Abstract
Brassica napus (oilseed rape, canola) is one of the world’s most important sources of vegetable oil for human nutrition and biofuel, and also a model species for studies investigating the evolutionary consequences of polyploidisation. Strong bottlenecks during its recent origin from interspecific hybridisation, and subsequently through intensive artificial selection, have severely depleted the genetic diversity available for breeding. On the other hand, high-throughput genome profiling technologies today provide unprecedented scope to identify, characterise and utilise genetic diversity in primary and secondary crop gene pools. Such methods also enable implementation of genomic selection strategies to accelerate breeding progress. The key prerequisite is availability of high-quality sequence data and identification of high-quality, genome-wide sequence polymorphisms representing relevant gene pools. We present comprehensive genome resequencing data from a panel of 52 highly diverse natural and synthetic B. napus accessions, along with a stringently selected panel of 4.3 million high-confidence, genome-wide SNPs. The data is of great interest for genomics-assisted breeding and for evolutionary studies on the origins and consequences in allopolyploidisation in plants.
Highlights
Background and SummaryDetailed knowledge of genome-level diversity is an important prerequisite for understanding the inheritance of complex traits related to crop performance, and for implementation of genome-based performance prediction to accelerate breeding progress
Numerous examples demonstrate the influence and consequences of natural or artificial selection on particular chromosome exchanges for the expression of important agronomic traits[1,5]. Recombine and utilise such variation for high-resolution trait dissection and genomics-based pre-breeding, we first established a highly diverse panel of 50 natural and synthetic B. napus accessions. These were subsequently used as founder lines for the development of large populations for nested association mapping (NAM6) and heterotic haplotype capture (HHC4). 30 of the founder accessions were selected to sample allelic variation as evenly as possible across the gene pools of diverse winter-type B. napus morphotypes, including fodder rapes, kales, and old European and Asian oilseed forms (B. napus ssp. napus), along with rutabaga/swede (B. napus ssp. napobrassica)
The Pre-BreedYield (PBY) collection was completed by two additional, modern breeding lines that were used as recurrent parents for the generation of the NAM lines and HHC populations, respectively[4]
Summary
Detailed knowledge of genome-level diversity is an important prerequisite for understanding the inheritance of complex traits related to crop performance, and for implementation of genome-based performance prediction to accelerate breeding progress. Recombine and utilise such variation for high-resolution trait dissection and genomics-based pre-breeding, we first established a highly diverse panel of 50 natural and synthetic B. napus accessions. These were subsequently used as founder lines for the development of large populations for nested association mapping (NAM6) and heterotic haplotype capture (HHC4). Stringent variant calling strategies, a total of 4.3 million high-confidence, genome-wide single-nucleotide polymorphisms (SNPs) were detected across the 52 genomes This paper reports these DNA sequence and SNP variant datasets in their entirety. The data represent a foundation for development of new, ultrahigh-density variant screening arrays for population-level trait analysis and genomic selection
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