Development and characterization of genic SSR markers for mungbean (Vigna radiata (L.) Wilczek)

Euphytica

Volumn 195, Issue 2, 2014, Pages 245-258

  Gupta, S K ^a   Bansal, R ^a   Gopalakrishna, T ^a  

^a BHABHA ATOMIC RESEARCH CENTRE   (India)

Author keywords

ESTs; Genetic diversity; Mungbean; SSR marker; Transferability; Vigna

Indexed keywords

TETRA; VIGNA; VIGNA RADIATA; VIGNA RADIATA VAR. RADIATA;

EID: 84888836375     PISSN: 00142336     EISSN: 15735060     Source Type: Journal    
DOI: 10.1007/s10681-013-0993-0     Document Type: Article

References (43)

1. Anderson JA, Churchill GA, Autrique JE, Tanksley SD, Sorrells ME (1993) Optimizing parental selection for genetic linkage maps. Genome 36: 181-186.
2. Arumuganathan K, Earle ED (1991) Nuclear DNA content of some important plant species. Plant Mol Biol Rep 9: 211-215.
3. Bhat KV, Lakhanpaul S, Chadha S (2005) Amplified fragment length polymorphism (AFLP) analysis of genetic diversity in Indian mungbean [Vigna radiata (L.) Wilczek] cultivars. Indian J Biotech 4: 56-64.
4. Blair MW, Torres MM, Giraldo MC, Pedraza F (2009) Development and diversity of Andean-derived, gene-based microsatellites for common bean (Phaseolus vulgaris L.). BMC Plant Biol 9: 100.
5. Blair MW, Hurtado N, Chavarro CM, Muñoz-Torres MC, Giraldo MC, Pedraza F, Tomkins J, Wing R (2011) Gene-based SSR markers for common bean (Phaseolus vulgaris L.) derived from root and leaf tissue ESTs: an integration of the BMc series. BMC Plant Biol 11: 50.
6. Choudhary S, Sethy NK, Shokeen B, Bhatia S (2009) Development of chickpea EST-SSR markers and analysis of allelic variation across related species. Theor Appl Genet 118: 591-608.
7. da Maia LC, Palmieri DA, de Souza VQ, Kopp MM, de Carvalho FI, de Oliveira AC (2008) SSR locator: tool for simple sequence repeat discovery integrated with primer design and PCR simulation. Int J Plant Genomics 2008: 412696.
8. Dutta S, Kumawat G, Singh BP, Gupta DK, Singh S, Dogra V, Gaikwad K, Sharma TR, Raje RS, Bandhopadhya TK, Datta S, Singh MN, Bashasab F, Kulwal P, Wanjari KB, Varshney RK, Cook DR, Singh NK (2011) Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh]. BMC Plant Biol 11: 17.
9. Fatokun CA, Danesh D, Young ND, Stewart EL (1993) Molecular taxonomic relationships in the genus Vigna based on RFLP analysis. Theor Appl Genet 86: 97-104.
10. Fernandez GCJ, Shanmugasundaram S (1988) The AVRDC mungbean improvement program: the past present and future. In: Proceedings of the 2nd International Mungbean Symposium, Asian Vegetable Research and Development Center, Shanhua, Taiwan, pp 58-70.
11. Gupta SK, Gopalakrishna T (2010) Development of unigene-derived SSR markers in cowpea (Vigna unguiculata) and their transferability to other Vigna species. Genome 53: 508-523.
12. Gupta S, Tripathi KP, Roy S, Sharma A (2010) Analysis of unigene derived microsatellite markers in family solanaceae. Bioinformation 5: 113-121.
13. Gupta SK, Bansal R, Vaidya UJ, Gopalakrishna T (2012) Development of EST-derived microsatellite markers in mungbean [Vigna radiata (L.) Wilczek] and their transferability to other Vigna species. Indian J Genet 72: 468-471.
14. Hanai LR, Campos T, Camargo LEA, Benchimol LL, de Souza AP, Melotto M, Carbonell SAM, Chioratto AF, Consoli L, Formighieri EF, Siqueira MVBM, Tsai SM, Vieira MLC (2007) Development, characterization, and comparative analysis of polymorphism at common bean SSR loci isolated from genic and genomic sources. Genome 50: 266-277.
15. Humphry ME, Konduri V, Lambrides CJ, Magner T, McIntyre CL, Aitken EAB, Liu CJ (2002) Development of a mungbean (Vigna radiata) RFLP linkage map and its comparison with lablab (Lablab purpureus) reveals a high level of colinearity between the two genomes. Theor Appl Genet 105: 160-166.
16. Isemura T, Kaga A, Tabata S, Somta P, Srinives P, Shimizu T, Jo U, Vaughan DA, Tomooka N (2012) Construction of a genetic linkage map and genetic analysis of domestication related traits in mungbean (Vigna radiata). PLoS ONE 7: e41304.
17. Jayashree B, Punna R, Prasad P, Bantte K, Hash CT, Chandra S, Hoisington DA, Varshney RK (2006) A database of simple sequence repeats from cereal and legume expressed sequence tags mined in silico: survey and evaluation. In Silico Biol 6: 0054.
18. Lambrides CJ, Lawn RJ, Godwin ID, Manners J, Imrie BC (2000) Two genetic linkage maps of mungbean using RFLP and RAPD markers. Aust J Agri Res 51: 415-425.
19. Lawson MJ, Zhang L (2008) Housekeeping and tissue-specific genes differ in simple sequence repeats in the 5′-UTR region. Gene 407: 54-62.
