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Acta Agron Sin ›› 2010, Vol. 36 ›› Issue (12): 2055-2061.doi: 10.3724/SP.J.1006.2010.02055

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Application of SCoT Molecular Marker Technique in Genus Arachis

XIONG Fa-Qian1,2,3,JIANG Jing1,ZHONG Rui-Chun1,HAN Zhu-Qiang1,HE Liang-Qiong1,LI Zhong1,ZHUANG Wei-Jian4,*,TANG Rong-Hua1,2, *   

  1. 1 Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China; 2 Guangxi Crop Genetic Improvement and Biotechnology Laboratory, Guangxi Academy of Agricultural Sciences, Nanning 530007, China; 3 College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China; 4 College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China
  • Received:2010-04-09 Revised:2010-08-05 Online:2010-12-12 Published:2010-10-09
  • Contact: TANG Rong-Hua,E-mail:tronghua@163.com,Tel: 0771-3276055;ZHUANG Wei-Jian,E-mail:zhuangwj@pub2.fz.fj.cn

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Abstract: The study of molecular markers in the genus Arachis is far behind other species. It was difficult to identify DNA polymorphism in cultivated peanut by most of the molecular marker techniques, because genetic base in cultivated peanut is narrow, limiting the utilization of the Arachis wild species to improve the cultivated peanut and the establishment of peanut breeding technologies of MAS. In the present study, SCoT molecular marker technique, which can be used to detect markers associated with functional genes, was firstly used to study the genetic diversity and relationships among sixteen accessions of four sections in the genus Arachis and among eight accessions of A. hypogaea, respectively. The results showed that a total of 194 loci were detected with 23 SCoT primers in the tested Arachis accessions, 130 of which were polymorphic with a polymorphism of 67.01%. The genetic relationships revealed by cluster analysis were in accordance with previous reports. Nineteen polymorphic SCoT primers were screened out, and a total of 198 loci were amplified in the tested cultivated peanut accessions, 67 (33.84%) of which were polymorphic. This indicated that SCoT marker technique can be used to detect a certain amount of DNA polymorphism in cultivated peanut.

Key words: Peanut, Start codon targeted polymorphism (SCoT), Molecular marker, Genetic diversity

