| 基于SSR标记的桃品种遗传多样性分析及遗传相似系数比较 |
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| 引用本文： | 叶宇芸,王清明,马建伟,张银平,陈其阳,汤浩茹,张勇.基于SSR标记的桃品种遗传多样性分析及遗传相似系数比较[J].华南农业大学学报,2017,38(3):39-45. |
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| 作者姓名： | 叶宇芸 王清明 马建伟 张银平 陈其阳 汤浩茹 张勇 |
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| 作者单位： | 1. 四川农业大学 园艺学院,四川 成都,611130;2. 四川农业大学 园艺学院,四川 成都 611130;广元市农业科学研究院,四川 广元 628017 |
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| 基金项目： | 四川省教育厅重点项目（12ZZ011） |
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| 摘 要： | 【目的】利用NCBI数据库中桃的EST信息开发SSR引物,分析成都平原主栽桃品种的遗传多样性,探讨各遗传相似系数在桃SSR分析中的适用性,以期为桃种质资源的研究提供参考。【方法】利用来自NCBI-EST数据库的100对SSR引物对12个不同形态的桃品种进行PCR扩增,分析筛选20对多态性好、稳定性高且均匀分布于桃8个连锁群的引物对40个桃品种进行PCR扩增,并采用5个遗传相似系数分别对扩增结果进行分析。【结果】使用20对引物共检测出68个多态性等位基因位点,每对引物的等位基因数在2~5之间,平均为3.4。多态信息含量在0.36~0.73间变化,平均为0.54。Jaccard相似系数为0.106~1.000;Jaccard系数的共表型相关系数rc最高,为0.772;Dice系数次之,为0.719;Jaccard和Dice系数的系统树一致性最高,CI_c为1。Nei’s基因多样性指数在种级水平上和类群水平上分别为0.603和0.374,相应的Shannon’s信息指数分别为1.041和0.591。40个桃品种在聚类中首先分为观赏桃和食用桃2大类,再细分为各类群,聚类结果与传统系谱基本吻合。【结论】基于NCBI数据库中桃的EST信息开发的SSR引物多态性较好,可用于桃的SSR分析。Jaccard和Dice系数适合桃的SSR分析。桃品种总体遗传多样性较丰富,但水蜜桃品种仍需加强种质创新。
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| 关 键 词： | 桃 遗传多样性 遗传相似系数 EST-SSR 引物筛选 |
| 收稿时间： | 2016/7/31 0:00:00 |
SSR analysis on genetic diversity of peach cultivars and comparison of different genetic similarity coefficients |
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| YE Yuyun,WANG Qingming,MA Jianwei,ZHANG Yinping,CHEN Qiyang,TANG Haoru,ZHANG Yong.SSR analysis on genetic diversity of peach cultivars and comparison of different genetic similarity coefficients[J].Journal of South China Agricultural University,2017,38(3):39-45. |
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| Authors: | YE Yuyun WANG Qingming MA Jianwei ZHANG Yinping CHEN Qiyang TANG Haoru ZHANG Yong |
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| Institution: | 1 College of Horticulture, Sichuan Agricultural University,,1 College of Horticulture, Sichuan Agricultural University, 2 Guangyuan Academy of Agricultural Sciences,,1 College of Horticulture, Sichuan Agricultural University,,1 College of Horticulture, Sichuan Agricultural University,,1 College of Horticulture, Sichuan Agricultural University,,1 College of Horticulture, Sichuan Agricultural University, and 1 College of Horticulture, Sichuan Agricultural University, |
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| Abstract: | Objective] To develop SSR primers based on peach ESTs in NCBI database, analyze genetic diversity of the major peach cultivars in Chengdu plain, investigate the applicability of different genetic similarity coefficients in SSR analysis of peach, and provide references for research on peach germplasm resources.Method]In total 100 pairs of SSR primers selected from NCBI-EST database were used in PCR amplification for 12 peach cultivars with various morphology.Twenty primers which had high polymorphism and stability, and evenly distributed in eight linkage groups were selected for PCR amplification of 40 peach cultivars.Five genetic similarity coefficients were used to analyze the amplification results.Result]Using 20 SSR primers, 68 polymorphic alleles were detected.The number of alleles per locus ranged from 2 to 5, with an average of 3.4.The polymorphism information content ranged from 0.36 to 0.73, and with an average of 0.54.The Jaccard genetic similarity coefficient ranged from 0.106 to 1.000.The Cophenetic correlation coefficient (rc) of Jaccard coefficient was the highest being 0.772, followed by Dice coefficient being 0.719.The consistency of consensus trees between Dice and Jaccard coefficients were the highest with CIc being 1.000.Nei's gene diversity index was 0.603 and 0.374 respectively at the species level and the level of different classified groups, the corresponding Shannon's information index was 1.041 and 0.591 respectively.The 40 peach cultivars were firstly divided into two major categories which were ornamental peach and edible peach, and then subdivided into different types of groups.The clustering result basically coincided with the traditional pedigree.Conclusion]The SSR primers developed based on peach ESTs in NCBI database have high polymorphism and can be used for SSR analysis of peach.Jaccard and Dice coefficients are the most appropriate for SSR analysis of peach.In general, the genetic diversity of peach is abundant, but variation of the honey peach group is relatively low, and germplasm innovation of this group needs to be improved. |
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| Keywords: | peach genetic diversity genetic similarity coefficient EST-SSR primer screening |
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