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Development and Genotyping Potentials of EST-SSRs in Finger Millet (E. Coracana (L.) Gaertn.)
International Journal of Genetics and Genomics
Volume 2, Issue 3, June 2014, Pages: 42-46
Received: May 14, 2014; Accepted: May 29, 2014; Published: Jun. 10, 2014
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Oscar Nnaemeka Obidiegwu, Institute of Plant Production and Agroecology in the Tropics and Subtropics, University of Hohenheim, Stuttgart, 70593, Germany
Heiko Parzies, Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim, Stuttgart, 70593, Germany
Jude Ejikeme Obidiegwu, National Root Crops Research Institute, Umudike, PMB 7006, Abia State, Nigeria
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Finger millet (E. coracana (L.) Gaertn.) provides food for millions of people in Africa and Asia. In this study, sequence data were mined at the database of National Center for Biotechnology Information (NCBI) with the aim of developing polymorphic expressed sequence tags simple sequence repeat (EST-SSRs) markers. Three selected markers which showed clear polymorphism in pre-testing with 5 accessions were used to characterize some randomly selected 48 accessions from the pool of finger millet core set. The polymorphic information content (PIC) of the developed markers gave a value range of 0.6741 for marker UH-Ec-931 to 0.7658 for marker UH-Ec-958. The mean PIC value of 0.7171 was recorded. Marker UH-Ec-958 showed 13 alleles per locus while marker UH-Ec-956 showed 20 alleles per locus. The mean average allele per locus was 17. Following Nei’s approach, the mean gene diversity value of 0.7638 was captured by the three markers. Cluster analysis for the 48 selected accessions of finger millet showed four major clusters. Accessions from Zimbabwe and Zambia are distributed on the cluster I. Accessions from India are mostly found in cluster IV. Accessions from Nepal were found mostly on cluster III while Ugandan accessions are found in cluster II and III respectively. Our investigation showed that the developed EST-SSRs are quite effective in unraveling the nature of diversity in our studied population.
EST-SSRs, Finger Millet (E. Coracana (L.) Gaertn.), Gene Diversity, Polymorphic Information Content (PIC)
To cite this article
Oscar Nnaemeka Obidiegwu, Heiko Parzies, Jude Ejikeme Obidiegwu, Development and Genotyping Potentials of EST-SSRs in Finger Millet (E. Coracana (L.) Gaertn.), International Journal of Genetics and Genomics. Vol. 2, No. 3, 2014, pp. 42-46. doi: 10.11648/j.ijgg.20140203.12
MM. Dida, N. Wanyera, MLH. Dunn, JL. Bennetzen, KM. Devos, "Population structure and diversity in finger millet (Eleusine coracona) germplasm". Trop. Plant. Biol. Vol. 1, pp.131–141, 2008
HD. Upadhyaya, NDRK. Sarma, CR. Ravishankar, T. Albrecht, Y. Narasimhudu, SK. Singh, SK. Varshney, VG. Reddy, S. Singh, SL. Dwivedi, N. Wanyera, COA. Oduri, MA. Mgonja, DB. Kisandu, HK. Parzies, CLL. Gowda, " Developing minicore collection in finger millet using mul-ti-location data". Crop. Sci. Vol. 50, pp. 1924-1931, 2010
National Research Council, "Finger millet, In FR Ruskin, eds, Lost crops of Africa, Grains" Nat. Acad. Press. USA. Vol. 1, pp. 39–58,1996
KW. Hilu, JMJ. deWet, "Domestication of Eleusine coracana" Econ. Bot. Vol. 30, pp. 199–208, 1979
B. Babu, N. Senthil, S. Gomez, K. Biji, N. Rajendraprasad, S. Kumar, R. Babu, "Assessment of genetic diversity among finger millet (E. coracana (L.) Gaertn.) acces-sions using molecular markers". Genet. Resour. Crop. Evol. Vol. 54, pp. 399–404, 2007
M. Dida, M. Srinivasachary, S. Ramakrishnan, JL. Bennetzen, MD. Gale, KM. Devos, "The genetic map of finger millet, Eleusine coracana" Theor. Appl. Genet. Vol. 114, pp. 321–332, 2007
R. Gupta, K. Verma, DC. Joshi, D. Yadav, M. Singh, "Assessment of genetic related-ness among three varieties of finger millet with variable seed coat color using RAPD and ISSR markers". Genet. Eng. Biotech. J. Vol. 2, pp. 1-5, 2010
K. Bezaweletaw, "Genetic diver-sity of finger millet (E. coracana (L.) Gaertn.) landraces characterized by random amplified poly-morphic DNA analysis" Inn. Sys. Des. Eng. Vol. 2(4), pp. 207-217, 2011
KD. Scott, P. Eggler, G. Seaton, M. Rossetto, EM. Ablett, LS. Lee, RJ. Henry, "Analysis of SSRs derived from grape ESTs" Theor. Appl. Genet. Vol. 100, pp. 723-726, 2000
C. Chen, P. Zhou, YA. Choi, S. Huang, FG. Jr. Gmitter, "Mining and characterizing microsatelites from Citrus ESTs" Theor. Appl. Genet. Vol.112, pp. 1248-1257, 2006
HD. Upadhyaya, CLL. Gowda, RPS. Pundir, VG. Reddy, S. Singh, "Development of core subset of finger millet germplasm using geographical origin and data on 14 quantitative traits" Genet. Resour. and Crop Evol. Vol. 53, pp. 679–685, 2006
JJ. Doyle "DNA protocols for plants-CTAB total DNA isolation", In molecular techniques in Taxonomy, GM Hewitt , eds , Springer, Germany, 1991
AFA. Smit, R. Hubley, P. Green, "Repeat-Masker Open-3.0.", 2004
P. Miller, "Tools for population genetic analysis (TFPGA) 1.3, a windows program for the analysis of allozyme and molecular pop-ulation genetic data", 1997
M. Nei, "Analysis of gene diversity in subdivided populations" Proc. Nat. Acad. Sci. Vol.70 (12), pp. 3321-3323, 1973
D. Botstein, RL. White, M. Skolnick, RW. Davis, "Construction of a genetic linkage map in man using restriction fragment length poly-morphisms" Am. J. Hum. Genet. Vol. 32, pp. 314-331, 1980
P. Panwar, M. Nath, VK.Yadav, A. Kumar, "Comparative evaluation of genetic diversity using RAPD, SSR and cytochome P450 gene based markers with respect to calcium content in finger millet (Eleusine coracana L. Gaertn.)". J. Genet. Vol. 89, pp. 121–133, 2010
M. Nirgude, BB. Kalyana, Y. Shambhavi, UM. Singh, HD. Upadhyaya, A. Kumar, "Development and molecular characterization of genic molecular markers for grain protein and calcium content in finger millet (Eleusine coracana (L.) Gaertn.)" Mol. Biol. Rep. DOI-10.1007/s11033-013-2825-7.
KW. Hilu, JMJ. de Wet, JR. Harlan, " Archaeobotanical studies of Eleusine coracana". Am. J. Bot. Vol. 66, pp. 330- 333, 1976
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