Welcome to Acta Agronomica Sinica，

Acta Agron Sin ›› 2012, Vol. 38 ›› Issue (07): 1221-1231.doi: 10.3724/SP.J.1006.2012.01221

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

Genetic Diversity of Arachis Accessions Detected by EST-SSR from Cultivated Peanut (Arachis hypogaea L.)

TANG Mei1,2,CHEN Yu-Ning2,REN Xiao-Ping2,HUANG Li2,ZHOU Xiao-Jing2,YAN Hai-Yan1,JIANG Hui-Hang2,*   

  1. 1 College of Life Sciences, South-Central University for Nationalities, Wuhan 430074, China; 2 Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences / Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
  • Received:2012-01-13 Revised:2012-04-16 Online:2012-07-12 Published:2012-05-11
  • Contact: 姜慧芳, E-mail: peanutlab@oilcrops.cn E-mail:tangmeitangyong@yahoo.com.cn

PDF

1254

Cited

5

Abstract: The amplification efficiency and application potential for the research on peanut genetic diversity by using cultivars-derived EST-SSR primers in 89 Arachis aeecssions were assessed. Based on randomly selected 235 EST-SSR primer pairs, we detected 223 amplification bands in the 89 accessions with the amplification efficiency of 94.89%. Among them 53 primer pairs exhibited 206 polymorphic bands, which showed 1–12 bands per primer pair with an average of 3.89. The polymorphism index ranged from 0.044 to 4.040 with an average of 1.173. The average similarity coefficient was 0.685 among 89 peanut accessions, ranging from 0.442 to 0.976. The accessions from the same section were mainly clustered together, peanut cultivars were grouped into the section of Arachis, and A. duranensis had a close relation to cultivated peanut, which is coincident with botanical classification. According to the statistical analysis from the results of oil content and SSR data in wild peanuts, some interesting bands such as POCR437-180/170 were found to be potential for candidate markers related to oil content. BLAST analysis indicated that the alignment sequence of primer POCR437 corresponded to the coding genes of malonyl-CoA-ACP transacylase and acyl-carrier-protein, both of which are involved in fatty acid synthesis.

Key words: Wild peanut, EST-SSR, Effectiveness, Cluster analysis

[1]Pande S, Narayana Rao J. Resistance of wild Arachis species to late leaf spot and rust in greenhouse trials. Plant Dis, 2001, 85: 851–855

[2]Johnson D R, Wynne J C, Campbell W V. Resistance of wild species of Arachis to the two spotted spider mite, Tetranychus urticae. Peanut Sci, 1977, 4: 9–11

[3]Hou H-M(侯慧敏), Liao B–S(廖伯寿), Lei Y(雷永), Ren X-P(任小平), Wang S-Y(王圣玉), Li D(李栋), Jiang H-F(姜慧芳), Huang J-Q(黄家权), Chen B-Y(陈本银). Identification of AFLP markers for resistance to peanut rust. Chin J Oil Crop Sci (中国油料作物学报), 2007, 29(2): 89–92 (in Chinese with English abstract)

[4]Cao L-K(曹林奎), Wu A-Z(吴爱忠), Ma X-D(马晓冬). Nutritional components analysis of perennial wild species of Arachis L. J Shanghai Agric Coll (上海农学院学报), 1994, 12(2): 140–143 (in Chinese with English abstract)

[5]Jiang H-F(姜慧芳), Ren X-P(任小平), Wang S-Y(王圣玉), Huang J-Q(黄家权), Lei Y(雷永), Liao B-S(廖伯寿). Identification and evaluation of high oil content in wild Arachis species. Chin J Oil Crop Sci (中国油料作物学报), 2010, 32(1): 30–34 (in Chinese with English abstract)

[6]Jiang H-F(姜慧芳), Ren X-P(任小平), Huang J-Q(黄家权), Lei Y(雷永), Liao B-S(廖伯寿). Genetic variation of fatty acid components in Arachis species and development of interspecific hybrids with high oleic and low palmitic acids. Acta Agron Sin (作物学报), 2009, 35(1): 25−32 (in Chinese with English abstract)

[7]Yang X-Q(杨新泉), Liu P(刘鹏), Han Z-F(韩宗福), Ni Z-F(倪中福), Liu W-Q(刘旺清), Sun Q-X(孙其信). Comparative analysis of genetic diversity revealed by genomic-SSR, EST-SSR and pedigree in wheat (Triticum asetivum L.). Acta Genet Sin (遗传学报), 2005, 32(4): 406–416 (in Chinese with English abstract)

[8]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. Plant Mol Biol, 2002, 501–510

[9]Cordeiro G M, Casu R, McIntyre C L, Manners J M, Henry R J. Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum. Plant Sci, 2001, 160(6): 1115–1123

[10]Varshney R K, Thiel T, Stein N, Langridge P, Graner A. In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell Mol Biol Lett, 2002, 537–546

