Genotyping-by-sequencing for sunflower breeding and genetics

FILIPPI, C.V.; AGUIRRE N.; MONTECCHIA JF; GONZALEZ S.; RIVAROLA M.; HOPP H.E.; HEINZ R.A.; LIA V.V.; PANIEGO, N.B.

lima

Congreso; IX Encuentro REDBIO 2016-PERU; 2016

REDBIO

Efficient plant genome sampling, with sufficient and informative genetic markers, plays a key role in breeding, conservation and evolution. Genotyping-by-sequencing (GBS) has recently emerged as a promising genomic approach for single nucleotide polymorphism (SNP) discovery on a genome-wide scale. This methodology does not require a reference genome or previous polymorphism knowledge, and combines marker discovery and genotyping in a one-step process, providing a rapid, high-throughput and cost-effective tool for multiple genome-wide analysis for a range of non-model species and germplasm sets. We performed GBS on a panel of 135 inbred lines belonging to the INTA?s sunflower breeding program, rendering a total of 45,684 identified SNPs. After discarding those markers with minor allele frequency lower than 5% and high percentage of missing data, a total of 5,270 genomic regions, accounting to 19,444 SNPs, were considered for basic genetic diversity analysis. The probability of identity, as well as the probability of identity among siblings, was virtually 0, while the average polymorphism information content was estimated in 0.31, ranging from 0.05 to 0.74. The expected heterozygosity across the total 135 samples was 0.36. We observed a uniform distribution of the detected SNPs markers in the sunflower genome. In sum, the GBS was successfully used for de novo genotyping in the large and complex sunflower (Helianthus annuus L.) genome. The high levels of genetic diversity captured by the generated molecular markers, in addition to the flexibility and relatively low cost of GBS, provide an ideal approach to achieve genomic coverage in sunflower conservation and breeding.