251份藜麦种质资源遗传多样性及分子身份证构建

刘彬,赵雨露,杨鑫雷,张建恒,孙鑫博,刘晓清,温晓敏,耿艳楼,李悦有,穆国俊,吕玮

植物遗传资源学报. 2022, 23(3): 706-721

PDF(22730 KB)
PDF(22730 KB)
植物遗传资源学报 ›› 2022, Vol. 23 ›› Issue (3) : 706-721. DOI: 10.13430/j.cnki.jpgr.20211114002
论文

251份藜麦种质资源遗传多样性及分子身份证构建

  • 刘彬1, 赵雨露1, 杨鑫雷1, 张建恒1, 孙鑫博1, 刘晓清1, 温晓敏2, 耿艳楼3, 李悦有3, 穆国俊1, 吕玮3
作者信息 +

Genetic Diversity of 251 Germplasm Accessions and Construction ofMolecular ID in Quinoa(Chenopodium quinoa Willd.)

  • LIU Bin1, ZHAO Yu-lu1, YANG Xin-lei1, ZHANG Jian-heng1, SUN Xin-bo1, LIU Xiao-qing1, WEN Xiao-min2, GENG Yan-lou3, LI Yue-you3, MU Guo-jun1, LYU Wei3
Author information +
History +

摘要

藜麦(Chenopodium quinoa Willd.)种质资源的准确鉴别是遗传多样性研究及藜麦种业和产业发展的前提和基础。 本研究利用 MultipSeq 多重 PCR 扩增子捕获技术获得 656 个 SNP,对 251 份藜麦种质资源进行遗传多样性分析,并利用 perl 脚本构建每份种质资源的 DNA 指纹图谱,基于指纹图谱信息构建个体分子身份证。群体遗传结构分析表明,251 份种质资 源被划分为 2 个类群Ⅰ和Ⅱ,分别对应安第斯高原型藜麦群和智利低海拔型藜麦群;类群Ⅰ、Ⅱ群体遗传多样性指数分别为 0.0037 和 0.0036,群体分化指数为 0.14;群体主成分分析结果与群体遗传结构分析结果完全一致,类群间存在部分遗传交叉 现象;系统发育分析显示类群Ⅰ包括以玻利维亚、秘鲁为主的 152 份种质资源,类群Ⅱ包括以智利为主的 99 份种质资源,其中 类群Ⅰ又进一步划分为Ⅰ-1 和Ⅰ-2 两个亚群,亚群Ⅰ-1、Ⅰ-2 的 Nei′s 遗传距离为 0.054。112 份河北石家庄种质材料中,40 份与 玻利维亚种质群亲缘关系较近、24 份与秘鲁种质群亲缘关系较近、48 份与智利种质群亲缘关系较近。本研究构建的 251 份 藜麦种质材料分子身份证能够达到对种质材料溯源和保护的作用,同时群体遗传多样性分析结果对于我国藜麦种质资源划分 和系统整理具有一定的参考意义。

Abstract

The accurate identification of germplasm accessions is the prerequisite and basis for the diversity research on seed industry and industrialization development in quinoa(Chenopodium quinoa Willd.). In this study,the multiple PCR amplicon capture technology(MultipSeq)was adopted to obtain 656 SNPs used for the genetic diversity analysis of 251 quinoa germplasm accessions,and perl scripts were adopted to construct DNA fingerprints of each accession and personal ID cards were constructed based on the fingerprint information. The analysis of the population genetic structure showed that 251 germplasm accessions were divided into two subgroups Ⅰ and Ⅱ,corresponding to the Andean high-altitude quinoa groups and the Chilean low-altitude quinoa groups. The Ⅰ and Ⅱ population genetic diversity index(π values)were 0.0037 and 0.0036,respectively. The population differentiation index(Fst value) is 0.14. The results of the population principal component analysis are completely consistent with the results of population genetic structure,and there are some genetic crossovers between subgroups. Phylogenetic analysis shows that Ⅰ group includes 152 germplasm accessions mainly from Bolivia and Peru,and Ⅱ group includes 99 germplasm accessions mainly from Chile. TheⅠgroup is further divided into two subgroups Ⅰ-1 and Ⅰ-2. The Nei′s genetic distance between Ⅰ-1 and Ⅰ-2 was 0.054. Among the 112 germplasm accessions from Shijiazhuang(Hebei),40,24 and 48 accessions were closely related to the Bolivian,Peruvian and Chilean germplasm in kinship relationship,respectively. The construction of molecular ID among 251 germplasm accessions could play an important role to trace and protect the quinoa germplasm in this study. The results of population genetic diversity analysis have certain reference significance for the classification and systematic arrangement in quinoa germplasm in China.

