Application of EST-SSRs to examine genetic diversity in eggplant and its close relatives

Within the genus Solanum, the term 'eggplant' encompasses several cultivated species that are used for food and, to a lesser extent, for medicine. The use of one common name to describe more than one species and the existence of many related wild species have led to taxonomic confusion which, in turn, have complicated analyses of evolutionary relationships and genetic diversity within this groups of species. A further challenge for eggplant research is that, despite the fact that the use of molecular markers for phylogenetic studies is well-established, very few studies have described the development of new markers for eggplant. In our work, genic microsatellite (SSR) markers were identified from an expressed sequence tag library of S. melongena and used for analysis of 47 accessions of eggplant and closely related species. The markers had very good polymorphism in the 18 species tested including 8 S. melongena accessions. Moreover, genetic analysis performed with these markers showed concordance with previous research and knowledge of eggplant domestication. These markers are expected to be a valuable resource for studies of genetic relationships, fingerprinting, and gene mapping in eggplant.

Application of EST-SSRs to examine genetic diversity in eggplant and its close relatives

Within the genus Solanum, the term 'eggplant' encompasses several cultivated species that are used for food and, to a lesser extent, for medicine. The use of one common name to describe more than one species and the existence of many related wild species have led to taxonomic confusion which, in turn, have complicated analyses of evolutionary relationships and genetic diversity within this groups of species. A further challenge for eggplant research is that, despite the fact that the use of molecular markers for phylogenetic studies is well-established, very few studies have described the development of new markers for eggplant. In our work, genic microsatellite (SSR) markers were identified from an expressed sequence tag library of S. melongena and used for analysis of 47 accessions of eggplant and closely related species. The markers had very good polymorphism in the 18 species tested including 8 S. melongena accessions. Moreover, genetic analysis performed with these markers showed concordance with previous research and knowledge of eggplant domestication. These markers are expected to be a valuable resource for studies of genetic relationships, fingerprinting, and gene mapping in eggplant.

