Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives

Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives ( Vol-3,Issue-5,September - October 2018 )

Author: M. E. Hoque, Kashpia Tasrin

ijeab doi crossref DOI: 10.22161/ijeab/3.5.1

Keyword: eggplant, molecular diversity, SSR marker, wild relatives.

Abstract: Collection and characterization of local genotypes and landraces are prerequisite for any crop improvement program. Molecular diversity and DNA profiling shown exact genetic blue print of any crop. Hence, the experiment was design to establish the molecular diversity and polymorphism among some local eggplant genotypes and its wild relatives for future breeding program. The experiment was carried out at the Biotechnology Laboratory, Sher-e-Bangla Agricultural University, Dhaka, Bangladesh, with twenty-five local and two wild relatives (Solanum sisymbriifolium and S. villosum) of eggplant to study molecular diversity and DNA fingerprinting at those genotypes. Five well-known SSR primers (EPSSR82, smSSR01, EM114, EM120 and smSSR04) were used for the molecular characterization of the genotypes. Quality DNA was isolated with 27 genotypes and PCR amplification was carried out with these primer. The amplified DNA fragment was visualized by 2% agarose gel and data were analyzed by POWERMAKER (version 3.25) and NTSYS-PC (version 2.2). Some total at 10 different alleles were generated with a range of 1 to 3 alleles per locus and an average of 2.0 alleles. The highest number (2) of polymorphic bands was observed in the primers EPSSR82 and smSSR01. The Polymorphism Information Content (PIC) of SSR markers ranged from 0.37 to 0.67 with an average value of PIC = 0.54. Gene diversity ranges from 0.49 (smSSR01) to 0.72 (EPSSR82), with an average value of 0.61. UPGMA method separated the of 27 genotypes into two major clusters (I and II). From the clusters, wild species Solanum villosum belonged to the sub-cluster (IIb), that revealed its distinct variation from the others. On the other hand, wild species Solanum sisymbriifolium showed a close relatedness by forming the same cluster together with thirteen local eggplant genotypes. Molecular diversity and DNA profiling was identified among 25 local eggplant germplasm and its wild relatives. The finding of the experiment could be used for selection of diverse parent for eggplant improvement.

References:

