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Construction of a high-density genetic map and the X/Y sex-determining gene mapping in spinach based on large-scale markers developed by specific-locus amplified fragment sequencing (SLAF-seq)

机译：基于特定位点扩增片段测序（SLAF-seq）开发的大规模标记，在菠菜中构建高密度遗传图谱和X / Y性别决定性基因图谱

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Background Cultivated spinach ( Spinacia oleracea L.) is one of the most widely cultivated types of leafy vegetable in the world, and it has a high nutritional value. Spinach is also an ideal plant for investigating the mechanism of sex determination because it is a dioecious species with separate male and female plants. Some reports on the sex labeling and localization of spinach in the study of molecular markers have surfaced. However, there have only been two reports completed on the genetic map of spinach. The lack of rich and reliable molecular markers and the shortage of high-density linkage maps are important constraints in spinach research work. In this study, a high-density genetic map of spinach based on the Specific-locus Amplified Fragment Sequencing (SLAF-seq) technique was constructed; the sex-determining gene was also finely mapped. Results Through bio-information analysis, 50.75 Gb of data in total was obtained, including 207.58 million paired-end reads. Finally, 145,456 high-quality SLAF markers were obtained, with 27,800 polymorphic markers and 4080 SLAF markers were finally mapped onto the genetic map after linkage analysis. The map spanned 1,125.97 cM with an average distance of 0.31 cM between the adjacent marker loci. It was divided into 6 linkage groups corresponding to the number of spinach chromosomes. Besides, the combination of Bulked Segregation Analysis (BSA) with SLAF-seq technology(super-BSA) was employed to generate the linkage markers with the sex-determining gene. Combined with the high-density genetic map of spinach, the sex-determining gene X/Y was located at the position of the linkage group (LG) 4 (66.98 cM–69.72 cM and 75.48 cM–92.96 cM), which may be the ideal region for the sex-determining gene. Conclusions A high-density genetic map of spinach based on the SLAF-seq technique was constructed with a backcross (BC1) population (which is the highest density genetic map of spinach reported at present). At the same time, the sex-determining gene X/Y was mapped to LG4 with super-BSA. This map will offer a suitable basis for further study of spinach, such as gene mapping, map-based cloning of Specific genes, quantitative trait locus (QTL) mapping and marker-assisted selection (MAS). It will also provide an efficient reference for studies on the mechanism of sex determination in other dioecious plants.
机译：背景技术栽培菠菜（Spinacia oleracea L.）是世界上种植最广泛的叶类蔬菜之一，具有很高的营养价值。菠菜也是研究性别决定机制的理想植物，因为它是雌雄异株，雌雄同株。关于分子标记研究中菠菜的性别标签和定位的一些报道浮出水面。但是，在菠菜的遗传图谱上仅完成了两项报道。缺乏丰富而可靠的分子标记以及缺乏高密度的连锁图谱是菠菜研究工作中的重要制约因素。在这项研究中，构建了基于特定基因座扩增片段测序（SLAF-seq）技术的菠菜高密度遗传图谱。性别决定基因也被精确定位。结果通过生物信息分析，总共获得了50.75 Gb的数据，其中包括20758万对配对的末端读取。最终，通过连锁分析，获得了145,456个高质量的SLAF标记，其中27,800个多态性标记和4080个SLAF标记最终被定位到遗传图谱上。该图跨越1,125.97 cM，相邻标记基因座之间的平均距离为0.31 cM。根据菠菜染色体数将其分为6个连锁组。此外，结合体分离分析（SLA）和SLAF-seq技术（super-BSA）产生了具有性别决定基因的连锁标记。结合菠菜的高密度遗传图谱，性别决定基因X / Y位于连锁群（LG）4（66.98 cM–69.72 cM和75.48 cM–92.96 cM）的位置。决定性别的基因的理想区域。结论构建了基于SLAF-seq技术的菠菜高密度遗传图谱，该图谱具有回交（BC 1 ）种群（这是目前报道的菠菜密度最高的遗传图谱）。同时，用super-BSA将性别决定基因X / Y定位于LG4。该图谱将为菠菜的进一步研究提供合适的基础，例如基因图谱，基于图谱的特定基因克隆，定量性状基因座（QTL）图谱和标记辅助选择（MAS）。这也将为研究其他雌雄异株植物性别决定机制的研究提供有效参考。

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