Variety identification and comparative analysis of genetic diversity in yardlong bean (Vigna unguiculata spp. sesquipedalis) using morphological characters, SSR and ISSR analysis

Scientia Horticulturae

Volumn 124, Issue 2, 2010, Pages 204-216

  Tantasawat, P ^a   Trongchuen, J ^a   Prajongjai, T ^a   Seehalak, W ^a   Jittayasothorn, Y ^a  

^a SURANAREE UNIVERSITY OF TECHNOLOGY   (Thailand)

Author keywords

Genetic relationship; Inter simple sequence repeat; Microsatellite; Molecular marker; Simple sequence repeat

Indexed keywords

COMPARATIVE STUDY; DICOTYLEDON; GENETIC ANALYSIS; GENETIC DIFFERENTIATION; GENETIC MARKER; GENOTYPE; HYBRID; LEGUME; MOLECULAR ANALYSIS; POLYMORPHISM; VINE;

VIGNA; VIGNA MUNGO; VIGNA RADIATA; VIGNA RADIATA VAR. RADIATA; VIGNA UNGUICULATA; VIGNA UNGUICULATA SUBSP. SESQUIPEDALIS;

EID: 76349111344     PISSN: 03044238     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.scienta.2009.12.033     Document Type: Article

References (67)

1. Ajibade S.R., Weeden N.F., and Chite S.M. Inter simple sequence repeat analysis of genetic relationships in the genus Vigna. Euphytica 111 (2000) 47-55
2. Baranger A., Aubert G., Arnau G., Lainé A.L., Deniot G., Potier J., Weinachter C., Lejeune-Hénaut I., Lallemand J., and Burstin J. Genetic diversity within Pisum sativum using protein- and PCR-based markers. Theor. Appl. Genet. 108 (2004) 1309-1321
3. Bisht I.S., Bhat K.V., Lakhanpaul S., Latha M., Jayan P.K., Biswas B.K., and Singh A.K. Diversity and genetic resources of wild Vigna species in India. Genet. Resour. Crop Evol. 52 (2005) 53-68
4. Budak H., Shearman R.C., Parmaksiz I., and Dweikat I. Comparative analysis of seeded and vegetative biotype buffalograsses based on phylogenetic relationship using ISSRs, SSRs, RAPDs, and SRAPs. Theor. Appl. Genet. 109 (2004) 280-288
5. Chawla H.S. Introduction to Plant Biotechnology. 2nd ed. (2002), Science Publisher, Inc., Enfield
6. Choumane W., Winter P., Weigand F., and Kahl G. Conservation and variability of sequence tagged microsatellite sites (STMS) from chickpea (Cicer aerietinum L.) within the genus Cicer. Theor. Appl. Genet. 101 (2000) 269-278
7. Chowdhury M.A., Vandenberg B., and Warkentin T. Cultivar identification and genetic relationship among selected breeding lines and cultivars in chickpea (Cicer arietinum L.). Euphytica 127 (2002) 317-325
8. Coulibaly S., Pasquet R.S., Papa R., and Gepts P. AFLP analysis of the phenetic organization and genetic diversity of Vigna unguiculata L. Walp. reveals extensive gene flow between wild and domesticated types. Theor. Appl. Genet. 104 (2002) 358-366
9. Cregan, P.B., Jarvik, T., Bush, A.L., Shoemaker, R.C., Lark, K.G., Kahler, A.L., Kaya N., VanToai, T.T., Lohnes, D.G., Chung, J., Specht, J.E., 2008. SSR primer sequences. Soybase. Available [On-line]: http://www.soybase.org/resources/SSR.php.
10. Dikshit H.K., Jhang T., Singh N.K., Koundal K.R., Bansal K.C., Chandra N., Tickoo J.L., and Sharma T.R. Genetic differentiation of Vigna species by RAPD, URP and SSR markers. Biol. Planta 51 (2007) 451-457
11. Diouf D., and Hilu K.W. Microsatellites and RAPD markers to study genetic relationships among cowpea breeding lines and local varieties in Senegal. Genet. Resour. Crop Evol. 52 (2005) 1057-1067