[1] FAO (2016). FAOSTAT Production Databases. Available online at:
http://faostat3.fao.org/home/E(Accessed 11 February, 2016).
[2] BBS. 2016. Statistical Yearbook-2015. Bangladesh Bureau of Statistics, Ministry of Planning, Government of People‟s Republic of Bangladesh.
[3] Barchi, L., S. Lanteri, E. Portis, G. Valè, A. Volante, L. Pulcini, and G. L. Rotino, 2012. A RAD tag derived marker based eggplant linkage map and the location of QTLs determining anthocyanin pigmentation. PLoS One. 7: e43740.
[4] Lebeau, A., M. Gouy, M. C. Daunay, E. Wicker, F. Chiroleu, P. Prior and J. Dintinger, 2013. Genetic mapping of a major dominant gene for resistance to Ralstonia solanacearum in eggplant. Theor. Appl. Genet. 126: 143-158.
[5] Sunseri, F., A. Sciancalepore, G. Martelli, N. Acciarri, , G.L. Rotino, D Valentino,. and G. Tamietti, 2003. Development of RAPD-AFLP map of eggplant and improvement of tolerance to Verticillium wilt. In: Hammerschlag FA, Saxena P [eds] XXVI International Horticultural Congress: Biotechnology in Horticultural Crop Improvement. Acta Hortic. 625: 107-115.
[6] Nunome, T., K. Suwabe, H. ketani, and M. Hirai, 2003. Identification and characterization of microsatellites in eggplant. Plant Breed. 122: 256-262.
[7] Stàge, A., E. Portis, L. Toppino, G. L Rotino,. and S. Lanteri, 2008. Gene-based microsatellite development for mapping and phylogeny studies in eggplant. BMC Genome. 9 : 357.
[8] Nunome, T., S. Negoro, I. Kono, H. Kanamori, and K. Miyatake, 2009. Development of SSR markers derived from SSR-enriched genomic library of eggplant (Solanum melongena L.). Theor. Appl. Genet. 119: 1143–1153.
[9] Fukuoka, H., H. Yamaguchi, T. Nunome, S. Negoro, K. Miyatake, and A. Ohyama, 2010. Accumulation, functional annotation, and comparative analysis of expressed sequence tags in eggplant (Solanum melongena L.), the third pole of the genus Solanum species after tomato and potato. Gene. 450: 76-84.
[10] Muñoz‐Falcón, J. E., J. Prohens, S. Vilanova, F. Ribas, A. Castro, and F. Nuez, 2009. Distinguishing a protected geographical indication vegetable (Almagro eggplant) from closely related varieties with selected morphological traits and molecular markers. J. Sci. Food Agric. 89: 320-328.
[11] Powell, W., G. C. Machray, and J. Provan, 1996. Polymorphism revealed by simple sequence repeats. Trends Plant Sci. 1: 215-222.
[12] Frey, J.E., B. Frey, C. Sauer, and M. Kellerhals,. 2004. Efficient low cost DNA extraction and multiplex fluorescent PCR method for marker assisted selection in breeding. Plant Breed. 123:554-557.
[13] Liu, K. and S. V. Muse, 2005. PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics. 21: 2128-2129.
[14] Anderson,J.A., G.A. Churchill, J.E. Autrique, S.D. Tanksley and M.E. Sorrells, 1993. Optimizing parental selection genetic linkage maps. Genome, 36:181-186.
[15] Rohlf, F. J. 2001. NTSYS-pc. Numerical Taxonomy and Multivariance Analysis System, Version 2.02. Setauket, New York.
[16] Nei, M. 1972. Genetic distance between populations. Am. Nat. 106: 283-292.
[17] Khorsheduzzaman, A. K. M., M. Z. Alam, M. M. Rahman, M. A. K. Mian, M. I. H. Mian, and M. M. Hossain, 2008. Molecular characterization of five selected brinjal (Solanum melongena L.) genotypes using SSR markers. Bangladesh J. Plant Breed. Genet. 21: 01-06.
[18] Vilanova, S., M. Hurtado, A. Cardona, M. Plazas, F. J. Herraiz , P. Gramazio and J. Prohens, 2014. Genetic diversity and relationships in local varieties of eggplant from different cultivar groups as assessed by genomic SSR markers. Not. Bot. Horti. Agrobot. Cluj-Napoca. 42: 59.
[19] Vilanova, S., J.P. Manzur,. and J. Prohens, 2012. Development and characterization of genomic simple sequence repeat markers in eggplant and their application to the study of diversity and relationships in a collection of different cultivar types and origins. Mol. Breed. 30: 647-660.
[20] Kumchai, J., Y. C. Wei, C. Y. Lee, F. C Chen, and S. W. Chin, 2013. Production of interspecific hybrids between commercial cultivars of the eggplant (Solanum melongena L.) and its wild relative S. torvum. Genet. Mol. Res. 12: 755-64.
[21] Yousaf, Z., Y. Wang and E. Baydoun, 2013. Phytochemistry and pharmacological studies on Solanum torvum Swartz. J. Appl. Pharm. Sci. 3: 152-16.
[22] Caguiat, X. G. I. and D. M. Hautea, 2014. Genetic diversity analysis of eggplant (Solanum melongena L.) and related wild species in the Philippines using morphological and SSR markers. SABRAO J. Breed. Genet. 46: 183-201

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Cite this Article:

MLA

M. E. Hoque, Kashpia Tasrin et al."Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives". International Journal of Environment Agriculture and Biotechnology(ISSN: 2456-1878),vol 3, no. 5, 2018, pp.1562-1570 AI Publications doi:10.22161/ijeab/3.5.1

APA

M. E. Hoque, Kashpia Tasrin, P.(2018).Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives. International Journal of Environment Agriculture and Biotechnology(ISSN: 2456-1878).3(5), 1562-1570.10.22161/ijeab/3.5.1

Chicago

M. E. Hoque, Kashpia Tasrin, P.(2018).Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives. International Journal of Environment Agriculture and Biotechnology(ISSN: 2456-1878).3(5), pp.1562-1570.

Harvard

M. E. Hoque, Kashpia Tasrin. 2018."Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives". International Journal of Environment Agriculture and Biotechnology(ISSN: 2456-1878).3(5):1562-1570.Doi:10.22161/ijeab/3.5.1

IEEE

M. E. Hoque, Kashpia Tasrin."Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives", International Journal of Environment Agriculture and Biotechnology,vol.3,no. 5, pp.1562-1570,2018.

Bibtex

@article { m.e.hoque2018molecular,
title={Molecular characterization and DNA fingerprinting of some local eggplant genotypes and its wild relatives},
author={M. E. Hoque, Kashpia Tasrin , R},
journal={International Journal of Environment Agriculture and Biotechnology},
volume={3},
year= {2018} ,
}