科微学术

生物工程学报

2025年4月3日 22:29 星期四
首页 > 过刊浏览>2024年第40卷第1期 >252-268. DOI:10.13345/j.cjb.230349
PDF HTML阅读 XML下载 导出引用 引用提醒
基于SSR分子标记的175份蜡梅种质遗传多样性分析和指纹图谱构建
作者:
基金项目:

国家林业和草原局课题蜡梅(修订)(2020-LY-008)；北京园林绿化增彩延绿科技创新工程(2019-KJC-02-10)


Genetic diversity analysis and fingerprinting of 175 Chimonanthus praecox germplasm based on SSR
molecular marker
Author:
  • 摘要
    • | |
  • 访问统计
    • |
  • 参考文献 [36]
    • |
  • 相似文献 [20]
    • | | |
  • 文章评论
    摘要:

    理清蜡梅品种资源、构建指纹图谱是推动蜡梅科学研究和产业发展的重要基础。利用简单重复序列(simple sequence repeats, SSR)分子标记技术，对鄢陵地区175个蜡梅(Chimonanthus Praecox L.)品种(系)的遗传多样性进行了研究，使用NTSYSpc 2.1软件中的UPDM聚类方法分析品种间的遗传多样性。利用基于贝叶斯模型的Structure v2.3.3软件解析175份种质的遗传结构。通过一般线性模型(general linear model, GLM)对性状和标记进行关联分析。在遗传多样性分析中，平均等位基因数(number of alleles, Na)为6.857，平均期望杂合度(heterozygosity, He)为0.496 3，平均观测杂合度(observed heterozygosity, Ho)为0.503 7，蜡梅Nei’s平均基因多样性指数为0.494 9，平均Shannon信息指数为0.995 8，表明鄢陵地区蜡梅群体内具有较丰富的遗传多样性。群体结构和UPDM聚类分析均表明可将175个品种(系)分为7个类群。在GLM模型中有15个标记位点与8个表型性状显著(P<0.05)关联，表型变异解释范围为14.90%−36.03%。利用11对多态信息含量(polymorphic information content, PIC)最高的引物，构建175份蜡梅品种(系)资源SSR标记的指纹图谱。本研究综合分析了鄢陵地区蜡梅的遗传多样性与SSR分子标记，并构建了蜡梅核心种质资源库，为蜡梅新优品种选育、品种鉴定、资源保护与利用等工作提供理论支撑。

    Abstract:

    The elucidation of resources pertaining to the Chimonanthus praecox varieties and the establishment of a fingerprint serve as crucial underpinnings for advancing scientific inquiry and industrial progress in relation to C. praecox. Employing the SSR molecular marker technology, an exploration of the genetic diversity of 175 C. praecox varieties (lines) in the Yanling region was conducted, and an analysis of the genetic diversity among these varieties was carried out using the UPDM clustering method in NTSYSpc 2.1 software. We analyzed the genetic structure of 175 germplasm using Structure v2.3.3 software based on a Bayesian model. General linear model (GLM) association was utilized to analyze traits and markers. The genetic diversity analysis revealed a mean number of alleles (Na) of 6.857, a mean expected heterozygosity (He) of 0.496 3, a mean observed heterozygosity (Ho) of 0.503 7, a mean genetic diversity index of Nei՚s of 0.494 9, and a mean Shannon information index of 0.995 8. These results suggest that the C. praecox population in Yanling exhibits a rich genetic diversity. Additionally, the population structure and the UPDM clustering were examined. In the GLM model, a total of fifteen marker loci exhibited significant (P<0.05) association with eight phenotypic traits, with the explained phenotypic variation ranging from 14.90% to 36.03%. The construction of fingerprints for C. praecox varieties (lines) was accomplished by utilizing eleven primer pairs with the highest polymorphic information content, resulting in the analysis of 175 SSR markers. The present study offers a thorough examination of the genetic diversity and SSR molecular markers of C. praecox in Yanling, and establishes a fundamental germplasm repository of C. praecox, thereby furnishing theoretical underpinnings for the selection and cultivation of novel and superior C. praecox varieties, varietal identification, and resource preservation and exploitation.

