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Acta Agron Sin ›› 2012, Vol. 38 ›› Issue (06): 1018-1028.doi: 10.3724/SP.J.1006.2012.01018

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Diversity of SSR Marker in 175 Wheat Varieties from Huang-Huai Winter Wheat Region and Its Association with Plant Height and Yield Related Traits

WU Yu-Guo,WU Cheng-Lai,QIN Bao-Ping,WANG Zhen-Lin,HUANG Wei,YANG Min,YIN Yan-Ping*   

  1. State Key Laboratory of Crop Biology / Shandong Provincial Key Laboratory of Crop Biology / Agronomy College of Shandong Agricultural University, Tai’an 271018, China
  • Received:2011-11-28 Revised:2012-01-19 Online:2012-06-12 Published:2012-03-05
  • Contact: 尹燕枰, E-mail: ypyinsdau@sina.com, Tel: 0538-8242458

Abstract: To make advances in wheat breeding, it is important to study germplasm diversity of Huang-huai winter wheat, and identify SSR markers associated with important agronomic traits, including plant heightand yield related traits. In this study, we selected 175 historical winter wheat varieties planted in Huang-Huai winter wheatarea and 108 pairs of SSR markers evenly distributed on the chromosomes of wheat to reveal the genetic diversity. A total of 448 alleles of loci were detected in the experimental varieties. The average alleles per locus were 4.15, which varied from 2 to 14. Thepolymorphism information content (PIC) value ranged from 0.075 to 0.869, with an average of 0.560. Cluster analysis showed that most of the varieties with the common parents, bred by the same breeders and planted in the same area were clustered together. A total of 23 were markers significantly (P<0.01) associated with plant height and yield related traits, among which threewere very significantly(P<0.001) associated with the traits.The markerswmc128 (1B) and wmc236 (3B) could explain 10.5% and 8.0% of variation in the number of spikelets(P<0.001), respectively.And, Xgwm129 (2B) was significantly (P<0.001) associated with 1000- kernel weight, whose phenotypic variation explaining rate was as high as 19.3%.

Key words: Wheat, Genetic diversity, SSR, Allele, Association analysis

[1]Zhang X-Y(张学勇), Tong Y-P(童依平), You G-X(游光霞), Hao C-Y(郝晨阳), Ge H-M(盖红梅), Wang L-F(王兰芬), Li B(李滨), Dong Y-C(董玉琛), Li Z-S(李振声). Hitchhiking effect mapping: a new approach for discovering agronomic important genes. Sci Agric Sin (中国农业科学), 2006, 39(8): 1526-1535 (in Chinese with English abstract)

[2]Salvi S, Tuberosa R. To clone or not to clone plant QTLs: present and future challenges. Trends Plant Sci, 2005, 10: 297-304

[3]Farnir F, Coppieters W, Arranz J J, Berzi P, Cambisano N, Grisart B, Karim L, Marcq F, Moreau L, Mni M, Nezer C, Simon P, Vanmanshoven P, Wagenaar D, Georges M. Extensive genome-wide linkage disequilibrium in cattle. Genome Res, 2000, 10: 220-227

[4]Kruglyak L. Prospects for whole-genome linkage disequilibrium mapping of common disease genes. Nat Genet, 1999, 22: 139-144

[5]Jorde L B. Linkage disequilibrium and the search for complex disease genes. Genome Res, 2000, 10: 1435-1444

[6]Wei T-M(魏添梅), Chang X-P(昌小平), Min D-H(闵东红), Jing R-L(景蕊莲). Analysis of genetic diversity and tapping elite alleles for plant height in drought-tolerant wheat varieties. Acta Agron Sin (作物学报), 2010, 36(6): 895-904 (in Chinese with English abstract)

[7]Maccaferri M, Sanguineti M C, Enrico N, Roberto T. Population structure and long-range linkage disequilibrium in a durum wheat elite collection. Mol Breed, 2005, 15: 271-289

[8]Flint-Garcia S A, Thuillet A C, Yu J M, Pressoir G, Romero S M, Sharon E, Mitchell S E, Doebley J, Kresovich S, Goodman M M, Buckler IV E S. Maize association population: a high-resolution platform for quantitative trait locus dissection. Plant J, 2005, 44: 1054-1064