关键词

藜麦;种质资源;多重 PCR 扩增子捕获测序技术;SNP;分子身份证

Key words

quinoa;germplasm accessions;MultipSeq PCR amplicon capture technology;SNP;molecular ID

引用本文

导出引用
刘彬,赵雨露,杨鑫雷,张建恒,孙鑫博,刘晓清,温晓敏,耿艳楼,李悦有,穆国俊,吕玮. 251份藜麦种质资源遗传多样性及分子身份证构建. 植物遗传资源学报. 2022, 23(3): 706-721 https://doi.org/10.13430/j.cnki.jpgr.20211114002
LIU Bin,ZHAO Yu-lu,YANG Xin-lei,ZHANG Jian-heng,SUN Xin-bo,LIU Xiao-qing,WEN Xiao-min,GENG Yan-lou,LI Yue-you,MU Guo-jun and LYU Wei. Genetic Diversity of 251 Germplasm Accessions and Construction ofMolecular ID in Quinoa(Chenopodium quinoa Willd.). Journal of Plant Genetic Resources. 2022, 23(3): 706-721 https://doi.org/10.13430/j.cnki.jpgr.20211114002

参考文献

任贵兴,杨修仕,么杨.中国藜麦产业现状[J].作物杂志,2015(05):1-5
Ren G X, Yang X S, YAO Y.SCurrent situation of Quinoa industry in China[J]. Crops,2015(05):1-5
胡一波.藜麦品质性状评价与遗传多样性分析[D].中国农业科学院,2017
Hu Y B. Quinoa quality evaluation and genetic diversity analysis[D]. Chinese Academy of Agricultural Sciences Dissertation,2017
申瑞玲,张文杰,董吉林,孙永敢. 藜麦的主要营养成分、矿物元素及植物化学物质含量测定[J].郑州轻工业学院学报:自然科学版,2015,30(Z2):17-21Shen R L, Zhang W J, Dong J L, Sun Y G. Determination of main nutritional component, material element and phytochemical in Chenopodium quinoa Willd[J]. Journal of Zhengzhou University of Light Industry :natural science, 2015,30 (Z2):17-21S
肖正春,张广伦.藜麦及其资源开发利用[J].中国野生植物资源,2014,33(02):62-66
Xiao Z C, Zhang G L.Development and utilization of Chenopodium quinoa Willd. [J].Wild Plant Resources of China,2014,33 (02):62-66
俞涵译,蒋玉蓉,毛泽阳,陆国权,陈国林,毛前.藜麦愈伤组织诱导体系优化研究[J].江苏农业科学,2015,43(03):26-30
Yu H Y, Jiang Y R, Mao Z Y, Lu G Q, Chen G L, Mao Q.SResearch on callus induction system of quinoa sativa[J]. Jiangsu Agricultural Sciences,2015,43 (03):26-30
郭晓凤.试论藜麦的推广前景及栽培技术[J].现代农业,2015(02):61-63
Guo X F. Discussion on popularization prospect and cultivation technology of quinoa[J]. Modern Agriculture,2015(02):61-63
蒋云,杰布,唐力为,张洁,赵丽华,郭元林,贡布扎西,林长彬,宣朴.四川藜麦种植前景分析[J].四川农业科技,2019(02):47-49
Jiang Y,Jie B,Tang L W,Zhang J,Zhao L H,Guo Y L,Gongbu Z X,Lin C B,Xuan P.Analysis on the planting prospect of Quinoa in Sichuan[J].Sichuan Agricultural Science and Technology,2019(02):47-49
Fairbanks D J,Waldrigues A,Ruas C F,Ruas P M,Maughan P J,Robison L R,Andersen W R,Riede C R,Pauley C S,Caetano LG. Efficient characterization of biological diversity using field DNA extraction and random amplified polymorphic DNA markers. Rev Brazil Genet,1993,16: 11-22.
张体付,戚维聪,顾闽峰,张晓林,李坦,赵涵.藜麦EST-SSR的开发及通用性分析[J].作物学报,201642(04):492-500
Zhang T F, Qi W C, Gu M F, Zhang X L, Li T, Zhao H.SExploration and transferability evaluation of EST-SSRs in quinoa[J]. Acta Agronomica Sinica, 2016,42 (04):492-500
Zhang,T.et al. (2017). "Development of novel InDel markers and genetic diversity in Chenopodium quinoa through whole-genome re-sequencing." BMC Genomics 18(1): 685
孙梦涵,邢宝,崔宏亮,周帮伟,张琴萍,任贵兴,秦培友.藜麦种质资源遗传多样性SSR标记分析[J].植物遗传资源学,2021,22(03):625-637 Sun M H, Xing B, Cui H L, Zhou B W, Zhang Q P, Ren G X, Qin P Y.SGenetic diversity analysis of quinoa by SSR markers [J]. Journal of Plant Genetic Resources, 201, 22(03):625-637