    参考文献
    [1] 赵冰, 张启翔. 蜡梅种质资源遗传多样性的ISSR分析[J]. 植物研究, 2008, 28(3):315-320. ZHAO B, ZHANG QX. Genetic diversity of germplasm resources of Chimonanthus praecox based on ISSR analysis[J]. Bulletin of Botanical Research, 2008, 28(3):315-320(in Chinese).
    [2] 陈龙清, 赵凯歌, 杜永芹. 蜡梅属品种国际登录(2016‒2018)[J]. 中国园林, 2020, 36(z1):40-43. CHEN LQ, ZHAO KG, DU YQ. Internationally registered cultivars in Chimonanthus lindley (2016‒2018)[J]. Chinese Landscape Architecture, 2020, 36(z1):40-43(in Chinese).
    [3] 芦建国, 荣娟. 鄢陵蜡梅品种资源调查及其产业开发利用[J]. 中国野生植物资源, 2012, 31(3):50-53. LU JG, RONG J. Yanling Chimonanthus germplasm resources survey and its industrialization development and utilization[J]. Chinese Wild Plant Resources, 2012, 31(3):50-53(in Chinese).
    [4] 张安世, 韩臣鹏, 齐秀娟, 张中海. 基于ISSR标记的猕猴桃品种遗传多样性分析及指纹图谱构建[J]. 植物资源与环境学报, 2017, 26(3):19-26. ZHANG AS, HAN CP, QI XJ, ZHANG ZH. Genetic diversity analysis and fingerprinting construction of cultivars of Actinidia spp. based on ISSR marker[J]. Journal of Plant Resources and Environment, 2017, 26(3):19-26(in Chinese).
    [5] WU B, ZHONG Y, WU QQ, CHEN FY, ZHONG GY, CUI YP. Genetic diversity, pedigree relationships, and a haplotype-based DNA fingerprinting system of red bayberry cultivars[J]. Frontiers in Plant Science, 2020, 11:563452.
    [6] 赵凯歌. 用形态标记和分子标记研究蜡梅栽培种质的遗传多样性[D]. 武汉:华中农业大学博士学位论文, 2007. ZHAO KG. Studies on genetic diversity of cultivated Chimonanthus praecox using morphological and molecular markers[D]. Wuhan:Doctoral Dissertation of Huazhong Agricultural University, 2007(in Chinese).
    [7] WANG Y, YUE D, LI XZ. Genetic diversity of Toona ciliata populations based on SSR markers[J]. Journal of Resources and Ecology, 2020, 11(5):466.
    [8] YANG XF, QIN WM, WANG LC, ZHANG M, NIU ZG. Long-term variations of surface solar radiation in China from routine meteorological observations[J]. Atmospheric Research, 2021, 260:105715.
    [9] LI JL, ZHAO B, CHEN Y, ZHAO BH, YANG NS, HU SS, SHEN JY, WU XS. A genetic evaluation system for New Zealand white rabbit germplasm resources based on SSR markers[J]. Animals, 2020, 10(8):1258.
    [10] 赵明晓, 范国强. 蜡梅SSR反应体系建立及引物筛选[J]. 河南农业大学学报, 2011, 45(1):46-50. ZHAO MX, FAN GQ. Establishment of Chimonanthus SSR reaction system and its primer selection[J]. Journal of Henan Agricultural University, 2011, 45(1):46-50(in Chinese).
    [11] 李响, 杨楠, 赵凯歌, 陈玉星, 唐锐君, 陈龙清. 蜡梅转录组EST-SSR标记开发与引物筛选[J]. 北京林业大学学报, 2013, 35(S1):25-32. LI X, YANG N, ZHAO KG, CHEN YX, TANG RJ, CHEN LQ. Development and primer selection of EST-SSR molecular markers based on transcriptome sequencing of Chimonanthus praecox[J]. Journal of Beijing Forestry University, 2013, 35(S1):25-32(in Chinese).
    [12] 杨佳. 蜡梅EST-SSR分子标记的开发及其遗传多样性, 遗传结构的研究[D]. 西安:西北大学硕士学位论文, 2012. YANG J. Genetic diversity and genetic structure of Chimonanthus praecox (L.) Link revealed by EST-SSR markers[D]. Xi'an:Master's Thesis of Northwest University, 2012(in Chinese).
    [13] QAZI SHOAIB ALI. 蜡梅的杂交F1代真实性鉴定及遗传多样性分析[D]. 武汉:华中农业大学硕士学位论文, 2018. QAZI SA. Identification and diversity analysis of wintersweet (Chimonanthus praecox) crossing progenies using SSR molecular markers[D]. Wuhan:Master's Thesis of Huazhong Agricultural University, 2018(in Chinese).