___

  • Doganlar S, Frary A, Daunay MC et al. A comparative genetic linkage map of eggplant (Solanum melongena) and its implication for genome evolution in the Solanaceae. Genetics 161: 1697-1711, 2002.
  • Doganlar S, Frary A, Daunay MC et al. Conservation of gene function in the Solanaceae as revealed by comparative mapping of domestication traits in eggplant. Genetics 161: 1713-1726, 2002.
  • Frary A, Doganlar S, Daunay MC et al. QTL analysis of morphological traits in eggplant and its implications for conservation of gene function during evolution of solanaceous species. Th eor Appl Genet 107: 359-370, 2003.
  • Frary A, Doganlar S, Daunay MC. Eggplant. In: C Kole ed. Genome Mapping and Molecular Breeding in Plants. Springer Acad Press; 2007; pp. 287-314.
  • Mutlu N, Boyacı FH, Göçmen M et al. Development of SRAP, SRAP-RGA, RAPD and SCAR markers linked with a Fusarium wilt resistance gene in eggplant. Th eor Appl Genet 117: 1303
  • Mace ES, Lester RN, Gebhardt CG. AFLP analysis of genetic relationships among the cultivated eggplant, Solanum melongena L., and wild relatives (Solanaceae). Th eor Appl Genet 99: 626-633, 1999.
  • Nunome T, Suwabe K, Ohyama A et al. Characterization of trinucleotide microsatellites in eggplant. Breeding Science 53: 77-83, 2003.
  • Furini A, Wunder J. Analysis of eggplant (Solanum melongena)- related germplasm: morphological and AFLP data contribute to phylogenetic interpretations and germplasm utilization. Th eor Appl Genet 108: 197-208, 2004.
  • Prohens J, Blanca JM, Nuez F. Morphological and molecular variation in a collection of eggplants from a secondary center of diversity: implications for conservation and breeding. J Am Soc Hort Sci 130: 54-63, 2005.
  • Singh AK, Singh M, Singh AK et al. Genetic diversity within the genus Solanum (Solanaceae) as revealed by RAPD markers. Curr Sci 90: 711-716, 2006.
  • Stàgel A, Portis E, Toppino L et al. Gene-based microsatellite development for mapping and phylogeny studies in eggplant. BMC Genomics 9: 357, 2008.
  • Daunay MC, Dalmon A, Lester RN. Management of a collection of Solanum species for eggplant (Solanum melongena L.) breeding purposes. In: M Nee, Lester RN, JP Jessop ed. Solanaceae IV, Advances in Biology and Utilization (Eds.). Royal Botanic Gardens, Kew; 1999: pp. 369-383.
  • Weese TL, Bohs L. A three gene phylogeny of the genus Solanum (Solanaceae). Systematic Botany 32: 445-463, 2007.
  • Levin RA, Myers NR, Bohs L. Phylogenetic relationships among the “Spiny Solanums” (Solanum subgenus Leptostemonum, Solanaceae). Amer J Bot 93: 157-169, 2006.
  • Jones N, Ougham H, Th omas H. Markers and mapping: we are all geneticists now. New Phytol 137: 165-177, 1997.
  • Varshney RK, Graner A, Sorrells ME. Genic microsatellite markers in plants: features and applications. Trends in Biotechnology 23: 48-55, 2005.
  • Areshchenkova T, Ganal MW. Long tomato microsatellites are predominantly associated with centromeric regions. Genome 42: 536-544, 1999.
  • Powell W, Machray GC, Provan J. Polymorphism revealed by simple sequence repeats. Trends in Plant Sci 1: 215-222, 1996.
  • Mohan M, Nair S, Bhagwat A et al. Genome mapping, molecular markers and marker-assisted selection in crop plants. Mol Breed 3: 87-103, 1997.
  • Lester RN, Niakan L. 1986 Origin and domestication of the scarlet eggplant, Solanum aethiopicum, from S. anguivi in Africa. In: Solanaceae: Biology and Systematics. ( Ed. WG D’Arcy). Columbia Univ Press. New York: pp. 433-456, 1986.
  • Lester RN, Hasan SMZ. Origin and domestication of the brinjal-eggplant, Solanum melongena, from S. incanum in Africa and Asia. In: JG Hawkes, RN Lester, M Nee, N Estrada-R ed. Solanaceae III Taxonomy, Chemistry, Evolution. Royal Botanic Gardens, Kew; 1991: pp. 369-387.
  • Schuelke M. An economic method for the fl uorescent labeling of PCR fragments. Nature Biotechnology 18: 233-234, 2000.
  • Dice LR. Measures of the amount of ecological association between species. Ecology 26: 297-302, 1945.
  • Mantel N. Th e detection of disease clustering and a generalized regression approach. Cancer Res 27: 209-220, 1967.
  • Cho YG, Ishii T, Temnykh S et al. Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa). Th eor Appl Genet 100: 713-722, 2000.
  • Th iel T, Michalek W, Varshney RK et al. Exploiting EST databases for the development and characterization of gene-derived SSR markers in barley (Hordeum
  • vulgare L.). Th eor Appl Genet 106: 411-422, 2003.
  • Metzgar D, Bytof J, Willis C. Selection against frameshift mutations limits microsatellite expansion in coding DNA. Genome Res 10: 72-80, 2000.
  • Nunome T, Suwabe K, Iketani H et al. Identifi cation and characterization of microsatellites in eggplant. Plant Breeding 122: 256-262, 2003.
  • Smulders MJ, Bredemeijer G, Rus-Kortekaas W et al. Use of short microsatellites from database sequences to generate polymorphisms among Lycopersicon esculentum cultivars and accessions of other Lycopersicon species. Th eor Appl Genet 97: 264-272, 1997.
  • He C, Poysa V, Yu K. Development and characterization of simple sequence repeat (SSR) markers and their use in determining relationships among Lycopersicon esculentum cultivars. Th eor Appl Genet 106: 363-373, 2003.
  • Frary A, Xu Y, Liu J et al. Development of a set of PCR- based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments. Th eor Appl Genet 111: 291-312, 2005.
  • Mohammadi SA, Prasanna BM. Analysis of genetic diversity in crop plants-salient statistical tools and considerations. Crop Sci 43: 1235-1248, 2003.
  • Sakata Y, Lester RN. Chloroplast DNA diversity in eggplant (Solanum melongena) and its related species S. incanum and S. marginatum. Euphytica 80: 1-4, 1994.
  • Sakata Y, Lester RN. Chloroplast diversity in brinjal eggplant (Solanum melongena L.) and related species. Euphytica 97: 295
  • Isshiki S, Okuba H, Fujieda K. Phylogeny of eggplant and related Solanum species constructed by allozyme variation. Scientia Horticulturae 59: 171-176, 1994.
  • Isshiki S, Okuba H, Fujieda K. Genetic control of isozymes in eggplant and its wild relatives. Euphytica 80: 145-150, 1994.
  • Isshiki S, Okuba H, Oda N et al. Isozyme variation in eggplant (Solanum melongena L.). J Japan Soc Hort Sci 63: 115-120, 1994.
  • Karihaloo JL, Brauner S, Gottlieb LD. Random amplifi ed polymorphic DNA variation in the eggplant. Th eor Appl Genet 90: 767-770, 1995.
  • Lester RN, Jaeger PML, Bleijendaal-Spierings BHM et al. African eggplants: a review
  • of collecting in West Africa. Plant Gen Res Newsl 81/82: 17-26, 1990.
  • Daunay MC. Eggplant. In: J Prohens, F Nuez ed. Handbook of Crop Breeding, Vol Vegetables: Fabaceae, Liliaceae, Umbelliferae and Solanaceae. Springer; 2008: pp. 163-220.
  • Rudd S. Expressed sequence tags: alternative or complement to whole genome sequences. Trends in Plant Sci 8: 321-329, 2003.
  • Nunome T, Ishiguro K, Yoshida T et al. Mapping of fruit shape and color development traits in eggplant (Solanum melongena L.) based on RAPD and AFLP markers. Breed Sci 51: 19-26, 2001.
Turkish Journal of Biology-Cover
  • ISSN: 1300-0152
  • Yayın Aralığı: Yılda 6 Sayı
  • Yayıncı: TÜBİTAK
Sayıdaki Diğer Makaleler

