Browse > Article
http://dx.doi.org/10.7732/kjpr.2019.32.3.244

Assessment of Genetic Diversity and Population Structure on Kenyan Sunflower (Helianthus annus L.) Breeding Lines by SSR Markers  

Mwangi, Esther W. (Food Crops Research Institute, Kenya Agricultural & Livestock Research Organization)
Marzougui, Salem (Institution de la Recherche et de l'Enseignement Superieur Agricoles, National Agricultural Research Institute, Compexe Universitaire)
Sung, Jung Suk (National Agrobiodiversity Center, National Institute of Agricultural Sciences RDA)
Bwalya, Ernest C. (Zambia Agricultural Research Institute)
Choi, Yu-Mi (National Agrobiodiversity Center, National Institute of Agricultural Sciences RDA)
Lee, Myung-Chul (National Agrobiodiversity Center, National Institute of Agricultural Sciences RDA)
Publication Information
Korean Journal of Plant Resources / v.32, no.3, 2019 , pp. 244-253 More about this Journal
Abstract
In crop breeding program, information about genetic dissimilarity on breeding resources is very important to corroborate genealogical relationships and to predict the most heterozygotic hybrid combinations and inbred breeding. This study aimed to evaluate the genetic variation in Kenyan sunflower breeding lines based on simple sequence repeat (SSR). A total of 83 alleles were detected at 32 SSR loci. The allele number per locus ranged from 2 to 7 with an average of 2.7 alleles per locus detected from the 24 sunflower accessions and the average value of polymorphic information contents (PIC) were 0.384. A cluster analysis based on the genetic similarity coefficients was conducted and the 24 sunflower breeding resources were classified into three groups. The principal coordinates (PCoA) revealed 34% and 13.38% respectively, and 47.38% of total variation. It was found that the genetic diversity within the Kenyan sunflower breeding resources was narrower than that in other sunflower germplasm resources, suggesting the importance and feasibility of introducing elite genotypes from different origins for selection of breeding lines with broader genetic base in Kenyan sunflower breeding program.
Keywords
EST-SSR; Genetic diversity; Population structure; Sunflower;
Citations & Related Records
Times Cited By KSCI : 3  (Citation Analysis)
연도 인용수 순위
1 Agrama H. and G. Eizenga. 2008. Molecular diversity and genome-wide linkage disequilibrium patterns in a worldwide collection of and its wild relatives. Euphytica 160(3):339-355. doi: 10.1007/s10681-007-9535-y.   DOI
2 Araneda, C., C. Correa, N. Lam, E. Uribe, M. Camiruaga and P. Iturra. 2004. Asignacion de paternidad-maternidad y parentesco en un plantel de avestruces (Struthio camelus), utilizando seis loci microsatelites polimorficos. Av. Produc. Anim. 29:3-14.
3 Ali, A., Y.M. Choi, D.Y. Hyun, S. Lee, J.H. Kim, S.S. Oh and M.C. Lee. 2017. Development of EST-SSRs and assessment of genetic diversity in little millet (Panicum sumatrense) germplasm. Korean J. Plant Res. 30(3):287-297.   DOI
4 Ali, A., Y.M. Choi, D.Y. Hyun, S. Lee, S. Oh, H.J. Park, Y.H. Cho and M.C. Lee. 2016. EST-SSR based genetic diversity and population structure among Korean landraces of foxtail millet (Setaria italica). Korean J. Plant Res. 29(3):322-330.   DOI
5 Berry, S.T, A.J. Leon, C.C. Hanfrey, P. Challis and S.R. Barnes et al.. 1995. Molecular marker analysis of Helianthus annus L 2. Construction of an RLFP linkage map for cultivated sunflower. Theor. Appl. Genet. 911:195-199.
