Browse > Article

Evaluation of ISSR and RAPD Markers for the Detection of Genetic Diversity in Mulberry (Morus spp.)  

Venkateswarlu, M. (Seribiotech Research Laboratory)
Nath, B.Surendra (Seribiotech Research Laboratory)
Saratchandra, B. (Seribiotech Research Laboratory)
Urs, S.Raje (Seribiotech Research Laboratory)
Publication Information
International Journal of Industrial Entomology and Biomaterials / v.9, no.2, 2004 , pp. 207-215 More about this Journal
Abstract
The present study was carried out to evaluate the ISSR and RAPD markers for their efficiency as genetic marker systems to establish the relationships between 18 mulberry genotypes. A total of 36 from 56 (64%) RAPD primers and 12 from 48 (25%) ISSR primers produced reproducible amplification patterns. A high proportion of polymorphic bands ranging from 44 to 91% was observed respectively with RAPD and ISSR markers. The average Resolving Power (Rp) of ISSR primers was higher than RAPD primers. The ISSR primers, UBC 825, 868 and 873, and RAPD primers, UBC 712, 720 and 729, possessed the highest Rp values and could in each instance distinguish all the 18 genotypes. Similarity matrix values were estimated based on Jaccards coefficient, considering 109 polymorphic ISSR and 212 polymorphic RAPD bands and two dendrograms were constructed. The dendrograms obtained with ISSR and RAPD markers distinguished the eight exotic genotypes from the ten indigenous (Indian) genotypes. A significant correlation value (r=0.959; p=0.001) for the cophenetic matrix between the RAPD and ISSR matrices was observed. The results indicated that the ISSR and RAPD markers could assist in the differentiation of genotypes and permit the determination of genetic distances that might be exploited by mulberry breeders in improvement programs.
Keywords
Morus spp.; ISSRs; RAPDs; Varietal identification; Genetic diversity;
Citations & Related Records
연도 인용수 순위
  • Reference
1 Thangavelu, K., A. Tikader, S. R. Ramesh, A. Ananda Rao, V. Girish Naik, S. Sekar and A. L. Deole (2000) Catalogue on mulberry (Morus spp.) germplasm. 1st edn, Central Sericultural Germplasm Resources Centre, Hosur, India, Vishruti Prints, Bangalore, 2
2 Wang, Z., J. L. Weber, G. Zhong and S. D. Tanksley (1994) Survey of plant short tandem DNA repeats. Theor. Appl. Genet. 88, 1-6
3 Zietkiewicz, E., A. Rafalski and D. Labuda (1994) Genome fingerprinting by simple sequence repeat (SSR) anchored polymerase chain reaction amplification. Genomics 20, 176-183   DOI   ScienceOn
4 Casasoli, M., C. Mattioni, M. Cherubini and F. Villani (2001) Genetic linkage map of European chestnut (Castanea sativa Mill.) based on RAPD, ISSR and isozyme markers. Theor. Appl. Genet. 102, 190-199
5 Kumar, J. S., A. Sarkar, B. N. Susheelamma and M. Venkateswarlu (2002) Identification of mulberry genotypes for cultivation as tree. Indian J. Sericult. 41, 78-79
6 Lambouy, W. F., J. Yu, P. L. Forsline and N. F. Weeden (1996) Partitioning of allozyme diversity in wild populations of Malus sieversii L. and implications for germplasm collection. J. Am. Soc. Hort. Sci. 121, 982-987
7 Morgante, M. and A. M. Olivieri (1993) PCR-amplified microsatellite markers in plant genetics. Plant J. 3, 175-182   DOI   ScienceOn
8 Nebauer, S. G., L. Del Castillo Agudo and J. Segura (1999) RAPD variation within and among natural populations of outcrossing willow-leaved foxglove (Digitalis obscura L.). Theor. Appl. Genet. 98, 985-994   DOI   ScienceOn
9 Raina, S. N., V. Rani, T. Kojima, Y. Ogihara, K. P. Singh and R. M. Devarumath (2001) 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 44, 763-772   DOI   ScienceOn
10 Thangavelu, K., P. Mukherjee, A. Tikader, S. Ravindran, A. K. Goel, A. Ananda Rao, V. Girish Naik and S. Sekar (1997) Catalogue on mulberry (Morus spp.) germplasm. 1st edn, Central Sericultural Germplasm Resources Centre, Hosur, India, Anand Process Press, Bangalore, 1
11 Liedloff, A. (1999) Mantel version 2.0, Mantel nonparametric test calculator. Shool of Natural Resources Sciences, Queensland University of Technology, Brisbane, Australia (web site: www.qut.edu.au/NRS)
12 Khasa, P. D. and B. P. Dancik (1996) Rapid identification of white Engelman spruce species by RAPD markers. Theor. Appl. Genet. 92, 46-52   DOI   ScienceOn
13 Naik, V. G., A. Sarkar and N. Sathyanarayana (2002) DNA fingerprinting of Mysore Local and V-1 mulberry (Morus spp.) cultivars with RAPD markers. Indian J. Genet. 62, 193-196