    [14] YANG J, DAI PF, ZHOU TH, HUANG ZH, FENG L, SU HL, LIU ZL, ZHAO GF. Genetic diversity and structure of wintersweet (Chimonanthus praecox) revealed by EST-SSR markers[J]. Scientia Horticulturae, 2013, 150:1-10.
    [15] 陈玉星. 蜡梅两种分子标记的开发及F1代杂交群体分离方式的评价[D]. 武汉:华中农业大学硕士学位论文, 2014. CHEN YX. The development of two molecular markers in wintersweet (Chimonanthus praecox) and the evaluation of segregation patterns in an F1hybird population[D]. Wuhan:Master's Thesis of Huazhong Agricultural University, 2014(in Chinese).
    [16] 黄耀辉, 张超, 周莉花, 赵宏波. 基于转录组序列的夏蜡梅SSR位点特征与引物开发[J]. 浙江农林大学学报, 2017, 34(4):589-596 HUANG YH, ZHANG C, ZHOU LH, ZHAO HB. Development and primer screening of SSR markers based on transcriptome sequences in Sinocalycanthus chinensis[J]. Journal of Zhejiang A&F University, 2017, 34(4):589-596(in Chinese).
    [17] 吴静, 黄耀辉, 董彬, 张超, 付建新, 周莉花, 赵宏波. 夏蜡梅SSR引物适用性分析及其在遗传多样性研究中的应用[J]. 南京林业大学学报(自然科学版), 2018, 42(3):58-66. WU J, HUANG YH, DONG B, ZHANG C, FU JX, ZHOU LH, ZHAO HB. Suitability test of SSR primer of Sinocalycanthus chinensis and its application in genetic diversity[J]. Journal of Nanjing Forestry University (Natural Science Edition), 2018, 42(3):58-66(in Chinese).
    [18] NIE XH, WANG ZH, LIU NW, SONG L, YAN BQ, XING Y, ZHANG Q, FANG KF, ZHAO YL, CHEN X, WANG GP, QIN L, CAO QQ. Fingerprinting 146 Chinese chestnut (Castanea mollissima Blume) accessions and selecting a core collection using SSR markers[J]. Journal of Integrative Agriculture, 2021, 20(5):1277-1286.
    [19] HOLLAND MM, PARSON W. GeneMarker® HID:a reliable software tool for the analysis of forensic STR data[J]. Journal of Forensic Sciences, 2011, 56(1):29-35.
    [20] FALUSH D, STEPHENS M, PRITCHARD JK. Inference of population structure using multilocus genotype data:linked loci and correlated allele frequencies[J]. Genetics, 2003, 164(4):1567-1587.
    [21] BRYMAN A, CRAMER D. Quantitative Data Analysis with IBM SPSS 17, 18 and 19:a Guide for Social Scientists[M]. Hove:Routledge, 2011.
    [22] BRADBURY PJ, ZHANG ZW, KROON DE, CASSTEVENS TM, RAMDOSS Y, BUCKLER ES. TASSEL:software for association mapping of complex traits in diverse samples[J]. Bioinformatics, 2007, 23(19):2633-2635.
    [23] 张晨, 云岚, 李珍, 王俊, 郭宏宇, 盛誉, 石子英, 徐学宝. 新麦草种质的SSR遗传多样性及群体结构分析[J]. 植物遗传资源学报, 2019, 20(1):48-59. ZHANG C, YUN L, LI Z, WANG J, GUO HY, SHENG Y, SHI ZY, XU XB. Genetic diversity and structure analysis in Psathyrostachys nevski population using SSR markers[J]. Journal of Plant Genetic Resources, 2019, 20(1):48-59(in Chinese).
    [24] LIU YL, GENG YP, SONG ML, ZHANG PF, HOU JL, WANG WQ. Genetic structure and diversity of Glycyrrhiza populations based on transcriptome SSR markers[J]. Plant Molecular Biology Reporter, 2019, 37(5):401-412.
    [25] PAVANI M, SUNDARAM RM, RAMESHA MS, KAVI KISHOR PB, KEMPARAJU KB. Prediction of heterosis in rice based on divergence of morphological and molecular markers[J]. Journal of Genetics, 2018, 97(5):1263-1279.
    [26] 靖相密. 基于ISSR标记的蜡梅遗传多样性研究[D]. 南京:南京林业大学硕士学位论文, 2008. JING XM. Genetic diversity of Chimonanthus praecox (L.) link based on ISSR markers[D]. Nanjing:Master's Thesis of Nanjing Forestry University, 2008(in Chinese).