6 Badouin, H., J. Gouzy, C.J. Grassa, F. Murat, D.E. Staton and L. Cottret et al.. 2017. The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution. Nature 546:148-152. doi: 10.1038/nature22380.   DOI
7 Bhat, P.R., K.V. Krishn, P.S. Hendre, P.K. Rajendra, R.K. Varshney and L.R. Aggarwa. 2005. Identification and characterization of expressed sequence tags-derived simple sequence repeats, markers from robusta coffee variety '$C{\times}R$' (an interspecific hybrid of Coffea canephora ${\times}$ Coffea congensis). Mol. Ecol. Notes 5:80-83.   DOI
8 Carla, V.F., A. Natalia, G.R. Juan, Z. Jeremias and P. Andrea et al.. 2015. Population structure and genetic diversity characterization of a sunflower association mapping population using SSR and SNP markers. BMC Plant Biol. 15:52 DOI 10.1186/s12870-014-0360-x.   DOI
9 Dehmer, K.J. and W. Fried. 2006. Evaluation of different microsatellite motifs for analysing genetic relationships in cultivated sunflower (Helianthus annuus L.). Plant Breeding 117(1):45-48.   DOI
10 DeWoody, J.A., L. Honeycutt and L.C. Skow. 1994. Microsatellite markers in white tailed deer. The J. of Heredity 86(4):317-319.
11 Dimitrijevic, A. and R. Horn. 2017. Sunflower hybrid breeding: from makers to genomic selection. Front. Plant Sci. 8:2238. Doi: 10.3389/fpls.2017.002238.   DOI
12 Evanno, G, S. Regnaut and J. Goudet. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol. Ecol. 14: 2611-2620.   DOI
13 Gupta, P.K., S. Rustg, S. Sharma, R. Singh, N. Kumar and H.S. Balyan. 2003. Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat. Mol. Genet. Genomics 270:315-23.   DOI
14 Fehr, W.R. 1991. Principles of Cultivar Development, Theory and Technique. Macmillan, New York Felsenstein, USA.
15 Gandhi, S.D., A.F. Heesacker, C.A. Freeman, K. Argyris, K. Bradford and S.J. Knapp. 2005. The self-incompatibility locus (S) and quantitative trait loci for self-pollination and seed dormancy in sunflower. Theor. Appl. Genet. 111:619-629.   DOI
16 Gentzbitel, L., F. Vear, Y.X. Zhang, A. Bevilla and P. Nicolas. 1995. Development of concentrated linkage RFLP map of cultivated sunflower Helianthus annus L Theor. Appl. Genet. 90:1079-1086.   DOI
17 Heesacker, A., V.K. Kishore, W. Gao, S. Tang, J.M Kolkman, A. Gingle, M. Matvienko, A. Kozik, R.M. Michelmore, Z. Lai, L.H. Rieseberg and S.J. Kanpp. 2008. SSRs and INDELs mined from the sunflower EST database: abundance, polymorphisms and cross pyaxa utility. Theor. Appl. Genet. 117:1021-1029.   DOI
18 Jan, C.C., B.A. Vick, J.K. Miller, A.L. Kahler and ET.I. Butler. 1998. Construction of an RFLP linkage map for cultivated sunflower. Theor. Appl. Genet. 96(1):15-22.   DOI
19 Kalinowski, S.T., M.L. Taper & T.C. Marshall. 2007. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol. Ecol., 16: 1099-1106.   DOI
20 Mandel, J.R., J.M. Dechaine, L.F. Marek and J.M. Burke. 2011. Genetic diversity and population structure in cultivated sunflower and a comparison to its wild progenitor, Helianthus annuus L. Theor. Appl. Genet. 123:693-704.   DOI
21 Peakall, R and P.E. Smouse. 2012. GenALEx 6.5: Genetic analysis in Excel. Population genetic software for teaching and research-An update. Bioinformatics 28:2537-2539.   DOI
22 Melchinger, A.E., M.M. Messmer, M. Lee, W.L. Woodman and K.R. Lamkey. 1991, Diversity and relationships among U.S. maize inbreds revealed by restriction by restriction fragments length polymorphisms. Crop Sci. 31:6669-678.