[11]Cho Y G, Ishii T, Temnykh S, Chen X, Lipovich L, McCouch S R, Park W D, Ayres N, Cartinhour S. Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa L.). Theor Appl Genet, 2000, 100: 713–722

[12]Chang W(常玮), Zhao X(赵雪), Li X(李侠), Qiu B(邱波), Han Y-P(韩英鹏), Teng W-L(縢伟丽), Li W-B(李文滨). Development of soybean EST-SSR marker and comparison with genomic-SSR marker. Chin J Oil Crop Sci (中国油料作物学报), 2009, 31(2): 149–156 (in Chinese with English abstract)

[13]Benson G. Tandem repeats finder: a program to analyze DNA sequences. Nucl Acids Res, 1999, 27: 573–580

[14]Castelo A T, Martins W, Gao G R. TROLL-tandem repeat occurrence locator. Bioinformatics, 2002, 18: 634–636

[15]Saha M C, Mian M A, Eujayl I, Z wonitzer J C, Wang L, May G D. Tall fescue EST-SSR markers with transferability across several grass species. Theor Appl Genet, 2004, 109: 783–791

[16]Hu J-B(胡建斌), Li J-W(李建吾). Distribution of EST-SSRs in cucumber genome and development of EST-SSR marker. Acta Bot Borea-Occident Sin (西北植物学报), 2008, 28(12): 2429–2435 (in Chinese with English abstract)

[17]Liang X Q, Chen X P, Hong Y B, Liu H Y, Zhou G Y, Li S X, Guo B Z. Utility of EST-derived SSR in cultivated peanut(Arachis hypogaea L.) and Arachis wild species. BMC Plant Biol, 2009, 9: 35

[18]Liang X-Q(梁炫强), Hong Y-B(洪彦彬), Chen X-P(陈小平), Liu H-Y(刘海燕), Zhou G-Y(周桂元), Li S-X(李少雄), Wen S-J(温世杰). Characterization and application of EST-SSRs in peanut (Arachis hypogaea L.). Acta Agron Sin (作物学报), 2009, 35(2): 246−254 (in Chinese with English abstract)

[19]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 relation ships 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): 36–41 (in Chinese with English abstract)

[20]Rohlf F J. NTSYSpc: Numerical Taxonomy and Multivariate Analysis System Version 2.1. Exeter Software, 2000

[21]Proite K, Leal-Bertioli S C, Bertioli D J, Moretzsohn M C, da Silva F R, Martins N F, Guimaraes P M: ESTs from a wild Arachis species for gene discovery and marker development. BMC Plant Biol, 2007, 7: 7

[22]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 gerplasm 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)

[23]Khedikar Y P, Gowda M V C, Sarvamangala C, Patgar K V, Upadhyaya H D, Varshney R K. A QTL study on late leaf spot and rust revealed one major QTL for molecular breeding for rust resisitance in groundnut (Arachis hypogaea L.). Theor Appl Genet, 2010, 121: 971−984

[24]Ren X-P(任小平), Jiang H-F(姜慧芳), Liao B-S(廖伯寿). Identification of molecular markers for resistance to bacterial wilt in peanut (Arachis hypogeea L.). J Plant Genet Resour (植物遗传资源学报), 2008, 9(2): 163–167 (in Chinese with English abstract)

[25]Chen S-L(陈四龙), Li Y-R(李玉荣), Cheng Z-S(程增书), LiaoB-S(廖伯寿), Lei Y(雷永), Liu J-S(刘吉生). Heterosis and genetic analysis of oil content in peanut using mixed model of major gene and polygene. Sci Agric Sin (中国农业科学), 2009, 42(9): 3048−3057 (in Chinese with English abstract)

[26]Varshney R K, Chabane K, Hendre P S, Aggarwal R K, Graner A. Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys. Plant Sci, 2007, 173(6): 638–649

