Studying genetic diversity in confectionary sunflower (Helianthus annuus L.) by using microsatellit markers

Jannatdoust, Marjan; Darvishzadeh, Reza; Ebrahimi, Mohammad Ali

Studying genetic diversity in confectionary sunflower (Helianthus annuus L.) by using microsatellit markers

Document Type : Research Paper

Authors

¹ Institute of Biotechnology, Urmia University, Urmia, Iran

² Associate Professor, Department of Plant Breeding and Biotechnology, Urmia University, Urmia, Iran,

³ Associate Professor, Department of Agricultural Biotechnology, Payame Noor University, Tehran, Iran.

Abstract

In this study, genetic variability among and within 50 confectionery sunflower populations was investigated using 10 microsatellite markers (SSR). The number of alleles per locus ranged from 2 to 3 with an average of 2.1. The number of effective alleles per locus was estimated from 1.948 (locus ORS785) to 1.468 (locus ORS1088) with an average of 1.825. The highest expected heterozygosity (0.484) was estimated for ORS785 locus and the lowest one (0.268) estimated for ORS1088. The mean of expected and observed heterozygosity was 0.435 and 0.722, respectively. Polymorphic information content varied between 0.572 in ORS785 locus and 0.334 in ORS1088 with an average of 0.503. A principal co-ordinates analysis (PCoA) showed that the first two Eigen-values explained 31.71% of the cumulative variation. Cluster analysis based on complete algorithm and Nei genetic distance grouped the studied populations in 3 main classes. Analysis of molecular variance revealed that the high part of total variation was due to within populations. So it will be better to do selection within populations in breeding programs.

Keywords

20.1001.1.22520783.1393.4.6.6.0

Main Subjects

Genomics

References

Abdurakhmonov IY, Kohel RJ, Yu JZ, Pepper AE, Abdullaev AA, Kushanov FN, Salakhutdinov IB, Buriev ZT, Saha S, Schefﬂer BE, Jenkins JN, Abdukarimov A (2008) Molecular diversity and association mapping of ﬁber quality traits in exotic G. hirsutum L. germplasm. Genomics. 92: 478–487.

Anderson JA, Churchill GA, Autrique JE, Tanksley SD, Sorrells ME (1992) Optimizing parental selection for genetic linkage maps. Genome, 36: 181–186.

Basirnia A, Darvishzadeh R, Abdollahi Mandoulakani B, Nabipur A (2014) Assessment of genomic diversity in confectionary sunflower populations (Helianthus annuus L.) by using retrotransposon based IRAP markers. Journal of Agricultural Biotechnology, 6(1): 19-34.

Binneck E, Nedel JL, Dellagostin OA (2002) RAPD analysis on cultivar identification: a useful methodology? Revista Brasileira de Sementes, 24: 183-196.

Boef WS, Berg T, Haverkort B (1996) Crop Genetic Resources. Biotechnology: Building on Farmers’ Knowledge, Bunders, J., Haverkort, B., Hiemstra, W, (Eds) London: Macmillan. Pp: 103–128.

Dadras AR, Sabouri H, Mohammadi Nejad G, Sabouri A, Shoai-Deylami M (2014) Association analysis, genetic diversity and structure analysis of tobacco based on AFLP markers. Molecular Biology Reports, 41(5): 3317-29.

Darvishzadeh R, Azizi M, Hatami-Maleki H, Bernousi I, Abdollahi Mandoulakani B, Jafari M, Sarrafi A (2010) Molecular characterization and similarity relationships among sunflower (Helianthus annuus L.) inbred lines using some mapped simple sequence repeats. African Jourbnal of Biotechnology, 9(43): 280-7288.

Dong GJ, Liu GS, Li KF (2007) Studying genetic diversity in the core germplasm of confection sunflower (Helianthus annuus L.) in China based on AFLP and morphological analysis. Russian Journal of Genetic, 43: 627-635.

Duca M, Port A, Şestacova T, Siniauskaya M, Aksyonova E, Davydenko O (2013) microsatellite marker applicatio in sunflower (Helianthus annuus L.) fingerpirning. Biotechnology and Biotechnological Equipment, 27(3): 3772-3775.

Fusari CM, Rienzo JAD, Troglia C, Nishinakamasu V, Moreno MV, Maringolo C, Quiroz F, Álvarez D, Escande A, Hopp E, Heinz R, Lia VV, Paniego NB (2012) Association mapping in sunflower for sclerotinia head rot resistance. BMC Plant Biology, 12(93): 1-13.

Garayalde AF, Poverene M, Cantamutto M, Carrera AD (2011) Wild sunflower diversity in Argentina revealed by ISSR and SSR markers: an approach for conservation and breeding programmes. Annals of Applied Biology, 158: 305–317.

Garcia AAF, Benchimol LL, Barbosa AMM, Geraldi IO (2004) Comparison of RAPD, RFLP, AFLP and SSR markers for diversity studies in tropical maize inbred lines. Genetics and Molecular Biology, 27: 579-588.

Gharghani A, Zamani Z, Talaie A, Oraguzie NC, Fatahi R, Hajnajari H, Wiedow C, Gardiner SE (2009) Genetic identity and relationships of Iranian apple (Malus× domestica) cultivars and landraces, wild Malus species and representative old apple cultivars based on simple sequence repeats (SSR) marker analysis. Genet Resource and Crop Evolution, 13: 1-14.

Goncalves LSA, Sudre CP, Bento CS, Moulin MM (2008) Divergencia genetica em tomate estimada por marcadores RAPD em comparacao com descritores multicategóricos. Horticultura Brasileira, 26: 364-370.