Prevalence of hermoactinomyces thalpophilus and T. sacchar i strains with biotechnological potential at hot springs and soils from West Anatolia in Turkey

Ataç UZEL, Erdal BEDİR, E. Esin Hameş KOCABAŞ

Possible seasonal variation of the fatty acid composition from Melanopsis praemorsa (L., 1758) (Gastropoda: Prosobranchia), from southeast Anatolia, Turkey

İhsan EKİN, Mehmet BAŞHAN, Rıdvan ŞEŞEN

Chromosome aberrations induced by curcumin and aloin in Allium cepa L. root meristem cells

Loganathan PALANIKUMAR, İrulappan RAGUNATHAN, Natarajan PANNEERSELVAM

Inluence of salinity on the growth and heavy metal accumulation capacity of Spirodela polyrrhiza (Lemnaceae)

Zeliha LEBLEBİCİ, Fatih DUMAN, Ahmet AKSOY

Positive correlation between malathion resistance and fecundity within natural populations of Drosophila melanogaster

Burcu Koçak MEMMİ, Emel ATLI

Influence of process parameters on the production of detergent compatible alkaline protease by a newly isolated Bacillus sp. Y.

Shivakumar SRIVIDYA, Majumdar MALA

The antioxidant and DNA protection potential of Indian tribal medicinal plants

Gunjan GUHA, Venkatadri RAJKUMAR, Lazar MATHEW, R. Ashok KUMAR

Spectrum and frequency of macromutations induced in chickpea (Cicer arietinum L.)

Aijaz A. WANI

Evaluation of antibacterial, antifungal, antiviral, and antioxidant potentials of some edible oils and their fatty acid profiles

İlkay ORHAN, - *, Berrin ÖZÇELİK, Bilge ŞENER

Evaluation of antibacterial, antifungal, antiviral, and antioxidant potentials of some edible oils and their fatty acid proiles

Bilge ŞENER, İlkay ORHAN, Berrin ÖZÇELİK