‘永泰’杨梅亲本鉴定及其单核苷酸多态性遗传变异分析

doi:10.3785/j.issn.1008-9209.2020.06.231

浙江大学学报（农业与生命科学版）

2020, Vol. 46

Issue (6): 708-717 DOI: 10.3785/j.issn.1008-9209.2020.06.231

园艺学

‘永泰’杨梅亲本鉴定及其单核苷酸多态性遗传变异分析

陈方永¹(

),胡丹²,颜帮国¹,倪海枝¹,王引¹

^1.浙江省柑橘研究所，浙江台州 318026
^2.温州市特产站，浙江温州 325000

Identification of ‘Yongtai’ bayberry’s parents and analysis of their genetic variation by single nucleotide polymorphism markers

Fangyong CHEN¹(

),Dan HU²,Bangguo YAN¹,Haizhi NI¹,Yin WANG¹

^1.Citrus Research Institute of Zhejiang Province, Taizhou 318026, Zhejiang, China
^2.Wenzhou Specialty Station, Wenzhou 325000, Zhejiang, China

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摘要：

采用基因组重测序和单核苷酸多态性（single nucleotide polymorphism, SNP）系统进化树构建等方法，研究‘永泰’和9个相关品种的亲缘关系，并开发了4 025个SNP核心标记用于遗传和育种研究。根据SNP位点的变异性计算遗传相似系数（genetic similarity, GS），得出‘永泰’与亲本‘硬丝’的GS为0.997 83。系统进化树构建结果表明，10个品种分为2组，其中：‘黑晶’‘东岙早梅’‘乌紫’‘荸荠’‘木叶’5个品种聚为一组；‘早大梅’‘早佳’‘软丝’‘永泰’‘硬丝’5个品种聚为一组，且‘硬丝’与变异品种‘永泰’聚为一小支。同时，‘永泰’在叶片大小、叶缘、叶脉等形态学性状和果实口感上与亲本存在显著差异。通过‘永泰’与参考基因组对比注释，共得到4 660个单核苷酸变异位点。根据研究结果推断，‘永泰’叶片和果实产生显著形态变异的原因可能是SNP位点产生了转换和颠换以及核苷酸序列发生了突变。由此可见，‘永泰’既有亲本‘硬丝’的基本特征，也有与其形态学和果实口感上存在的典型差异。

关键词： 杨梅; 亲缘关系; 单核苷酸多态性标记开发; 变异

Abstract:

In order to study the genetic relationship and genetic mechanism of ‘Yongtai’ and related nine bayberry (Myrica rubra) accessions, the methods of genomic re-sequencing and phylogenetic tree construction of core single nucleotide polymorphism (SNP), etc. were used, and also 4 025 core SNP markers were developed for further genetic and breeding research. The results calculated by genetic similarity (GS) showed that the GS between ‘Yongtai’ and ‘Yingsi’ was 0.997 83. Moreover, ten bayberry accessions were divided into two groups by phylogenetic tree construction analysis of SNP. ‘Heijing’, ‘Dong’aozaomei’, ‘Wuzi’, ‘Biqi’, ‘Muye’ were grouped together, and ‘Zaodamei’, ‘Zaojia’, ‘Ruansi’, ‘Yongtai’ and ‘Yingsi’ were grouped together, where ‘Yingsi’ and ‘Yongtai’ were gathered into a branch. At the same time, there were significant differences between ‘Yongtai’ and its parents in leaf size, leaf margin, leaf vein and fruit flavor. Through comparison and annotation of ‘Yongtai’ and the reference genome, a total of 4 660 differential genes were obtained. In conclusion, the significant morphological variation in leaves and fruits of ‘Yongtai’ may be attributed to the transition and transversion of SNP and the mutation of nucleotide sequence. So ‘Yongtai’ not only has the basic traits of its parent ‘Yingsi’, but also has its typically morphological traits as large leaves and large fruits.

Key words: Myrica rubra genetic relationship single nucleotide polymorphism marker development mutation

收稿日期: 2020-06-23 出版日期: 2020-12-31

CLC:

S 667.6

基金资助: 浙江省“十三五”杨梅育种专项(2016C02052-2);浙江省农业科学院学科建设项目（〔2018〕8号）;浙江省台州市科技项目(台科2020-03)

通讯作者: 陈方永 E-mail: cfy17266@126.com

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陈方永,胡丹,颜帮国,倪海枝,王引. ‘永泰’杨梅亲本鉴定及其单核苷酸多态性遗传变异分析[J]. 浙江大学学报（农业与生命科学版）, 2020, 46(6): 708-717.

Fangyong CHEN,Dan HU,Bangguo YAN,Haizhi NI,Yin WANG. Identification of ‘Yongtai’ bayberry’s parents and analysis of their genetic variation by single nucleotide polymorphism markers. Journal of Zhejiang University (Agriculture and Life Sciences), 2020, 46(6): 708-717.

链接本文:

http://www.zjujournals.com/agr/CN/10.3785/j.issn.1008-9209.2020.06.231 或 http://www.zjujournals.com/agr/CN/Y2020/V46/I6/708

表1 10个杨梅品种名称及来源

表 2 杨梅10个品种重测序及参考基因组比对统计

表 3 杨梅10个品种与参考基因组之间的SNP开发与检测

图1 核心SNP位点在杨梅染色体上的数量（A）及分布（B）

表4 杨梅10个品种间的遗传相似性

图2 杨梅10个品种的核心SNP系统进化树

表5 杨梅10个品种叶片性状比较

图3 杨梅10个品种叶片形态比较

表6 ‘永泰’‘荸荠’和‘硬丝’果实性状描述

图4 ‘永泰’‘荸荠’和‘硬丝’果实形态比较

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