[9]Beló A, Zheng P, Luck S, Shen B, Meyer D J, Li B, Tingey S, Rafalski A. Whole genome scan detects an allelic variant of fad2 associated with increased oleic acid levels in maize. Mol Genet Genomics, 2008, 279: 1-10

[10]Andersen J R, Schrag T, Melchinger A E, Zein I, Lübberstedt T. Validation of Dwarf8 polymorphisms associated with flowering time in elite European inbred lines of maize (Zea mays L.). Theor Appl Genet, 2005, 111: 206-217

[11]Ducrocq S, Madur D, Veyrieras J B, Camus-Kulandaivelu L, Kloiber-Maitz M, Presterl T, Ouzunova M, Manicacci D, Charcosset A. Key impact of Vgt1 on flowering time adaptation in maize: evidence from association mapping and ecogeographical information. Genetics, 2008, 178: 2433-2437

[12]Gebhardt C, Ballvora A, Walkemeier B, Oberhagemann P, Schüler, K. Assessing genetic potential in germplasm collections of crop plants by marker-trait association: a case study for potatoes with quantitative variation of resistance to late blight and maturity type. Mol Breed, 2004, 13: 93-102

[13]Simko I, Costanzo S, Haynes K G, Christ B J, Jones R W. Linkage disequilibrium mapping of a Verticillium dahliae resistance quantitative trait locus in tetraploid potato (Solanum tuberosum) through a candidate gene approach. Theor Appl Genet, 2004, 108: 217-224

[14]Zhao B(赵波), Ye J(叶剑), Jin W-L(金文林), Zeng C-W(曾潮武), Wu B-M(吴宝美), Pu S-J(濮绍京), Pan J-B(潘金豹), Wan P(万平). Analysis on genetic diversity and trait association of different types of azuki bean (Vigna angularisi) by SSR markers. Sci Agric Sin (中国农业科学). 2011, 44(4): 673-682 (in Chinese with English abstract)

[15]Skøt L, Humphreys M O, Armstead I, Heywood S, Skøt K P. An association mapping approach to identify flowering time genes in natural populations of Lolium perenne (L.). Mol Breed, 2005, 15: 233-245

[16]Eizonga G C, Agrama H A, Lee F N, Yan W, Jia Y. Identifying novel resistance genes in newly introduced blast resistant rice germplasm. Crop Sci, 2006, 46: 1870-1878

[17]Sabharwal V, Negi M S, Banga S S, Lakshmikumaran M. Mapping of AFLP markers linked to seed coat colour loci in Brassica juncea (L.) Czern. Theor Appl Genet, 2004, 109: 160-166

[18]Li X-J(李小军), Xu X(徐鑫), Liu W-H(刘伟华), Li X-Q(李秀全), Li L-H(李立会). Genetic diversity of the founder parent Orofen and its progenies revealed by SSR markers. Sci Agric Sin (中国农业科学), 2009, 42(10): 3397-3404 (in Chinese with English abstract)

[19]Edwards K, Johnstone C, Thompson C. A simple and rapid method for the preparation of plant genomic DNA for PCR analysis. Nucl Acids Res, 1991, 19: 1349

[20]Wang L-X(王立新), Zhao C-P(赵昌平), Qiu J(邱军), Li H-B(李宏博), Ge L-L(葛玲玲), Sun J(孙辉), Yao J(姚骥). A new scoring method of SSR patterns for wheat. J Triticeae Crops (麦类作物学报). 2006, 26(4): 164-168 (in Chinese with English abstract)

[21]Liu K J, Muse S V. PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics, 2005, 21: 2128-2129

[22]Pritchard J K, Stephens M, Donnelly P. Inference of population structure using multilocus genotype data. Genetics, 2000, 155: 945-959

[23]Breseghello F, Sorrells M E. Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars. Genetics, 2006, 172: 1165-1177

[24]Edward Buckler Laboratory. Maize Diversity Research. [2007-01-30] http://www.maize genetics. net/bioinformatics/tassel

[25]Evanno G, Regnaut S, Goudet J. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol, 2005, 14: 2611-2620

