欢迎访问作物学报，今天是
作物学报

作物学报 ›› 2010, Vol. 36 ›› Issue (05): 744-753.doi: 10.3724/SP.J.1006.2010.00801

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

浙江省茶树地方品种与选育品种遗传多样性和群体结构的EST-SSR分析

乔婷婷**，马春雷**，周炎花，姚明哲，刘饶，陈亮*   

  1. 中国农业科学院茶叶研究所茶树资源与改良研究中心/国家茶树改良中心，浙江杭州310008
  • 收稿日期:2009-09-25 修回日期:2010-01-10 出版日期:2010-05-12 网络出版日期:2010-02-09
  • 通讯作者: 陈亮, E-mail: liangchen@mail.tricaas.com; Tel: 0571-86652835
  • 基金资助:

    本研究由国家高技术研究发展计划（863）项目（2006AA10Z171），国家农业（茶叶）产业技术体系建设专项，国家自然科学基金项目（30901159），国家公益性行业（农业）科研专项（3-35）和浙江省科技计划项目（2006C12129）资助。

EST-SSR Genetic Diversity and Population Structure of Tea Landraces and Developed Cultivars (Lines) in Zhejiang Province, China

QIAO Ting-Ting**,MA Chun-Lei**,ZHOU Yan-Hua,YAO Ming-Zhe,LIU Rao,CHEN Liang*   

  1. Research Center for Tea Germplasm and Improvement,Tea Research Institute of the Chinese Academy of Agricultural sciences/National Center for Tea Improvement,Hangzhou 310008,China
  • Received:2009-09-25 Revised:2010-01-10 Published:2010-05-12 Published online:2010-02-09
  • Contact: CHEN Liang, E-mail: liangchen@mail.tricaas.com; Tel: 0571-86652835

PDF

1584

被引次数

92

摘要：

以茶树品种龙井43幼根为材料，构建cDNA文库并测序，获得4833条EST序列，拼接后得到3482条无冗余EST，总长2290 kb。对其进行SSR搜索，共检测到577个SSR位点，分布于500条茶树幼根EST中，其中含有EST-SSR的序列占14.36%，平均每3.97 kb出现一个SSR。利用Primer premier 5.0，对含有SSR的EST设计引物416对, 通过退火温度和多态性筛选，确定可用的引物及其最佳退火温度，并从筛到的引物中选取63对及1对已发表引物作为核心引物，对浙江省茶树地方品种和选育品种进行遗传多样性和遗传结构分析。结果显示64对引物均在供试材料中表现出多态性，共检测到232个等位位点，平均每对引物3.6个；每对引物可鉴定的基因型为2~13个，平均4.3个。供试材料多态性信息量(PIC)介于0.02~0.84，平均0.44；扩增位点的观测杂合度平均为0.44，期望杂合度平均为0.48。地方品种的遗传多样性水平略高于选育品种(系)。不同地方资源群体多态性信息量为0.24~0.36，举岩群体的多样性最高，惠明群体的多样性最低。浙江各地区以杭州资源的多态性最高，PIC达0.41；丽水的多态性最低，PIC为0.24。Structure 2.2群体结构分析和UPGMA聚类分析表明，地方品种、选育品种(系)具有相对独立的群体结构，选育品种(系)根据亲缘关系的不同形成不同的类群。

关键词: 茶树, 遗传多样性, 遗传结构, EST-SSR

Abstract:

Tea [Camellia sinensis (L.) O. Kuntze] has long history in production and consumption in Zhejiang Province, China. Improvement of tea, therefore, is of great importance and a good understanding of the genetic diversity and population structure of tea germplasm is a prerequisite to the improvement. In spite of great advances on the use of molecular markers in tea, achievement is still gotton very slowly compared with in other cereal crops and woody species. Expressed sequence tag derived simple sequence repeat (EST-SSR) is a less costly alternative way of developing new markers for genetic diversity analysis, functional markers development and marker assisted breeding of tea plant. A total of 4 833 ESTs generated from a cDNA library of tea young root were subjected to SSR mining using DNAstar 5.0 software, 577 EST-SSRs were identified and 416 primer pairs were designed by Primer premier 5.0. After the determination of annealing temperatures and polymorphism of all the primers, 64 core primers were selected and used for genetic diversity and population structure analyses of tea landraces and improved cultivars in Zhejiang province. All selected primers were polymorphic and 232 alleles were amplified, with 3.6 alleles per primer pair on an average. Each primer pair identified 2 to 13 genotypes, with an average of 4.3. The mean of polymorphism information content (PIC) was 0.44, ranging from 0.02 to 0.84. Observed heterozygosity (Ho) was 0.44, while expected heterozygosity (He) was 0.48. The level of genetic diversity among landraces was slightly higher than that among improved cultivars and breedinglines. There were 226 alleles amplified in 22 landraces with 14 of them that were special. In the thirty-seven improved cultivars, however, two hundred and eighteen alleles were amplified but only six were special. The PIC of the landrace groups varied from 0.24 to 0.36, in which Juyan Qunti was the highest and Huiming Qunti was the lowest. Deqing Qunti was closest to Juyan Qunti in genetic relationship, but farthest from Huiming Qunti. The genetic diversity of tea cultivars from Hangzhou was the highest with PIC of 0.41, while those from Lishui recorded the lowest PICof 0.24. Population structure revealed by software Structure 2.2 and UPGMA cluster analysis showed that landraces and improved cultivars were relatively independent. The improved cultivars were further clustered into smaller groups according to their pedigree. Hybrid offspring from Fuding Dabaicha and Yunnan Dayezhong from different breeding organizations fell into similar group.