Goncalves LS, Rodrigues R, do Amaral Junior AT, Karasawa M (2009) Heirloom tomato gene bank: assessing genetic divergence based on morphological, agronomic and molecular data using a Ward-modified location model. Genetics and Molecular Research, 8: 364-374.

Hvarleva TZ, Bakalova A, Chepinski I, Hristova-Cherbadji M, Hristov M, Atanasov A (2007) Characterization of Bulgarian sunflower cultivars and inbred lines with microsatellite markers. Biotechnology and Biotechnological Equipment. 21: 408-412.

Kalia RK, Rai MK, Kalia S, Singh R, Dhawan AK (2011) Microsatellite markers: an overview of the recent progress in plants. Euphytica. 177: 309–334.

Kholghi M, Darvishzadeh R, Bernousi I, Pirzad A, Laurentin H (2012) Assessment of genomic diversity among and within Iranian confectionery sunflower (Helianthus annuus L.) populations by using simple sequence repeat markers, Acta Agriculturae Scandinavica, Section B - Soil & Plant Science. 62: 488-498.

Laurentin H (2009) Data analysis for molecular characterization of plant genetic resources. Genetic Resources and Crop Evolution. 56: 277-292.

Lu G, Hoeft E (2007) Sunflower. In C. Kole, & T. C. Hall (eds.), A compendium of transgenic crop plants Vol. 2, Oxford, Wiley-Blackwell.

Mohammadi SA, Prasanna BM (2003) Analysis of genetic diversity in crop plantssalient statistical tools and considerations. Crop Science. 43: 1235-1248.

Naseri L, Darvishzadeh R, Mohseniazar M, Alizadeh A (2011) Molecular characterization and similarity relationships among some Iranian native and commercial apple (Malus × domestica) cultivars using simple sequence repeat markers. Juornal of Horticulture Science and Biotechnology. 86(5): 527-533.

Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics. 89: 583-590.

Paniego N, Muñoz M, Echaide M, Fernandez L, Faccio P, Zandomeni R, Suarez E, Hopp E (1999) Microsatellite development for sunflower. Plant and Animal Genome VII Conf., San Diego: Starford Univ. Press.

Peakall, R. and Smouse P. E. (2006). GenAlEx 6: Genetic Analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6: 288-295.

Popov VN, Yu Urbanovich O, Kirichenko VV (2002) Studying Genetic Diversity in Inbred Sunflower Lines by RAPD and Isozyme Analyses. Russian Journal of Genetics. 38: 785–790.

Reif JC, Gumpert F, Fischer S, Melchiger AE (2007) Impact of Interpopulation Divergence on Additive and Dominance Variance in Hybrid Populations. Genetics, 176: 1931–1934.

Saker MM, Youssef SS, Abdallah NA, Bashandy HS (2005). Genetic analysis of some Egyptian rice genotypes using RAPD, SSR and AFLP. African Journal of Biotechnology, 4: 882-890.

Shehzad T, Iwata H, Okuno K (2009) Genome-Wide association mapping of quantitative traits in sorghum (Sorghum bicolor (L.) Moench) by using multiple models. Breeding Science, 59: 217-227.

Smith JSC, Hoeft E, Cole G, Lu H, Jones ES, Wall SJ, Berry DA (2009) Genetic diversity among U.S. sunflower inbreds and hybrids: assessing probability of ancestry and potential for use in plant variety protection. Crop Science, 49: 1295-1303.

Solomon KF, Labuschagne MT, Viljoen CD (2007) Estimates of heterosis and association of genetic distance with heterosis in durum wheat under different moisture regimes. Journal of Agricultural Science, 145: 239-248.

Souza SGH, Carpentieri-Pípolo V, Ruas CF, Carvalho VP (2008) Comparative analysis of genetic diversity among the maize inbred lines (Zea mays L.) obtained by studying genetic relationships in Lactuca spp. Theoretical and Applied Genetics, 93: 1202–1210.

Sudre CP, Leonardecz E, Rodrigues R, Amaral Júnior AT (2007) Genetic resources of vegetable crops: a survey in the Brazilian germplasm collections pictured through papers published in the journals of the Brazilian Society for Horticultural Science. Horticultura Brasileira, 25: 496-503.

Tang S, Knapp SJ (2003) Microsatellites uncover extraordinary diversity in Native American land races and wild populations of cultivated sunflower. Theoretical and Applied Genetics, 106: 990-1003.

Thornsberry JM, Goodman MM, Doebley J, Kresovich S, Nielsen D, Buckler ES (2001) Dwarf8 polymorphisms associate with variation in flowering time. Nature Genetics, 28: 286–289.

Wilcox PL, Echt EC, Burdon RD (2007) Gene-assisted selection: applications of association genetics for forest tree breeding. In: Oraguzie NC, Rikkerink EHA, Gardiner SE, De Silva HN, editors. Association mapping in plants. New York: Springer; p. 211–247.

Yu JK, Mangor J, Thompson L, Edwards KJ, Slabaugh MB, Knapp SJ (2002) Allelic diversity of simple Assessment of genomic diversity among and within Iranian confectionery sunflower 497 sequence repeats among elite inbred lines of cultivated sunflower. Genome, 45: 652-660.

Zhang LS, Le Clerc V, Zhang D and Li S (2005) Establishment of an effective set of simple sequence repeat markers for sunflower variety identification and diversity assessment. Canadian Journal of Botany, 83: 66–72.