[26]Li Z-K(李卓坤), Xie Q-G(谢全刚), Zhu Z-L(朱占玲), Liu J-L(刘金良), Han S-X(韩淑晓), Tian B(田宾), Yuan Q-Q(袁倩倩), Tian J-C(田纪春). Analysis of plant height heterosis based on QTL mapping in wheat. Acta Agron Sin (作物学报), 2010, 36(5): 771-778 (in Chinese with English abstract)

[27]Zhang K-P(张坤普), Xu X-B(徐献斌), Tian J-C(田纪春). QTL mapping for grain yield and spike related traits in common wheat. Acta Agron Sin (作物学报), 2009, 35(2): 270-278 (in Chinese with English abstract)

[28]Gupta P K, Rustgi S, Kulwal P L. Linkage disequilibrium and association studies in higher plants: present status and future prospects. Plant Mol Biol, 2005, 57: 461-485

[29]Chen X-M(陈新民), He Z-H(何中虎), Shi J-R(史建荣), Xia L-Q(夏兰芹), Ward R, Zhou Y(周阳), Jiang G-L(蒋国梁). Genetic diversity of high quality winter wheat varieties (lines) based on SSR markers. Acta Agron Sin (作物学报), 2003, 29(1): 13-19 (in Chinese with English abstract)

[30]Zwart R S, Muylle H, Van Boekstaele E V, Roldán-Ruiz I. Evaluation of genetic diversity of Fusarium head blight resistance in European winter wheat. Theor Appl Genet, 2008, 117: 813-828

[31]Hao C-Y(郝晨阳), Dong Y-C(董玉深), Wang L-F(王兰芬), You G-X(游光霞), Zhang H-N(张洪娜), Ge H-M(盖红梅), Jia J-Z(贾继增), Zhang X-Y(张学勇). The construction of common wheat core germplasm and analysis of genetic diversity in our country. Sci Bull (科学通报), 2008, 53(8): 908-915 (in Chinese)

[32]Harris B P, Stokesbury K D E. The spatial structure of local surficial sediment characteristics on Georges Bank, USA. Continental Shelf Res, 2010, 30: 1840-1853

[33]Kline J B, Moore D J, Clevenger C V. Activation and association of the Tec tyrosine kinase with the human prolactin receptor: mapping of a Tec/Vav-receptor binding site. Mol Biol Cell, 2000, 15: 832-841

[34]Wei S-P(魏世平), Liu X-F(刘晓芬), Yang S-X(杨胜先), Lü H-Y(吕海燕), Niu Y(牛远), Zhang Y-M(章元明). Comparison of various clustering methods for population structure in Chinese cultivated soybean [Glycine max (L.) Merr.] J Nanjing Agric Univ (南京农业大学学报), 2011, 34(2): 13-17 (in Chinese with English abstract)

[35]Virk P S, Ford-Lloyd B V, Jackson M T, Pooni H S, Clemeno T P, Newbury H J. Predicting quantitative variation within rice germplasm using molecular markers. Heredity, 1996, 76: 296-304

[36]Pritchard J K, Stephens M, Rosenberg N A, Donnelly P. Association mapping in structured populations. Am J Hum Genet, 2000, 67: 170-181

[37]Kraakman A T, Niks R E, Berg P M, Stam P, Eeuwijk F A. Linkage disequilibrium mapping of yield and yield stability in modern spring barley cultivars. Genetics, 2004, 168: 435-446

[38]Agrama H A, Eizenga G C, Yan W. Association mapping of yield and its components in rice cultivars. Mol Breed, 2007, 19: 341-356

[39]Yao J, Wang L X, Liu L H, Zhao C P, Zheng Y L. Association mapping of agronomic traits on chromosome 2A of wheat. Genetica, 2009, 137: 67-75

[40]Sears E R. The aneuploids of common wheat. Mo Agric Exp Stn Res Bull, 1954, 572: 3-58

[41]Zhou M-P(周淼平), Huang Y-H(黄益洪), Ren L-J(任丽娟). Detection of QTLs for plant height in wheat using RILs. Jiangsu J Agric Sci (江苏农业科学), 2004, 20(4): 201-206 (in Chinese with English abstract)
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