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Low boron (B) seriously limits the growth of oilseed rape ( Brassica napus  L.), a high B demand species that is sensitive to low B conditions. Significant genotypic variations in response to B deficiency have been observed among  B. napus  cultivars. To reveal the genetic basis for B efficiency in  B. napus , quantitative trait loci (QTLs) for the plant growth traits, B uptake traits and the B efficiency coefficient (BEC) were analyzed using a doubled haploid (DH) population derived from a cross between a B-efficient parent, Qingyou 10, and a B-inefficient parent, Westar 10. A high-density genetic map was constructed based on single nucleotide polymorphisms (SNPs) assayed using  Brassica  60 K Infinium BeadChip Array, simple sequence repeats (SSRs) and amplified fragment length polymorphisms (AFLPs). The linkage map covered a total length of 2139.5 cM, with 19 linkage groups (LGs) and an average distance of 1.6 cM between adjacent markers. Based on hydroponic evaluation of six B efficiency traits measured in three separate repeated trials, a total of 52 QTLs were identified, accounting for 6.14–46.27% of the phenotypic variation. A major QTL for BEC,  qBEC-A3a , was co-located on A3 with other QTLs for plant growth and B uptake traits under low B stress. Using a subset of substitution lines,  qBEC-A3a  was validated and narrowed down to the interval between CNU384 and BnGMS436. The results of this study provide a novel major locus located on A3 for B efficiency in  B. napus  that will be suitable for fine mapping and marker-assisted selection breeding for B efficiency in  B. napus .

A High-Density Genetic Map Identifies a Novel Major QTL for Boron Efficiency in Oilseed Rape (Brassica napus L.)