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Molecular Markers EST-SSRs for Genotype-Phenotype Association in Sugarcane

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Abstract

Sugarcane supplies raw material for several by-products, speciality sugar and ethanol is highly productive, but presents high phenotypic variability due to its genetic complexity, polyploidy and gene duplication; these factors limit genetic advances and productivity gains. The application of linkage disequilibrium (LD)-based association mapping is an alternative powerful molecular tool to dissect and exploit the genetic diversity in sugarcane and greatly accelerating plant breeding marker-assisted selection (MAS) programs. However, the extent of genome-wide LD has not been determined in sugarcane. We select nine genes coding for agronomic traits of interest and primers EST–SSRs was obtained for application in 80 improved genotypes and in 16 non-improved genotypes with phenotype identified from vegetative growth, biomass accumulation and sugars was obtained 210 amplicons of which 115 were polymorphic, on average 23.2 alleles was obtained in the each primer combination and the polymorphism information content was between 0.48 and 0.69. The genotypic analysis structured five groups with genetic distance of ~0.8 between different groups. Genotype-phenotype expression was detected with allele-specific with distance 5–43 cM of agronomic trait. These ESTs–SSRs allele-specific can be appointed to the MAS in sugarcane plant breeding.

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Acknowledgments

To CNPq and FAPERJ for financial support and for providing RIDESA genetic resource.

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Authors and Affiliations

  1. Department Of Genetics, Biotechnology and Plant Sanity Post-Graduation Program, Federal Rural University of Rio de Janeiro, Seropédica, RJ, Brazil

    Valdir Diola & E. C. Fernandes

  2. Department of Crop Science, Federal University of Viçosa, Viçosa, MG, Brazil

    M. H. P. Barbosa

  3. Campus de Campos dos Goytacases da UFRRJ, Federal Rural University of Rio de Janeiro, Campos dos Goytacases, Seropédica, RJ, Brazil

    C. F. M. Veiga

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  1. Valdir Diola
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  2. M. H. P. Barbosa
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  3. C. F. M. Veiga
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  4. E. C. Fernandes
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Correspondence to Valdir Diola.

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Diola, V., Barbosa, M.H.P., Veiga, C.F.M. et al. Molecular Markers EST-SSRs for Genotype-Phenotype Association in Sugarcane. Sugar Tech 16, 241–249 (2014). https://doi.org/10.1007/s12355-013-0268-z

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