[1]Tang R-H(唐荣华), He L-Q(贺梁琼), Zhuang W-J(庄伟建), Han Z-Q(韩柱强), Zhong R-C(钟瑞春), Zhou C-Q(周翠球), Gao G-Q(高国庆), Li Z(李忠). Phylogenetic relationships in the genus Arachis based on SSR molecular marker profiles. Chin J Oil Crop Sci (中国油料作物学报), 2007, 29(2): 142–147 (in Chinese with English abstract)
[2]Chen B-Y(陈本银), Jiang H-F(姜慧芳), Liao B-S(廖伯寿), Ren X-P(任小平), Huang J-Q(黄家权), Lei Y(雷永), Wang S-Y(王圣玉). Genetic diversity analysis of Arachis germplasm by SSR. J Trop Subtrop Bot (热带亚热带植物学报), 2008, 16(4): 296–303 (in Chinese with English abstract)
[3]Tang R H, Zhuang W J, Gao G Q, He L Q, Han Z Q, Shan S H, Jiang J, Li Y R. Phylogenetic relationships in genus Arachis based on SSR and AFLP markers. Agric Sci China, 2008, 7: 405–414
[4]Santos V S E D, Gimenes M A, Valls J F M, Lopes C R. Genetic variation within and among species of five sections of genus Arachis L.(Leguminosae) using RAPDs. Genet Resour Crop Evol, 2003, 50: 841–848
[5]Milla S R, IsIeib T G, Stalker H T. Taxonomic relationships among Arachis sect. Arachis species as revealed by AFLP markers. Genome, 2005, 48: 1–11
[6]He G H, Prakash C S. Identification of polymorphic DNA markers in cultivated peanut (Arachis hypogaea L.). Euphytica, 1997, 97: 143–149
[7]Subramanian V, Gurtu S, Rao R C N, Nigam S N. Identification of DNA polymorphism in cultivated groundnut using random amplified polymorphic DNA (PAPD) assay. Genome, 2000, 43: 656–660
[8]Raina S N, Rani V, Kojima T, Ogihara Y, Singh K P, Devarumath R M. RAPD and ISSR fingerprints as useful genetic markers for analysis of genetic diversity, varietal identification, and phylogenetic relationships in peanut (Arachis hypogaea) cultivars and wild species. Genome, 2001, 44: 763–772
[9]Jiang H F, Liao B S, Ren X P, Lei Y, Emma M, Fu T D, Crouch J H. Comparative assessment of genetic diversity of peanut (Arachis hypogaea L.) genotypes with various levels of resistance to bacterial wilt through SSR and AFLP analyses. J Genet Genom, 2007, 34: 544–554
[10]Ren X P, Huang J Q, Liao B S, Zhang X J, Jiang H F. Genomic affinities of Arachis genus and interspecific hybrids were revealed by SRAP markers. Genec Resour Crop Evol , 2010, DOI: 10.1007/s107 22 -010-9532-1
[11]Cui S-L(崔顺立), Liu L-F(刘立峰), Chen H-Y(陈焕英), Geng L-G(耿立格), Meng C-S(孟成生), Yang Y(杨余). Genetic diversity of peanut landraces in hebei province revealed by SSR markers. Sci Agric Sin (中国农业科学), 2009, 42(9): 3346–3353 (in Chinese with English abstract)
[12]Tang R H, Gao G Q, He L Q, Han Z Q, Shan S H, Zhong R C, Zhou C Q, Jiang J, Li Y R, Zhuang W J. Genetic diversity in cultivated groundnut based on SSR markers. J Genet Genom, 2007, 34: 449–459
[13]Han Z-Q(韩柱强), Gao G-Q(高国庆), Wei P-X(韦鹏霄), Tang R-H(唐荣华), Zhong R-C(钟瑞春). Analysis of DNA polymorphism and genetic relationships in cultivated peanut (Arachis hypogaea L.) using microsatellite markers. Acta Agron Sin (作物学报), 2004, 30(11): 1097–1101 (in Chinese with English abstract)
[14]Hong Y-B(洪彦彬), Liang X-Q(梁炫强), Chen X-P(陈小平), Lin K-Y(林坤耀), Zhou G-Y(周桂元), Li S-X(李少雄), Liu H-Y(刘海燕). Genetic diversity analysis in botanical varieties of the cultivated peanut (Arachis hypogaea L.) based on SSR polymorphism. Mol Plant Breed (分子植物育种), 2008, 6(1): 71–78 (in Chinese with English abstract)
[15]He L-Q(贺梁琼), Tang R-H(唐荣华), Gao G-Q(高国庆). Molecular evidence for gene introgression from wild species to cultivated varieties in peanut. Mol Plant Breed (分子植物育种), 2005, 3(6): 815–820 (in Chinese with English abstract)
[16]Hong Y B, Liang X Q, Chen X P, Liu H Y, Zhou G Y, Li S X, Wen S. Construction of genetic linkage map based on SSR markers in peanut (Arachis hypogaea L.). Agric Sci China, 2008, 7: 915–921
[17]Varshney R K, Bertioli D J, Moretzsohn M C, Vadez V, Krishnamurthy L, Aruna R, Nigam S N, Moss B J, Seetha K, Ravi K, He G, Knapp S J, Hoisington D A. The first SSR-based genetic linkage map for cultivated groundnut (Arachis hypogaea L.). Theor Appl Genet, 2009, 118: 729–739
[18]Andersen J R, Lübberstedt T. Functional markers in plants. Trends Plant Sci, 2003, 8: 554–560
[19]Lu C-R(陆才瑞), Yu S-X(喻树迅), Yu J-W(于霁雯), Fan S-L(范术丽), Song M-Z(宋美珍), Wang W(王武), Ma S-J(马淑娟). Development and appraisement of functional molecular marker: intron sequence amplified polymorphism (ISAP). Hereditas (遗传), 2008, 30: 1207–1216 (in Chinese with English abstract)
[20]Yang J-H(杨景华), Wang S-W(王士伟), Liu X-Y(刘训言), Yang J-F(杨加付), Zhang M-F(张明方). Development and application of functional markers in higher plants. Sci Agric Sin (中国农业科学), 2008, 41(11): 3429–3436 (in Chinese with English abstract)
[21]Xiong F-Q(熊发前), Tang R-H(唐荣华), Chen Z-L(陈忠良), Pan L-H(潘玲华), Zhuang W-J(庄伟建). Start codon target polymorphism (SCoT): A novel gene targeted marker technique based on the translation start codon. Mol Plant Breed (分子植物育种), 2009, 7(3): 635–638 (in Chinese with English abstract)
[22]Collard B C Y, Mackill D J. Start codon targeted (SCoT) polymorphism: a simple, novel DNA marker technique for generating gene-targeted markers in plants. Plant Mol Biol Rep, 2009, 27: 86–93
[23]Kochert G, Stalker H M, Gimenes M, Galgaro L, Lopes C R, Moore K. RFLP and cytogenetic evidence on the origins and evolution of allotetraploid domesticated peanut, Arachis hypogaea (Leguminosae). Am J Bot, 1996, 83: 1282–1291
[24]Song W(宋伟), Wang F-G(王凤格), Yi H-M(易红梅), Li X(李翔), Zhao J-R(赵久然). Functional markers and their potential application in varieties identification and MAS breeding. Mol Plant Breed (分子植物育种), 2009, 17(3): 612–618 (in Chinese with English abstract)
[25]Li G, Quiros C F. Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theor Appl Genet, 2001, 103: 455–461
[26]Hu J, Vick B A. Target region amplification polymorphism: a novel marker technique for plant genotyping. Plant Mol Bio Rep, 2003, 21: 289–294
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