14 Williams, J. G. K., A. R. Kubelik, K. J. Livak, J. A. Rafalski and S. V. Tingey (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res. 18, 6531-6535   DOI   ScienceOn
15 Venkateswarlu, M., B. N. Susheelamma, N. Suryanarayana and K. Sengupta (1989) Peroxidase isozyme studies in four mulberry varieties introduced from Indonesia. Indian J. Sericult. 28, 271-273
16 Iruela, M., J. Rubio, J. I. Cubero, J. Gil and T. Millan (2002) Phylogenetic analysis in the genus Cicer and cultivated chickpea using RAPD and ISSR markers. Theor. Appl. Genet. 104, 643-651   DOI   ScienceOn
17 Sanjappa, M. (1989) Geographical distribution and exploration of the genus Morus L. (Moraceae); in Genetic resources of mulberry and utilization. Sengupta, K. and S. B. Dandin (eds), pp. 4-7, Jwalamukhi Job Press, Bangalore, India
18 Vijayan K. and S. N. Chatterjee (2003) ISSR profiling of Indian cultivars of mulberry (Morus spp.) and its relevance to breeding programs. Euphytica 131, 53-63   DOI   ScienceOn
19 Oraguzie, N. C., S. E. Gardiner, C. M. Basset, M. Stefanati, R. D. Ball, V. G. M. Bus and A. G. White (2001) Genetic diversity and relationships in Malus sp. germplasm collections as determined by randomly amplified polymorphic DNA. J. Am. Soc. Hort. Sci. 126, 318-328
20 Katsumata, F. (1972) Relationship between the length of styles and the shape of idioblasts in mulberry leaves, with special reference to the classification of mulberry trees. J. Sericult. Sci. Jpn 41, 387-395
21 Rus-Kortekaas, W., M. J. M. Smulders, P. Arens and B. Vosman (1994) Direct comparison of levels of genetic variation in tomato detected by a GACA-containing microsatellite probe and by random amplified polymorphic DNA. Genome 37, 375-381   DOI   ScienceOn
22 Sharma, S. K., I. K. Dowsons and R. Waugh (1995) Relationships among cultivated and wild lentils revealed by RAPD analysis. Theor. Appl. Genet. 91, 647-654
23 Hamrick, J. L. and M. J. W. Godt (1989) Allozyme diversity in plant species; in Plant population genetics, breeding and genetic resources. Brown, A. H. D., M. T. Clegg, A. L. Kahler and B. S. Weir (eds), pp. 43-63, Sinauer, Sunderland
24 Moeller, D. A. and B. A. Schaal (1999) Genetic relationships among native American maize accessions of Great Plains assessed by RAPDs. Theor. Appl. Genet. 99, 1061-1067   DOI   ScienceOn
25 Rajan, M. V., H. K. Chaturvedi and A. Sarkar (1997) Multivariate analysis as an aid to genotype selection for breeding in mulberry. Indian J. Sericult. 36, 111-115
26 Venkateswarlu, M., B. N. Susheelamma, A. Sarkar and R. K. Datta (1994) Isozyme studies in mulberry germplasm introduced from Rajasthan. Indian J. Sericult. 33, 98-99
27 Venkateswarlu, M., R. K. Aggarwal and A. Sarkar (2002) An easy and simple method of extraction and purification of genomic DNA in mulberry. J. Cytol. Genet. 3, 163-174
28 Dellaporta, S. L., J. Wood and J. B. Hicks (1983) A plant DNA minipreparation Version Ⅱ. Plant Mol. BioI. Rep. 1, 19-21   DOI
29 Ge, X. J. and M. Sun (1999) Reproductive biology and genetic diversity of a cryptoviviparous mangrove Aegiceras corniculatum (Myrsinaceae) using allozyme and inter-simple sequence repeats (ISSR) analysis. Mol. Ecol. 8, 2061-2069   DOI   ScienceOn
30 Qian, W., S. Ge and D. Y. Hong (2001) Genetic variation within and among populations of a wild rice Oryza granulata from China detected by RAPD and ISSR markers. Theor. Appl. Genet. 440-449   DOI   ScienceOn
31 Hirano, H. (1982) Varietal differences of leaf protein profiles in mulberry. Phytochemistry 21, 1513-1518   DOI
32 Sharma, A., R. Sharma and H. Machii (2000) Assessment of genetic diversity in a Morus germplasm collection using fluorescence-based AFLP markers. Theor. Appl. Genet. 101, 1049-1055   DOI   ScienceOn
33 Welsh, J. and M. McClelland (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res. 18, 7213-7218   DOI   ScienceOn
34 Tanksley S. D. and S. R. McCouch (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277, 1063-1066   DOI   PUBMED   ScienceOn
35 Owuor, E. D., T. Fahima, A. Beiles and A. Korol (1997) Population genetic response of microsite ecological stress in wild barley Hordeum spontaneum. Mol. Ecol. 6, 1177-1187   DOI   ScienceOn
