Construction of first high-density SNP genetic map and identification of QTL for the natural rubber content in Taraxacum kok-saghyz Rodin

Abstract

Abstract Background Taraxacum kok-saghyz Rodin (TKS) is a promising commercial alternative NR yielding plant. Cultivating TKS with a high NR content is an important breeding target, and developing molecular markers related to the NR content can effectively accelerate the breeding process of TKS. Results To construct a high-density SNP genetic map and uncover genomic regions related to the NR content in TKS, a F1 mapping population of TKS was constructed by crossing two parents (X51×l66) with significant differences in NR contents. The NR content of the F1 plants ranged from 0.30–15.14% and was distributed normally with a coefficient of variation of 47.61%, indicating quantitative trait inheritance. Then, employing the whole-genome resequencing (WGR), a TKS genetic linkage map of 12680 bin markers comprising 322,439 SNPs was generated. Based on the genetic map and NR content of the F1 population, six quantitative trait loci (QTLs) for NR content with LOD > 4.0 were identified on LG01/Chr01 and LG06/Chr06. Of them, the 2.17 Mb genomic region between qHRC-C6-1 and qHRC-C6-2 on ChrA06, with 65.62% PVE in total, was the major QTL region. In addition, the six QTLs have significant additive genetic effects on NR content and could be used to develop markers for marker-assisted selection (MAS) in TKS with a high NR content. Conclusions This work constructed the first high-density TKS genetic map, identified the QTLs and genomic regions controlling the NR content, which provides useful information for fine mapping, map-based cloning, and MAS in TKS.