12. Fang J., Chao C.-C.T., Roberts P.A., and Ehlers J.D. Genetic diversity of cowpea [Vigna unguiculata (L.) Walp.] in four West African and USA breeding programs as determined by AFLP analysis. Genet. Resour. Crop Evol. 54 (2007) 1197-1209
13. Fatokun C.A., Danesh D., and Young N.D. Molecular taxonomic relationships in the genus Vigna based on RFLP analysis. Theor. Appl. Genet. 86 (1993) 97-104
14. Fernandez M.E., Figueiras A.M., and Benito C. The use of ISSR and RAPD marker for detecting DNA polymorphism, genotype identification and genetic diversity among barley cultivars with known origin. Theor. Appl. Genet. 104 (2002) 845-851
15. Fery R.L. New opportunities in Vigna. In: Janick J., and Whipkey A. (Eds). Trends in New Crops and New Uses (1997), ASHS Press, Virginia 424-428
16. Ford R., Le Roux K., Itman K., Brouwer J.B., and Taylor P.W.J. Genome-specific sequence tagged microsatellite site (STMS) markers for diversity analysis and genotyping in Pisum species. Euphytica 124 (2002) 397-405
17. Gillaspie Jr. A.G., Hopkins M.S., and Dean R.E. Determining genetic diversity between lines of Vigna unguiculata subspecies by AFLP and SSR markers. Genet. Resour. Crop Evol. 52 (2005) 245-247
18. Goulão L., and Oliveira C.M. Molecular characterization of cultivars of apple (Malus x domestica Borkh.) using microsatellite (SSR and ISSR) markers. Euphytica 122 (2001) 81-89
19. Hokanson S.C., Lamboy W.F., Szewc-McFadden A.K., and McFerson J.R. Microsatellite (SSR) variation in a collection of Malus (apple) species and hybrids. Euphytica 118 (2001) 281-294
20. Hokanson S.C., Szewc-McFadden A.K., Lamby W.F., and McFerson J.R. Microsattelite (SSR) markers reveal genetic identities, genetic diversity and relationships in a Malus x domestica borkh. core subset collection. Theor. Appl. Genet. 97 (1998) 671-683
21. Kaga A.N., Tomooka N., Egawa Y., Hosaka K., and Kamijima O. Species relationships in subgenus Ceratotropis (genus Vigna) as revealed by RAPD analysis. Euphytica 88 (1996) 17-24
22. Karhu A., Hurme P., Karjalainen K., Karvonan P., Kärkkainen K., Neale D., and Savolainen O. Do molecular markers reflect patterns of differentiation in adaptive traits of conifers?. Theor. Appl. Genet. 93 (1996) 215-221
23. Keim P., Beavis W., Schupp J., and Freestone R. Evaluation of soybean RFLP marker diversity in adapted germplasm. Theor. Appl. Genet. 85 (1992) 205-212
24. Labra M., Grassi F., Bardini M., Imazio S., Guiggi A., Citterio S., Banfi E., and Sgorbati S. Genetic relationships in Opuntia Mill. Genus (Cactaceae) detected by molecular marker. Plant Sci. 165 (2003) 1129-1136
25. Lakhanpaul S., Chadha S., and Bhat K.V. Random amplified polymorphic DNA (RAPD) analysis in Indian mungbean [Vigna radiata (L.) Wilczek] cultivars. Genetica 109 (2000) 227-234
26. Laosuwan P., Naengmai M., and Saengoon C. Comparison of dwarf yardlong bean varieties. Suranaree J. Sci. 3 (1996) 147-150
27. Lapointe F.J., and Legendre P. Statistical significance of the matrix correlation coefficient for comparing independent phylogenetic trees. Syst. Biol. 41 (1992) 378-384
28. Li C.-D., Fatokun C.A., Ubi B., Singh B.B., and Scoles G.J. Determining genetic similarities and relationships among cowpea breeding lines and cultivars by microsatellite markers. Crop Sci. 41 (2001) 189-197
29. Li Z., and Nelson R.L. Genetic diversity among soybean accessions from three countries measured by RAPDs. Crop Sci. 41 (2001) 1337-1347
30. Mantel N. The detection of disease clustering and a generalized regression approach. Cancer Res. 27 (1967) 209-220
