Development and application of Faba_bean_130K Targeted Next-Generation Sequencing SNP genotyping platform based on transcriptome sequencing

Faba bean (Vicia faba L., 2n = 12) is an important food legume crop and widely grown for multiple uses in the world. However, no reference genome is currently available due to its giant genome (approximately 13 Gb) and limited single nucleotide polymorphism (SNP) markers as well as high efficient genotyping tools have been reported for faba bean. In this study, 16.7 billion clean reads were obtained from transcriptome libraries of flowers and leaves of 102 global faba bean accessions. 243,120 unigenes were de novo assembled and functionally annotated. Moreover, a total of 1,579,411 SNPs were identified and were further filtered according to a selection pipeline to develop a high-throughput, flexible and low-cost Faba_bean_130K Targeted Next-Generation Sequencing (TNGS) genotyping platform. A set of 69 Chinese faba bean accessions was genotyped with the TNGS genotyping platform, and the average mapped rate of captured reads to reference transcripts was 93.14%, of which 53.23% were locate..., ,