Key words: Tea, Genetic diversity, Genetic structure, EST-SSR

[1]Ni S, Yao M Z, Chen L, Zhao L P, Wang X C. Germplasm and breeding research of tea plant based on DNA marker approaches
[J].Front Agric China
[2] Gupta P K, Rustgi S, Sharma S, Singh R, Kumar N, Balyan H S. Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat. Mol Genet Genom–323 ics, 2003, 270: 315
[3] Jin J-Q(金基强), Cui H-R(崔海瑞), Chen W-Y(陈文岳), Lu M-Z(卢美贞), Yao Y-L(姚艳玲), Xin Y(忻雅), Gong X-C(龚晓春). Data mining for SSRs in ESTs and development of EST-SSR marker in tea plant (Camellia sinensis). J Tea Sci (茶叶科学), 2006, 26(1): 17–23 (in Chinese with English abstract)
[4]Liu Z(刘振), Wang X-C(王新超), Zhao L-P(赵丽萍), Yao M-Z(姚明哲), Wang P-S(王平盛), Xu M(许玫), Tang Y-C(唐一春), Chen L(陈亮). Genetic diversity and relationship analysis of tea germplasms originated from south western China based on EST-SSR. Mol Plant Breeding (分子植物育种), 2008, 6(1): 100-110 (in Chinese with English abstract)
[5]Yang Y(杨阳), Liu Z(刘振), Zhao Y(赵洋), Liang G-Q(梁国强), Zhao X(赵熙). Genetic diversity and relationship of Huangjincha cultivar based on EST-SSR markers. J Tea Sci (茶叶科学), 2009, 29(3): 236-242 (in Chinese with English abstract)
[6]Yao M-Z(姚明哲), Liu Z(刘振), Chen L(陈亮), Wang X-C(王新超), Ma C-L(马春雷), Liang Y-R(梁月荣). Genetic diversity and structure of tea germplasm originated from region of north Yangtze River based on EST-SSR markers. J Tea Sci (茶叶科学), 2009, 29(3): 243-250 (in Chinese with English abstract)
[7]Chen L(陈亮), Chen D-M(陈大明), Gao Q-K(高其康), Yang Y-J(杨亚军), Yu F-L(虞富莲). Isolation and appraisal of genomic DNA from tea plant (Camellia sinensis (L.) O. Kuntze). J Tea Sci (茶叶科学), 1997, 17(2): 177-181 (in Chinese with English abstract)
[8]Zhao L-P(赵丽萍), Ma C-L(马春雷), Chen L(陈亮). Construction and expressed sequence tags analysis of young roots cDNA library of tea plant. Mol Plant Breeding (分子植物育种), 2008, 6(5): 893-898 (in Chinese with English abstract)
[9]Freeman S, West J, James C, Lea V, Mayes S. Isolation and characterization of highly polymorphic microsatellites in tea (Camellia sinensis)
[J].Mol Ecol Notes
[10]Charters Y M, Wilkinson M J. The use of self-pollinated progenies as ‘in-groups’ for the genetic characterization of cocoa germplasm
[J].Theor Appl Genet
[11]Liu K, Muse S V. Powermarker: An integrated analysis environment for genetic marker analysis
[J].Bioinformatics
[12]Nei M. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, 1978, 89: 583-590
[13]Anderson J A, Churchill G A, Autrique J E, Tanksley S D, Sorrells M E. Optimizing parental selection for genetic linkage maps. Genome, 1993, 36: 181-186
[14]Nei M, Tajima F A, Tateno Y. Accuracy of estimated phylogenetic trees from molecular data
[J].J Mol Evol
[15]Takezaki N, Nei M. Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics, 1996, 144: 389-399
[16]Prichard J K, Stepphen M, Donnelly P. Inference of population structure using multilocus genotype data. Genetics, 2000, 155: 945-959
[17]Cardle L, Ramsay L, Milbourne D, Macaulay M, Marshall D, Waugh R. Computational and experimental characterization of physically clustered simple sequence repeats in plants, Genetics, 2000, 156: 847-854