31. Menancio-Hautea D., Fatokun C.A., Kumar L., Danesh D., and Young N.D. Comparative genome analysis of mungbean (Vigna radiata L. Wilczek) and cowpea (V. unguiculata L. Walpers) using RFLP mapping data. Theor. Appl. Genet. 86 (1993) 797-810
32. Miyagi M., Humphry M., Ma Z.Y., Lambrides C.J., Bateson M., and Liu C.J. Construction of bacterial artificial chromosome libraries and their application in developing PCR-based markers closely linked to a major locus conditioning bruchid resistance in mungbean (Vigna radiata L. Wilczek). Theor. Appl. Genet. 110 (2004) 151-156
33. Nagaraju, J., Kathirvel, M., Ramesh Kumar, R., Siddiq, E.A., Hasnain, S.E., 2002. Genetic analysis of traditional and evolved Basmati and non-Basmati rice varieties by using fluorescence-based ISSR-PCR and SSR markers. PNAS 99, 5836-5841.
34. Narvel J.M., Fehr W.R., Chu W., Grant D., and Shoemaker R.C. Simple sequence repeat diversity among soybean plant introductions and elite genotypes. Crop Sci. 40 (2000) 1453-1458
35. Narvel J.M., Chu W.C., Fehr W.R., Cregan P.B., and Shoemaker R.C. Development of multiplex sets of simple sequence repeat DNA markers covering the soybean genome. Mol. Breed. 6 (2000) 175-183
36. Nkongolo K.K. Genetic characterization of Malawian cowpea (Vigna unguiculata (L.) Walp) landraces: diversity and gene flow among accessions. Euphytica 129 (2003) 219-228
37. Nybom H. Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Mol. Ecol. 13 (2004) 1143-1155
38. Pandian A., Ford R., and Taylor P.W.J. Transferability of sequence tagged microsatellite site (STMS) primers across four major pulses. Plant Mol. Biol. Rep. 18 (2000) 395a-395h
39. Paris H.S., Yonash N., Portnoy V., Mozes-Daube N., Tzuri G., and Katzir N. Assessment of genetic relationships in Cucurbita pepo (Cucurbitaceae) using DNA markers. Theor. Appl. Genet. 106 (2003) 971-978
40. Pasquet R. Vigna Savi. In: Mackinder B., Pasquet R., Polhill R., and Verdcourt B. (Eds). Flora Zambesiaca, Volume Part Phaseoleae (2001), Royal Botanic Gardens, Kew 121-156
41. Pasquet R.S. Allozyme diversity of cultivated cowpea Vigna unguiculata (L.) Walp. Theor. Appl. Genet. 101 (2000) 211-219
42. Patzak J. Comparison of RAPD, STS, ISSR, and AFLP molecular methods used for assessment of genetic diversity in hop (Humulus lupulus L.). Euphytica 121 (2001) 9-18
43. Peakall R., Gilmore S., Keys W., Morgante M., and Rafalski A. Cross-species amplification of soybean (Glycine max) simple sequence repeats (SSRs) within the genus and other legume genera: implications for the transferability of SSRs in plants. Mol. Biol. Evol. 15 (1998) 1275-1287
44. Phansak P., Taylor P.W.J., and Mongkolporn O. Genetic diversity in yardlong bean (Vigna ungiculata spp. sesquipedalis) and related Vigna species using sequence tagged microsatellite site analysis. Sci. Hortic. 106 (2005) 137-146
45. Powell W., Morgante M., Andre C., Hanafey M., Vogel J., Tingey S., and Rafalski A. The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Mol. Breed. 2 (1996) 225-238
46. Pradeep Reddy M., Sarla N., and Siddiq E.A. Inter simple sequence repeat (ISSR) polymorphism and its application in plant breeding. Euphytica 128 (2002) 9-17
47. Rachie K.O. Introduction. In: Singh S.R., and Rachie K.O. (Eds). Cowpea Research, Production, and Utilization (1985), Wiley, Chichester xxi-xxviii
