Characterization of Brassica napus L. genotypes utilizing sequence-related amplified polymorphism and genotyping by sequencing in association with cluster analysis

Fingerprint construction through genotyping by sequencing for applied breeding in Brassica rapa

This study evaluated genotyping by sequencing (GBS) protocol for fingerprinting Brassica rapa and the data derived were more reliable than the re-sequencing data of B. rapa. Of the 10 enzyme solutions used to analyze the numbers of genotypes and single nucleotide polymorphisms (SNPs) in B. rapa, five solutions showed better results, namely: A (HaeIII, 450-500 bp), E (RsaI+HaeIII, 500-550 bp), F (RsaI+HaeIII, 500-600 bp), G (RsaI+HaeIII, 'All' fragment), and J (RsaI+EcoRV-HF®, 'All' fragment). The five enzyme solutions showed less than 40% similarity in different individuals from various samples, and 90% similarity in between two individuals from one sample. The E enzyme solution was most suitable for fingerprinting B. rapa revealing well-distributed SNPs in the whole genome. Of the 82 highly inbred lines and 18 F1 lines of B. rapa sequenced by GBS in E enzyme solution, known parents of 10 F1 lines were verified and male parents were discovered for 8 F1 lines that had only known female parents. This study provided a valuable method for screening parents for F1 lines in B. rapa for applied breeding through efficient evaluation of GBS with varied library construction strategies.

Genetic Characterization of Russian Rapeseed Collection and Association Mapping of Novel Loci Affecting Glucosinolate Content

Rapeseed is the second most common oilseed crop worldwide. While the start of rapeseed breeding in Russia dates back to the middle of the 20th century, its widespread cultivation began only recently. In contrast to the world’s rapeseed genetic variation, the genetic composition of Russian rapeseed lines remained unexplored. We have addressed this question by performing genome-wide genotyping of 90 advanced rapeseed accessions provided by the All-Russian Research Institute of Oil Crops (VNIIMK). Genome-wide genetic analysis demonstrated a clear difference between Russian rapeseed varieties and the rapeseed varieties from the rest of the world, including the European ones, indicating that rapeseed breeding in Russia proceeded in its own independent direction. Hence, genetic determinants of agronomical traits might also be different in Russian rapeseed lines. To assess it, we collected the glucosinolate content data for the same 90 genotyped accessions obtained during three years and performed an association mapping of this trait. We indeed found that the loci significantly associated with glucosinolate content variation in the Russian rapeseed collection differ from those previously reported for the non-Russian rapeseed lines.