[27]Zhao J Y, Becker H C, Zhang D Q, Zhang Y F, Ecke W. Oil content in a European×Chinese rapeseed population: QTL with additive and epistatic effects and their genotype−environment interactions. Crop Sci, 2005, 45: 51−59
[1] ZHANG Yi-Zhong, ZENG Wen-Yi, DENG Lin-Qiong, ZHANG He-Cui, LIU Qian-Ying, ZUO Tong-Hong, XIE Qin-Qin, HU Deng-Ke, YUAN Chong-Mo, LIAN Xiao-Ping, ZHU Li-Quan. Codon usage bias analysis of S-locus genes SRK, SLG, and SP11/SCR in Brassica oleracea [J]. Acta Agronomica Sinica, 2022, 48(5): 1152-1168.
[2] Hong-Yan ZHANG,Tao YANG,Rong LIU,Fang JIN,Li-Ke ZHANG,Hai-Tian YU,Jin-Guo HU,Feng YANG,Dong WANG,Yu-Hua HE,Xu-Xiao ZONG. Assessment of genetic diversity by using EST-SSR markers in Lupinus [J]. Acta Agronomica Sinica, 2020, 46(3): 330-340.
[3] WANG Rui-Yun,JI Xu,LU Ping,LIU Min-Xuan,XU Yue,WANG Lun,WANG Hai-Gang,QIAO Zhi-Jun. Analysis of Genetic Diversity in Common Millet (Panicum miliaceum) Using Fluorescent SSR in China [J]. Acta Agron Sin, 2017, 43(04): 530-548.
[4] HU Yi-Bo, YANG Xiu-Shi, LU Ping*,REN Gui-Xing*. Diversity and Correlation of Quality Traits in Quinoa Germplasms from North China [J]. Acta Agron Sin, 2017, 43(03): 464-470.
[5] XU Ning,CHEN Bing-Xu,WANG Ming-Hai,BAO Shu-Ying,WANG Gui-Fang,GUO Zhong-Xiao. Identification of Alkali Tolerance of Mungbean Germplasm Resources during Germination [J]. Acta Agron Sin, 2017, 43(01): 112-121.
[6] WU Qi,ZHOU Yu-Fei,GAO Yue,ZHANG Jiao,CHEN Bing-Ru,XU Wen-Juan,HUANG Rui-Dong. Screening and Identification for Drought Resistance during Germination in Sorghum Cultivars [J]. Acta Agron Sin, 2016, 42(08): 1233-1246.
[7] ZHANG Ti-Fu,QI Wi-Cong,GU Min-Feng,ZHANG Xiao-Lin,LI Tan,ZHAO Han. Exploration and Transferability Evaluation of EST-SSRs in Quinoa [J]. Acta Agron Sin, 2016, 42(04): 492-500.
[8] LIU Ying,ZHANG Qiao-Feng,FU Bi-Sheng,CAI Shi-Bin,JIANG Yan-Jie,ZHANG Zhi-Liang,DENG Yuan-Yu,WU Ji-Zhong,DAI Ting-Bo. Genetic Diversity of Wheat Germplasm Resistant to Sharp Eyespot and Genotyping of Resistance Loci Using SSR Markers [J]. Acta Agron Sin, 2015, 41(11): 1671-1681.
[9] LI Long,WANG Lan-Fen,WU Jing,JING Rui-Lian,WANG Shu-Min*. Identification of Drought Resistence at Seedlings Stage in Common Bean (Phaseolus vulgaris L.) Varieties [J]. Acta Agron Sin, 2015, 41(06): 963-971.
[10] WANG Yi-Tao,ZHOU Yu-Fei,LI Feng-Xian,YI Bing,BAI Wei,YAN Tong,XU Wen-Juan,GAO Ming-Chao,HUANG Rui-Dong. Identification and Classification of Sorghum Cultivars for Drought Resistance during Germination Stage Based on Principal Components Analysis and Self Organizing Map Cluster Analysis [J]. Acta Agron Sin, 2014, 40(01): 110-121.
[11] WANG Wei,WANG Chang-Biao,LIU Fang,CHEN Hao-Dong,WANG Lin,WANG Chun-Ying,ZHANG Xiang-Di,WANG Yu-Hong,WANG Kun-Bo. Development and Evaluation of New Non-Redundant EST-SSR Markers from Gossypium [J]. Acta Agron Sin, 2012, 38(08): 1443-1451.
[12] WEN Meng-Fu, CHEN Xin, WANG Hai-Yan, LU Cheng, WANG Wen-Quan. Transferability Analysis of Cassava EST-SSR and Genomic-SSR Markers in Jatropha and Rubber Tree [J]. Acta Agron Sin, 2011, 37(01): 74-78.
[13] QIAO Ting-Ting,MA Chun-Lei,ZHOU Yan-Hua,YAO Ming-Zhe,LIU Rao,CHEN Liang. EST-SSR Genetic Diversity and Population Structure of Tea Landraces and Developed Cultivars (Lines) in Zhejiang Province, China [J]. Acta Agron Sin, 2010, 36(05): 744-753.
[14] LI Yan-Qiu，SU Zhi-Fang，WANG Li-Xin，JI Wei，YAO Ji，ZHAO Chang-Ping. Increasing Density of Wheat Genetic Linkage Map with Molecular Makers [J]. Acta Agron Sin, 2009, 35(5): 861-866.
[15] GUO Chun-Fang;SUN Yun;CHEN Chang-Song;CHEN Rong-Bing;ZHANG Mu-Qing. Comparison and Cluster Analysis of Photosynthetic Characters and Water Use Efficiency in Tea (Camellia sinensis) Cultivars [J]. Acta Agron Sin, 2008, 34(10): 1797-1804.
Viewed
Full text


Abstract

Cited
  Shared   
  Discussed   
No Suggested Reading articles found!
Add: No. 80 Xueyuan South Rd, Beijing 100081, P. R. China E-mail: zwxb301@caas.cn
Supported by Beijing Magtech Co.Ltd