基于SLAF-seq技术构建栽培草莓高密度遗传图谱

doi:10.7668/hbnxb.20191341

华北农学报 ›› 2020, Vol. 35 ›› Issue (6): 52-57. doi: 10.7668/hbnxb.20191341

所属专题： 草莓；热点文章；

• 作物遗传育种·种质资源·生物技术 • 上一篇下一篇

基于SLAF-seq技术构建栽培草莓高密度遗传图谱

董辉¹, 杨莉¹, 李莉¹, 张建军², 范婧芳³, 宋世佳², 杨雷¹, 李海山²

1. 河北省农林科学院石家庄果树研究所, 河北石家庄 050061;
2. 河北省农林科学院, 河北石家庄 050031;
3. 河北省植保植检总站, 河北石家庄 050035

收稿日期:2020-09-11 出版日期:2020-12-28
通讯作者: 杨雷(1978-),男,河北石家庄人,研究员,硕士,主要从事草莓新品种选育及草莓种质资源评价研究;李海山(1980-),男,河北唐山人,副研究员,主要从事草莓新品种示范与推广研究。
作者简介:董辉(1985-),男,河北保定人,副研究员,博士,主要从事草莓新品种选育及草莓种质资源评价研究。
基金资助:
河北省自然科学基金资助项目（C2018301047）；河北省高层次人才资助项目（A201802016）；河北省科学技术研究与发展计划项目（16226313D-4）；河北省农林科学院创新工程项目（C19C0701-03）；河北省农林科学院创新团队项目（F20E06001-2）；河北省农林科学院青年基金项目（2018100103）

High Density Genetic Map of Cultivated Strawberry by SLAF-seq

DONG Hui¹, YANG Li¹, LI Li¹, ZHANG Jianjun², FAN Jingfang³, SONG Shijia², YANG Lei¹, LI Haishan²

1. Shijiazhuang Pomology Institute, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050061, China;
2. Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050031, China;
3. Hebei Provice Plant Protection and Plant Quarantine, Shijiazhuang 050035, China

Received:2020-09-11 Published:2020-12-28

摘要/Abstract

摘要： 为大量开发SNP用于构建栽培草莓高质量的遗传图谱，以国产草莓品种红星为母本，日本草莓品种红颜为父本构建F₁群体，采用SLAF-seq技术和HighMap软件，对2个亲本和200个F₁子代群体进行高通量测序、SNP标记的开发及高密度遗传图谱的构建。通过高通量测序，共获得565 919 066 reads，平均质量Q30为95.36%，平均GC含量为39.68%，样本GC分布正常。通过生物信息学分析，共获得717 881个SLAF标签，2 136 939个SNP标记，其中有56 237个SNP为高质量标记可用于遗传图谱标记的定位和构建。共构建了28个连锁群，总图距为4 022.16 cM，该图SNP标记14 412个，完整度为99.84%，标记间的平均距离为0.28 cM。通过对遗传图谱单体来源进行评估，结果表明每个个体中较大区段均来源于亲本；通过连锁关系热图对相邻标记间的连锁关系进行分析，结果表明，每个连锁群上的大部分标记顺序与基因组保持一致，标记顺序正确，图谱质量高。这是栽培草莓中首次采用SLAF-seq技术构建的高密度SNP遗传图谱，为栽培草莓的遗传研究和分子标记辅助育种奠定了基础。

关键词: 栽培草莓, SLAF-seq, SNP标记, 高密度遗传图谱

Abstract: For the development of a large number of SNP for the construction of high quality genetic map of cultivated strawberry(Fragaria×ananassa,2n=8X=56),Hongxing×Benihoppe crossing populations were sequenced by SLAF-seq that yielded 565 919 066 reads, with Q30 value of 95.36% and GC content of 39.68%. 717 881 SLAFs and 2 136 939 SNPs were identified.Total 56 237 SNPs showed high quality for genetic map construction, of which 14 412 were successfully mapped to 28 linkage groups spanning a total of 4 022.16 cM with an average interval genetic distance of 0.28 cM. It was showed that the greater part of each individual was derived from the parents by evaluating the monomer source of the genetic map. The results of heat map showed that the sequence of most markers on each linkage group was consistent with the genome, the sequence of markers was correct, which could show that the map was of high quality.A high-density genetic map of cultivated strawberry by SLAF-seq could be laying a foundation for genetic research and molecular marker-assisted breeding of cultivated strawberry.

Key words: Cultivated strawberry, SLAF-seq, SNP, High density genetic map

中图分类号:

S668.03

董辉, 杨莉, 李莉, 张建军, 范婧芳, 宋世佳, 杨雷, 李海山. 基于SLAF-seq技术构建栽培草莓高密度遗传图谱[J]. 华北农学报, 2020, 35(6): 52-57. doi: 10.7668/hbnxb.20191341.

DONG Hui, YANG Li, LI Li, ZHANG Jianjun, FAN Jingfang, SONG Shijia, YANG Lei, LI Haishan. High Density Genetic Map of Cultivated Strawberry by SLAF-seq[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2020, 35(6): 52-57. doi: 10.7668/hbnxb.20191341.

http://www.hbnxb.net/CN/Y2020/V35/I6/52

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基于SLAF-seq技术构建栽培草莓高密度遗传图谱

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