Target SSR-Seq: A Novel SSR Genotyping Technology Associate With Perfect SSRs in Genetic Analysis of Cucumber Varieties[J]. Frontiers in Plant Science,2019,10
Primmer CR, Borge T, Lindell J, Saetre GP. Single-nucleotide polymorphism characterization in species with limited available sequence information: high nucleotide diversity revealed in the avian genome. Mol Ecol. 2002 Mar;11(3):603-12. doi: 10.1046/j.0962-1083.2001.01452.x. PMID: 11918793
Global views of biology,LANDER E S. The new genomics:Global views of biology[J]. Science, 1996, 274(5287): 536-539. DOI:10.1126/science.274.5287.536
梁爽,吴凡,苏宇清,梁延连,洪文旭,徐筠娉.ABO血型基因分型中靶向捕获二代测序技术的建立[J].中国输血杂志,2020,33(09):881-885 Liang S,Wu F,Su Y Q,Liang Y L,Hong W X, Xu Y P. Establishment of targeted-capture-based next-generation sequencing in ABO genotype[J]. Chin J Blood Transfusion, 2020,33 (09):881-885
严江伟,范庆炜,张更谦,张君,程凤,王萌春,李万婷,石林玉,张晓梦,张家榕. 基于高通量测序技术的多重PCR靶向捕获分型体系及试剂盒[P]. 山西省:CN110499372A,2019-11-26
Yan J W, Fan Q W, Zhang G Q, Zhang J, Cheng F, Wang M C, Li W T, Shi L Y, Zhang X M, Zhang J Y. Multiplex PCR targeted capture typing system and kit based on high-throughput sequencing technology[P].Shanxi Province: CN110499372A,2019-11-26
徐晓菲. 应用多重PCR及第二代测序技术建立乳腺癌易感基因(BRCA1/2)突变检测平台[D].中国人民解放军医学院,2016
Xu X F. Application of multiplex PCR and second-generation sequencing technology to establish a breast cancer susceptibility gene(BRCA1/2) detection platform[D].CHINESE PLA GENERAL MEDICAL SCHOOL,2016
Zhang J, Yang J, Zhang L, Luo J, Zhao H, Zhang J, Wen C. A new SNP genotyping technology Target SNP-seq and its application in genetic analysis of cucumber varieties. Sci Rep. 2020 Mar 27;10(1):5623. doi: 10.1038/s41598-020-62518-6. Erratum in: Sci Rep. 2021 Apr 7;11(1):8010. PMID: 32221398; PMCID: PMC7101363
Du H, Yang J, Chen B, Zhang X, Zhang J, Yang K, Geng S, Wen C. Target sequencing reveals genetic diversity, population structure, core-SNP markers, and fruit shape-associated loci in pepper varieties. BMC Plant Biol. 2019 Dec 23;19(1):578. doi: 10.1186/s12870-019-2122-2. PMID: 31870303; PMCID: PMC6929450
李志远,于海龙,方智远,杨丽梅,刘玉梅,庄木,吕红豪,张扬勇.甘蓝SNP标记开发及主要品种的DNA指纹图谱构建[J].中国农业科学,2018,51(14):2771-2788
Li Z Y, Yu H L, Fang Z Y, Yang L M, Liu Y M, Zhuang M, Lv H H, Zhang Y Y. Development of SNP Markers in Cabbage and Construction of DNA Fingerprints of Main Varieties[J].Scientia agricultura sinica, 2018, 51(14):2771-2788
魏中艳,李慧慧,李骏,Yasir A.Gamar,马岩松,邱丽娟.应用SNP精准鉴定大豆种质及构建可扫描身份证[J].作物学报,2018,44(03):315-323 Wei Z Y, Li H H, Li J, Yasir A.Gamar, Ma Y S, Qiu L J.SAccurate Identification of Varieties by Nucleotide Polymorphisms and Establishment of Scannable Variety IDs for Soybean Germplasm[J]. Acta agronsin, 2018,44 (03):315-323
赵仁欣,李森业,郭瑞星,曾新华,文静,马朝芝,沈金雄,涂金星,傅廷栋,易斌.利用SNP芯片构建我国冬油菜参试品种DNA指纹图谱[J].作物学报,2018,44(07):956-965
