TY - JOUR AU - Nagy, Istvan AU - Barth, Susanne AU - Mehenni-Ciz, Jeanne AU - Abberton, Michael T. AU - Milbourne, Dan PY - 2013 DA - 2013/02/13 TI - A hybrid next generation transcript sequencing-based approach to identify allelic and homeolog-specific single nucleotide polymorphisms in allotetraploid white clover JO - BMC Genomics SP - 100 VL - 14 IS - 1 AB - White clover (Trifolium repens L.) is an allotetraploid species possessing two highly collinear ancestral sub-genomes. The apparent existence of highly similar homeolog copies for the majority of genes in white clover is problematic for the development of genome-based resources in the species. This is especially true for the development of genetic markers based on single nucleotide polymorphisms (SNPs), since it is difficult to distinguish between homeolog-specific and allelic variants. Robust methods for categorising single nucleotide variants as allelic or homeolog-specific in large transcript datasets are required. We illustrate one potential approach in this study. SN - 1471-2164 UR - https://doi.org/10.1186/1471-2164-14-100 DO - 10.1186/1471-2164-14-100 ID - Nagy2013 ER -