36 Fang, D. Q., M. L. Roose, R. R. Krueger and C. T. Federici (1997) Fingerprinting trifoliate orange germplasm accessions with isozymes, RFLPs and inter - simple sequence repeat markers. Theor. Appl. Genet. 95, 211-219   DOI   ScienceOn
37 Blair, M. W., O. Panaud and S. R. McCouch (1999) Inter- simple sequence repeat (lSSR) amplification for analysis of microsatellite motif frequency and fingerprinting in rice (Oryza sativa L.). Theor. Appl. Genet. 98, 780-792   DOI   ScienceOn
38 Divaret, I., E. Margale and G. Thomas (1999) RAPD markers on seed bulks efficiently assess the genetic diversity of a Brassica oleracea L. collection. Theor. Appl. Genet. 98, 1029-1035   DOI   ScienceOn
39 Mattioni, C., M. Casasoli, M. Gonzalez, R. Ipinza and F. Villani (2002) Comparison of ISSR and RAPD markers to characterize three chilean Nothofagus species. Theor. Appl. Genet. 104, 1064-1070   DOI   ScienceOn
40 Gauer, L. and S. Cavalli-Molina (2000) Genetic variations in natural populations of mate (Illex paraguariensis A. St. Hil. Aquifoliaceae) using RAPD markers Heridity 84, 647-656   DOI   ScienceOn
41 Prevost, A. and M. J. Wilkinson (1999) A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars. Theor. Appl. Genet. 98, 107-112   DOI   ScienceOn
42 Jaccard, P. (1908) Nouvelles researches sur la distribution florale. Bull. Soc. Vaudoise Sci. Nat. 44, 223-270
43 Hotta, T. (1954) Fundamentals of Morus plants classification (in Japanese). Kinugasa Sanpo 390, 13-21
44 Suryanarana, N., D. M. Rama Rao and M. P. Reddy (2002) Genetic divergence in mulberry (Morus spp.). Indian J. Seric. 41, 116-119
45 Tikader, A. and B. N. Roy (2001) Multivariate analysis in some mulberry (Morus spp.) germplasm accessions. Indian J. Sericult. 40, 168-170
46 Bartish, I. V., L. P. Grakava, K. Rumpunen and H. Nybom (2000) Phylogenetic relationships annd differentiation among and within populations of Chaenomeles Lindl. (Rosaceae) estimated with RAPDs and isozymes. Theor. Appl. Genet. 101, 54563
47 Bhattacharya, E. and S. A. Ranade (2001) Molecular distinction amongst varieties of mulberry using RAPD and DAMD profiles. BMC Plant Biology 1, 3-12   DOI   ScienceOn
48 Moreno, S., J. P. Martin and J. M. Ortiz (1998) Inter-simple repeat PCR for characterization of closely related grapevine germplasm. Euphytica 101, 117-125   DOI   ScienceOn
49 Salimath, S. S., A. C. de Oliveira, I. D. Godwin and J. L. Bennetzen (1995) Assessment of genome origins and genetic diversity in the genus Eleusine with DNA markers. Genome 38, 757-763   DOI   ScienceOn
50 Yeh, F. C., D. K. X. Chong and R. C. Yang (1995) RAPD variation within and among natural populations of Trembling Aspen (Populus tremuloides Michx) from Alberta. J. Hered. 86, 454-460   DOI
51 Vavilov, N. J. (1951) The origin, variation, immunity and breeding of cultivated plants. Chronica Botanica 13, No. 1/6
52 Wang, G., R. Mahalingam and H. T. Knap (1998) (C-A) and (G-A) anchored simple sequence repeats (ASSRs) generated polymorphism in soybean, Glycin max (L.) Merr. Theor. Appl. Genet. 96, 1086-1096   DOI   ScienceOn
53 Katsumata, F. (1979) Chromosomes of Morus nigra L. from Java and hybridisation affinity between this species and some mulberry species in Japan. J. Sericult. Sci. Jpn 48, 418-422
54 Mantel, N. (1967) The detection of disease clustering and a generalized regression approach. Cancer Res. 27, 209-220
55 Nagaoka, T. and Y. Ogihara (1997) Applicability of inter-simple sequence repeat polymorphisms in wheat for use as DNA markers in comparison to RFLP and RAPD markers. Theor. Appl. Genet. 94, 597-602   DOI   ScienceOn
56 Rohlf, F. J. (1998) NTSYS-PC: Numerical taxonomy and multi variate analysis system version 2.0. Exeter software, Setauket, NY
57 Depeiges, A., C. Goubely, A. Lenoir, S. Cocherel, G. Picard, M. Raynal, F. Grellet and M. Delseny (1995) Identification of the most represented motifs in Arabidopsis thaliana microsatellite loci. Theor. Appl. Genet. 91, 160-168
58 Nagaraju, J., M. Kathirvel, R. Ramesh Kumar, E. A. Siddiq and S. E. Hasnian (2002) Genetic analysis of traditional and evolved Basmati and non-Basmati rice varieties by using fluorescence based ISSR-PCR and SSR markers. Proc. Natl. Acad. Sci. USA. 99, 5836-5841   DOI   ScienceOn
59 Fornari, B., D. Taurchini and F. Villani (1999) Genetic structure and diversity of two Turkish Castanea sativa Mill. Populations investigated with isozyme and RAPD polymorphisms. J. Genet. Breed. 53, 315-325