Zhao R X, Li S Y, Guo R X, Zeng X H, Wen J, Ma C Z, Shen J X, Fu T D, Yi B.Construction of DNA Fingerprinting for Brassica napus Varieties Based on SNP Chip[J].Acta agronsin,2018,44(07):956-965
樊晓静,于文涛,蔡春平,林浥,王泽涵,房婉萍,张见明,叶乃兴.利用SNP标记构建茶树品种资源分子身份证[J].中国农业科学,2021,54(08):1751-1772Fan X J, Yu W T, Cai C P, Lin Y, Wang Z H, Fang W P, Zhang J M, Ye N X.Construction of Molecular ID for Tea Cultivars by Using of Single-nucleotide Polymorphism(SNP) Markers[J]Scientia Agricultura Sinica, 2021, 54(08):1751-1772
秦培友,崔宏亮,周帮伟.藜麦种质资源描述规范和数据标准. 北京:中国农业科学技术出版社,2020:44 -70
Qin PY, Cui H L, Zhou B W.Descriptors and Data Stangard for Quinoa(Chenopodiun quinoa Willd.). Beijing:China Agricultural Science and Technology Press, 2020:44 -70
王凤格,杨扬,易红梅,赵久然,任洁,王璐,葛建镕,江彬,张宪晨,田红丽,侯振华.中国玉米审定品种标准SSR指纹库的构建[J].中国中国农业科学,2017,50(01):1-14
Wang F G,Yang Y,Yi H M, Zhao J R, Ren J,Wang L,Ge J R, Jiang B, Zhang X C,Tian H L, Hou Z H.SConstruction of an SSR-Based Standard Fingerprint Database for Corn Variety Authorized in China. Scientia agricultura sinica, 2017,50 (01):1-14
Wright S. Evolution and the Genetics of Population 4: Variability Within and Among Natural Populations. Chicago London: the University of Chicago Press, 1978
Nei M. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics. 1978 Jul;89(3):583-90
孙梦涵,邢宝,崔宏亮,周帮伟,张琴萍,任贵兴,秦培友.藜麦种质资源遗传多样性SSR标记分析[J].植物遗传资源学,2021,22(03):625-637 Sun M H, Xing B, Cui H L, Zhou B W, Zhang Q P, Ren G X, Qin P Y.SGenetic diversity analysis of quinoa by SSR markers [J]. Journal of Plant Genetic Resources, 201, 22(03):625-637
Mizuno N, Toyoshima M, Fujita M, Fukuda S, Kobayashi Y, Ueno M, Tanaka K, Tanaka T, Nishihara E, Mizukoshi H, Yasui Y, Fujita Y. The genotype-dependent phenotypic landscape of quinoa in salt tolerance and key growth traits. DNA Res. 2020 Aug 1;27(4):dsaa022
麻丽颖,孔德仓,刘华波,王斯琪,李颖岳,庞晓明.36份枣品种SSR指纹图谱的构建[J].园艺学报,2012,39(04):647-654
Ma L Y, Kong D C, Liu H B, Wang S Q, Li Y Y, Pang X M. Construction of SSR Fingerprint on 36 Chinese Jujube cultivars[J].SActa Horticulturae Sinica, 2012,39 (04):647-654
王富强,樊秀彩,张颖,刘崇怀,姜建福.SNP分子标记在作物品种鉴定中的应用和展望[J].植物遗传资源学报,2020,21(05):1308-1320 Wang F Q, Fan X C, Zhang Y, Liu C H, Jiang J F.SApplication and Prospect of SNP Molecular Markers in Crop Variety Identification[J]. Journal of Plant Genetic Resources, 2020,21 (05):1308-1320
周龙华,蒋立.SNP分子标记及其在甘蓝型油菜中应用的研究进展.农业生物技术学报,2016,24(10):1608-1616
Zhou L H, Jiang L. SNP Molecular Marker and Research Progress of Its Application in Brassica napus. Journal of Agricultural Biotechnology, 2016,24(10):1608-1616
Jones ES, Sullivan H, Bhattramakki D, Smith JS. A comparison of simple sequence repeat and single nucleotide polymorphism marker technologies for the genotypic analysis of maize (Zea mays L.). Theor Appl Genet. 2007 Aug;115(3):361-71. doi: 10.1007/s00122-007-0570-9. Epub 2007 May 22. PMID: 17639299.
Zhou GB/T 38551-2020, 植物品种鉴定MNP标记法[S]
Zhou GB/T 38551-2020, MNP Marker Method for Plant Variety identification[S]
PDF(22730 KB)

文章所在专题

玉米

Accesses

Citation

Detail

段落导航
相关文章

/