48. Rohlf, F.J., 2000. Ntsys Numerical Taxonomy and Multivariate Analysis System Version 2.2 User Guide. Applied Biostatistics, Inc., New York.
49. Saghai Maroof K., Soliman M., Jorgensen R.A., and Allard R.W. Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. PNAS 81 (1984) 8014-8018
50. Sambrook J., and Russell D.W. Molecular Cloning: A Laboratory Manual (2001), Cold Spring Harbor Laboratory Press, New York
51. Sarutayophat T., Nualsri C., Santipracha Q., and Saereeprasert V. Characterization and genetic relatedness among 37 yardlong bean and cowpea accessions based on morphological characters and RAPD analysis. Songklanakarin J. Sci. Technol. 29 (2007) 591-600
52. Simioniuc D., Uptmoor R., Friedt W., and Ordon F. Genetic diversity and relationships among pea cultivars revealed by RAPDs and AFLPs. Plant Breed. 121 (2002) 429-435
53. Sneath, P.H.A., Soka, R.R., 1973. Numerical Taxonomy. W.H. Freeman and Company, California.
54. Souframanien J., and Gopalakrishna T. A comparative analysis of genetic diversity in blackgram genotypes using RAPD and ISSR markers. Theor. Appl. Genet. 109 (2004) 1687-1693
55. Tar'an B., Zhang C., Warkentin T., Tullu A., and Vandenberg A. Genetic diversity among varieties and wild species accessions of pea (Pisum sativum L.) based on molecular markers, and morphological and physiological characters. Genome 48 (2005) 257-272
56. Tautz D. Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17 (1989) 6463-6471
57. Tomooka N., Vaughan D.A., Moss H., and Maxted N. The Asian Vigna: Genus Vigna Subgenus Ceratotropis Genetic Resources (2002), Kluwer Academic Publishers, London
58. Tosti N., and Negri V. Efficiency of three PCR-based markers in assessing genetic variation among cowpea (Vigna unguiculata subsp. unguiculata) landraces. Genome 45 (2002) 268-275
59. Vaillancourt R.E., and Weeden N.F. Chloroplast DNA polymorphism suggests a Nigerian centre of domestication for the cowpea Vigna unguiculata (Leguminosae). Am. J. Bot. 79 (1992) 1194-1199
60. Vaillancourt R.E., Weeden N.F., and Barnard J. Isozyme diversity in the cowpea species complex. Crop Sci. 33 (1993) 606-613
61. Vijayan K., and Chatterjee S.N. ISSR profiling of Indian cultivars of mulberry (Morus spp.) and its relevance to breeding programs. Euphytica 131 (2003) 53-63
62. Wang X.W., Kaga A., Tomooka N., and Vaughan D.A. The development of SSR markers by a new method in plants and their application to gene flow studies in azuki bean [Vigna angularis (Willd.) Ohwi and Ohashi]. Theor. Appl. Genet. 109 (2004) 352-360
63. Weir B.S. Genetic Data Analysis II. 2nd ed. (2004), Sinauer Associates, Inc., Sunderland, MA
64. Wiesner I., and Wiesnerová D. Effect of resolving medium and staining procedure on inter-simple-sequence-repeat (ISSR) patterns in cultivated flax germplasm. Genet. Resour. Crop Evol. 50 (2003) 849-853
65. Williams J.G.K., Kubelik A.R., Livak K.J., Rafalski J.A., and Tingey S.V. DNA polymorphism amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res. 18 (1990) 6531-6535
66. Yee E., Kidwell K.K., Sills G.R., and Lumpkin T.A. Diversity among selected Vigna angularis (Azuki) accessions on the basis of RAPD and AFLP markers. Crop Sci. 39 (1999) 268-275
67. Zabeau, M., Vos, P., 1993. Selective restriction fragment amplification. A general method for DNA fingerprinting. European Patent Application No. 924,026,297. Publication no. 0534858.