20. Li YC, Korol AB, Fahima T, Nevo E (2004) Microsatellites within genes: structure, function, and evolution. Mol Biol Evol 21: 991-1007.
21. Liang X, Chen X, Hong Y, Liu H, Zhou G, Li S, Guo B (2009) Utility of EST-derived SSR in cultivated peanut (Arachis hypogaea L.) and Arachis wild species. BMC Plant Biol 9: 35.
22. Melotto M, Monteiro-Vitorello MB, Bruschi AG, Camargo LEA (2005) Comparative bioinformatics analysis of genes expressed in common bean (Phaseolus vulgaris L.) seedlings. Genome 48: 562-570.
23. Mishra RK, Gangadhar BH, Nookaraju A, Kumar S, Park SW (2012) Development of EST-derived SSR markers in pea (Pisum sativum) and their potential utility for genetic mapping and transferability. Plant Breed 131: 118-124.
24. Moe KT, Chung J-W, Cho Y-I, Moon J-K, Ku J-H, Jung J-K, Lee J, Park Y-J (2011) Sequence information on simple sequence repeats and single nucleotide polymorphisms through transcriptome analysis of Mungbean. J Integr Plant Biol 53: 63-73.
25. Morgante M, Hanafey M, Powell W (2002) Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes. Nat Genet 30: 194-200.
26. Parida SK, Anand Raj Kumar K, Dalal V, Singh NK, Mohapatra T (2006) Unigene derived microsatellite markers for the cereal genomes. Theor Appl Genet 112: 808-817.
27. Raturi A, Singh SK, Sharma V, Pathak R (2012) Stability and environmental indices analyses for yield attributing traits in Indian Vigna radiata genotypes under arid conditions. Asian J Agri Sci 4: 126-133.
28. Rohlf FJ (1998) NTSYS-Pc: Numerical taxonomy and multivariate analysis system, version 2. 0. Exeter publications, Setauket, New York.
29. Scott KD, Eggler P, Seaton G, Rossetto M, Ablett EM, Lee LS, Henry RJ (2000) Analysis of SSRs derived from grape ESTs. Theor Appl Genet 100: 723-726.
30. Seehalak W, Somta P, Sommanas W, Srinives P (2009) Microsatellite markers for mungbean developed from sequence database. Mol Ecol Resour 9: 862-864.
31. Shultz JL, Kazi S, Bashir R, Afzal JA, Lightfoot DA (2007) The development of BAC-end sequence-based microsatellite markers and placement in the physical and genetic maps of soybean. Theor Appl Genet 114: 1081-1090.
32. Somta P, Musch W, Kongsamai B, Chanprame S, Nakasathien S, Toojinda T, Sorajjapinun W, Seehalak W, Tragoonrung S, Srinives P (2008) New microsatellite markers isolated from mungbean (Vigna radiata (L.) Wilczek). Mol Ecol Resour 8: 1155-1157.
33. Song Q-J, Jia GF, Zhu Y-L, Grant DM, Hwang E-Y, Hyten DL, Cregan PB (2010) Abundance of SSR motifs and development of candidate polymorphic SSR markers (BARCSOYSSR_1. 0) in soybean. Crop Sci 50: 1550-1560.
34. Tangphatsornruang S, Somta P, Uthaipaisanwong P, Chanprasert J, Sangsrakru D, Seehalak W, Sommanas W, Tragoonrung S, Srinives P (2009) Characterization of microsatellites and gene contents from genome shotgun sequences of mungbean (Vigna radiata (L.) Wilczek). BMC Plant Biol 9: 137.
35. Tautz D, Renz P (1984) Simple sequences are ubiquitous repetitive components of eukaryotic genome. Nucleic Acids Res 12: 4127-4138.
36. Thudi M, Bohra A, Nayak SN, Varghese N, Shah TM et al (2011) Novel SSR markers from BAC-end sequences, DArT arrays and a comprehensive genetic map with 1, 291 marker loci for chickpea (Cicer arietinum L.). PLoS ONE 6: e27275.
37. Tian AG, Wang J, Cui P, Han YJ, Xu H, Cong LJ, Huang XG, Wang XL, Jiao YZ, Wang BJ, Wang YJ, Zhang JS, Chen SY (2004) Characterization of soybean genomic features by analysis of its expressed sequence tags. Theor Appl Genet 108: 903-913.
38. Toth G, Gaspari Z, Jurka J (2000) Microsatellites in different eukaryotic genome, survey and analysis. Genome Res 10: 1967-1981.
39. van K, Kang YJ, Han K-S, Lee Y-H, Gwag J-G, Moon J-K, Lee S-H (2013) Genome-wide SNP discovery in mungbean by Illumina HiSeq. Theor Appl Genet. doi: 10. 1007/s00122-013-2114-9.
40. Varshney RK, Thiel T, Stein N, Langridge P, Graner A (2002) In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell Mol Biol Lett 7: 537-546.
41. Varshney RK, Graner A, Sorrells ME (2005) Genic microsatellite markers in plants: features and applications. Trends Biotechnol 23: 48-55.
42. Verdcourt B (1970) Studies in the Leguminosae-Papilionoidae for the 'Flora of Tropical East Africa: IV'. Kew Bull 24: 507-569.
43. Wang Z, Jun Li J, Luo Z, Huang L, Chen X, Fang B, Li Y, Chen J, Zhang X (2011) Characterization and development of EST-derived SSR markers in cultivated sweetpotato (Ipomoea batatas). BMC Plant Biol 11: 139.