    [27] 肖志娟, 翟梅枝, 王振元, 许静, 李丽, 杨惠. 微卫星DNA在分析核桃遗传多样性上的应用[J]. 中南林业科技大学学报, 2014, 34(2):55-61. XIAO ZJ, ZHAI MZ, WANG ZY, XU J, LI L, YANG H. Application of microsatellite DNA on analyzing genetic diversity of Juglans regia[J]. Journal of Central South University of Forestry & Technology, 2014, 34(2):55-61(in Chinese).
    [28] 陈龙清, 鲁涤非. 蜡梅品种分类研究及武汉地区蜡梅品种调查[J]. 北京林业大学学报, 1995, 17(S1):103-107. CHEN LQ, LU DF. Studies on cultivar classification of wintersweet and investigation of its cultivars in Wuhan[J]. Journal of Beijing Forestry University, 1995, 17(S1):103-107(in Chinese).
    [29] 芦建国, 谢贵霞. 武汉地区蜡梅品种资源调查与分析[J]. 南京林业大学学报(自然科学版), 2012, 36(2):155-158. LU JG, XIE GX. The investigation on cultivars resources of Chimonathus praecox in Wuhan city[J]. Journal of Nanjing Forestry University (Natural Science Edition), 2012, 36(2):155-158(in Chinese).
    [30] 王淼博. 蜡梅品种分类及系统构建研究[D]. 南京:南京林业大学硕士学位论文, 2013. WANG MB. Studies on the cultivar classification and system construction of wintersweet[D]. Nanjing:Master's Thesis of Nanjing Forestry University, 2013(in Chinese).
    [31] 余炻. 武汉地区蜡梅品种资源调查及品种标准株数据库构建[D]. 南京:南京林业大学硕士学位论文, 2014. YU S. Resources survey and database construction of wintersweet cultivars in Wuhan[D]. Nanjing:Master's Thesis of Nanjing Forestry University, 2014(in Chinese).
    [32] 叶丽娟. 基于ISSR分子标记的蜡梅遗传多样性研究[D]. 郑州:河南农业大学硕士学位论文, 2011. YE LJ. Genetic diversity of Chimonanthus praecox (L.) link based on ISSR makers[D]. Zhengzhou:Master's Thesis of Henan Agricultural University, 2011(in Chinese).
    [33] 袁欣捷, 方荣, 周坤华, 雷刚, 黄月琴, 陈学军. 辣椒重要农艺性状关联分析与优异等位变异发掘[J]. 核农学报, 2020, 34(12):2658-2672. YUAN XJ, FANG R, ZHOU KH, LEI G, HUANG YQ, CHEN XJ. Association analysis of important agronomic traits in pepper (Capsicum annuum L.) and mining of elite alleles[J]. Journal of Nuclear Agricultural Sciences, 2020, 34(12):2658-2672(in Chinese).
    [34] LI J, ALVAREZ B, SIWABESSY J, TRAN M, HUANG Z, PRZESLAWSKI R, RADKE L, HOWARD F, NICHOL S. Application of random forest, generalised linear model and their hybrid methods with geostatistical techniques to count data:predicting sponge species richness[J]. Environmental Modelling & Software, 2017, 97:112-129.
    [35] 孙泽硕, 蒋冬月, 柳新红, 沈鑫, 李因刚, 屈雨飞, 李永华. 基于SSR标记的42份樱花品种的聚类分析及DNA指纹图谱构建[J]. 园艺学报, 2023, 50(3):657-668. SUN ZS, JIANG DY, LIU XH, SHEN X, LI YG, QU YF, LI YH. Cluster analysis and construction of DNA fingerprinting of 42 oriental cultivars of flowering cherry based on SSR markers[J]. Acta Horticulturae Sinica, 2023, 50(3):657-668(in Chinese).
    [36] 胡春龙, 张晨, 刘翠兰, 李丽, 燕丽萍, 吴德军, 夏阳, 邢世岩, 王开芳. 基于SSR标记构建白蜡种质资源分子身份证[J]. 山东农业科学, 2015, 47(5):6-9, 22. HU CL, ZHANG C, LIU CL, LI L, YAN LP, WU DJ, XIA Y, XING SY, WANG KF. Establishment of molecular ID for Fraxinus germplasms based on SSR markers[J]. Shandong Agricultural Sciences, 2015, 47(5):6-9, 22(in Chinese).
    引证文献
    网友评论
    网友评论
    分享到微博
    发 布
引用本文

王秀军,赵彦贝,王静,李子航,张纪堂,李庆卫. 基于SSR分子标记的175份蜡梅种质遗传多样性分析和指纹图谱构建[J]. 生物工程学报, 2024, 40(1): 252-268

复制
分享
文章指标
  • 点击次数:
  • 下载次数:
  • HTML阅读次数:
  • 引用次数:
历史
  • 收稿日期:2023-05-08
  • 最后修改日期:2023-07-18
  • 在线发布日期: 2024-01-04
  • 出版日期: 2024-01-25
文章二维码
您是第5991534位访问者
生物工程学报 ® 2025 版权所有

通信地址：中国科学院微生物研究所    邮编：100101

电话：010-64807509   E-mail：cjb@im.ac.cn

技术支持：北京勤云科技发展有限公司