23 Moreno, M.V., V. Nishinakamasu, M.A. Loray, D. Alvarez, J. Gieco, A. Vicario, H.E. Hopp, R.A. Heinz, N. Paniego and V.V. Lia. 2013. Genetic characterization of sunflower breeding resources from Argentina: assessing diversity in key open-pollinated and composite populations. Plant Genetic Resources 11(3):238-249.   DOI
24 Paniego, M., M. Echaid, M. Munoz, L. Fernandez, S. Torales, P. Faccio, I. Fuxan, M. Carrera, R. Zandomeni, E.Y. Suarez and H. Hopp. 2002. Microsatellite isolation and characterization in sunflower (Helianthus annus L.). Genome 45:34-43.   DOI
25 Pashley, C.H, J.R. Ellis, D.E. McCauley and J.M. Burke. 2006. EST databases a source for molecular markers: Lessons from Helianthus. J. Hered. 97:381-388.   DOI
26 Perrier, X. and J.P Jacquamoud-collect. 2006. DARWin software htt://Darwin.cirad.fr/.
27 Pritchard, J.K., M. Stephens and P. Donnelly. 2000. Inference of population structure using multi. locus genotype data. Genetics 155:945-959.   DOI
28 Rauf, S.J, N. Jamil, S.T. Ali, M. Khan and M. Kausal. 2017. Progress in modification of sunflower oil to expand its industrial value. J. Sci. Food Agri. 97:1997-2006.   DOI
29 Rieseberg, L.H., H. Choi, R. Chan and C. Spore. 1993. Genomic map of diploid hybrid species. Heredit. 70:285-285.   DOI
30 Sahranavard, A.F., R. Darvishzadel, M. Ghadimzadel, H. Azizi and Z. Aboulghasemi. 2015. Identification of SSR loci related to some important agro morphological traits in different oil sunflower (Helianthus annuus L.) lines using association mapping. J. Plant Gene. Res. 2:15-32.
31 Saitou, N and M. Nei. 1987. The neighbor-joining method: a new method for construction phylogenetic tree. Mol. Biol. Evol. 4:406-425.
32 Tang, S., V.K. Kishore and S.J. Knapp. 2003b. PCR-multiplexes for a genome-wode framework of simple sequence repeat marker loci in cultivated sunflower. Theor. Appl. Genet. 107:6-19.   DOI
33 Song, J.Y., J.R. Lee, S. Oh, C.Y. Kim, C.H. Bae, G.A. Lee, K.H. Ma, Y.M. Choi, H.J. Park and M.C. Lee. 2012. Assessment of genetic diversity and fatty acid composition of perilla (Perilla frutescens var. frutescens) germplasm. Korean J. Plant Res. 25(6):762-772.   DOI
34 Stanton, M.A., J.M. Stewart, A.E. Percival and J.F. Wandel. 1994. Morphological diversity and relationships in A-genome cottons, Gossypium arboreum and Gossypium herbaceum. Crop Sci. 34:519-527.   DOI
35 Tang, S., and S.J. Knapp. 2003a. Microsatellite uncover extraordinary diversity in native American land races and wild populations of cultivated sunflower. Theor. Appl. Genet. 106:990-1003.   DOI
36 Vigouroux, Y., J. Glaubitz, Y. Matsuoka, M.M. Goodman, G.J. Sanchez and J. Doebley. 2008. Population structure and genetic diversity of New World maize races assessed by DNA microsatellites. Am. J. Bot. 95:1240-1253.   DOI
37 Yu, J.K., J. Mangor, L. Thompson, K.J. Edward, M.B. Slabaugh and S.J. Knapp. 2002. Allelic diversity of simple sequence repeat markers among elite inbred lines in cultivated sunflower. Genome 45:652-660.   DOI