[18]Kantety R V, La Rota M, Matthews D E, Sorrells M E. Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat
[J].Plant Mol Biol
[19]Chen L, Zhao L P, Gao Q K. Generation and analysis of expressed sequence tags from the tender shoots cDNA library of tea plant (Camellia sinensis)
[J].Plant Sci
[20]Sharma R K, Bhardwaj P, Negi R, Mohapatra T, Ahuja P S. Identification, characterization and utilization of unigene derived microsatellite markers in tea (Camellia sinensis L
[J].). BMC Plant Biol
[21]Botstein D, White R L, Skolnick M, Davis R W. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Human Genet, 1980, 32: 314-331
[22]Liu Z(刘振), Yao M-Z(姚明哲), Wang X-C(王新超), Chen L(陈亮). Analysis of genetic diversity and relationship of tea germplasms originated from Fujian province based on EST-SSR markers. Sci Agric Sin (中国农业科学), 2009, 42(5): 1720-1727 (in Chinese with English abstract)
[23]Liu B-Y(刘本英). Application Studies of EST-SSR and ISSR Markers in Tea Germplasm (Camellia spp.) of Yunnan. PhD Dissertation of Chinese Academy of Agricultural Sciences, 2009. pp 49-50 (in Chinese with English abstract)
[24]Zhang X-L(张晓丽), Guo H(郭辉), Wang H-G(王海岗), Lü J-Z(吕建珍), Yuan X-P(袁筱萍), Peng S-T(彭锁堂), Wei X-H(魏兴华). Comparative assessment of SSR allelic diversity in wild and cultivated rice in China
[J].Acta Agron Sin (作物学报.2008, 34(4):591-597
[1] 肖颖妮, 于永涛, 谢利华, 祁喜涛, 李春艳, 文天祥, 李高科, 胡建广. 基于SNP标记揭示中国鲜食玉米品种的遗传多样性[J]. 作物学报, 2022, 48(6): 1301-1311.
[2] 王琰琰, 王俊, 刘国祥, 钟秋, 张华述, 骆铮珍, 陈志华, 戴培刚, 佟英, 李媛, 蒋勋, 张兴伟, 杨爱国. 基于SSR标记的雪茄烟种质资源指纹图谱库的构建及遗传多样性分析[J]. 作物学报, 2021, 47(7): 1259-1274.
[3] 刘少荣, 杨扬, 田红丽, 易红梅, 王璐, 康定明, 范亚明, 任洁, 江彬, 葛建镕, 成广雷, 王凤格. 基于农艺及品质性状与SSR标记的青贮玉米品种遗传多样性分析[J]. 作物学报, 2021, 47(12): 2362-2370.
[4] 孙倩, 邹枚伶, 张辰笈, 江思容, Eder Jorge de Oliveira, 张圣奎, 夏志强, 王文泉, 李有志. 基于SNP和InDel标记的巴西木薯遗传多样性与群体遗传结构分析[J]. 作物学报, 2021, 47(1): 42-49.
[5] 赵孟良,王丽慧,任延靖,孙雪梅,侯志强,杨世鹏,李莉,钟启文. 257份菊芋种质资源表型性状的遗传多样性[J]. 作物学报, 2020, 46(5): 712-724.
[6] 张红岩,杨涛,刘荣,晋芳,张力科,于海天,胡锦国,杨峰,王栋,何玉华,宗绪晓. 利用EST-SSR标记评价羽扇豆属(Lupinus L.)遗传多样性[J]. 作物学报, 2020, 46(3): 330-340.
[7] 李娜娜, 刘莹, 张豪杰, 王璐, 郝心愿, 张伟富, 王玉春, 熊飞, 杨亚军, 王新超. 茶树己糖激酶基因CsHXK2的启动子克隆及表达特性分析[J]. 作物学报, 2020, 46(10): 1628-1638.
[8] 刘易科,朱展望,陈泠,邹娟,佟汉文,朱光,何伟杰,张宇庆,高春保. 基于SNP标记揭示我国小麦品种(系)的遗传多样性[J]. 作物学报, 2020, 46(02): 307-314.
[9] 叶卫军,陈圣男,杨勇,张丽亚,田东丰,张磊,周斌. 绿豆SSR标记的开发及遗传多样性分析[J]. 作物学报, 2019, 45(8): 1176-1188.
[10] 吴迷,汪念,沈超,黄聪,温天旺,林忠旭. 基于重测序的陆地棉InDel标记开发与评价[J]. 作物学报, 2019, 45(2): 196-203.
[11] 卢媛,艾为大,韩晴,王义发,李宏杨,瞿玉玑,施标,沈雪芳. 糯玉米自交系SSR标记遗传多样性及群体遗传结构分析[J]. 作物学报, 2019, 45(2): 214-224.
[12] 薛延桃,陆平,史梦莎,孙昊月,刘敏轩,王瑞云. 新疆、甘肃黍稷资源的遗传多样性与群体遗传结构研究[J]. 作物学报, 2019, 45(10): 1511-1521.
[13] 刘洪,徐振江,饶得花,鲁清,李少雄,刘海燕,陈小平,梁炫强,洪彦彬. 基于形态学性状和SSR标记的花生品种遗传多样性分析和特异性鉴定[J]. 作物学报, 2019, 45(1): 26-36.
[14] 白冬梅,薛云云,赵姣姣,黄莉,田跃霞,权宝全,姜慧芳. 山西花生地方品种芽期耐寒性鉴定及SSR遗传多样性[J]. 作物学报, 2018, 44(10): 1459-1467.
[15] 魏中艳, 李慧慧, 李骏, YasirA.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.
Viewed
Full text


Abstract

Cited
  Shared   
  Discussed   
No Suggested Reading articles found!
京ICP备15008789号-2