Gene specific SNP markers development for glucosinolate pathway

Gene specific SNP markers development for glucosinolate pathway in B.rapa and
evolutionary study in wide Brassica species
Xiaonan Li1, Nirala Ramchiary1,2, Chaofan Zhu1, Vicky Dhandapani1, Su Ryun Choi1,
Yong Pyo Lim*
Molecular Genetics and Genomics Lab, Department of Horticulture, Chungnam
National University, Gung-Dong, Yuseong-Gu, Daejeon 305-764, Republic of Korea
Department of Biological Science, Gauhati University, Assam, India
*Corresponding author:
Glucosinolates are sulfur-rich secondary metabolites found in the Brasicaceae, which are
well-known for their effects on human health as a cancer-preventive substance, and plant
resistance to insects and pathogens. However, it is still less known about the genetic basis
and regulation of the biosynthesis in Brassica rapa species. In our study, a total of 9
inbred lines belonging to Chinese cabbage and
Rapid cycling B. rapa showing
contrasting phenotype to downey mildew, clubroot and other phenotypic traits were resequenced using Illumina Next Generation Sequencing (NGS) machine. As genome
sequence of B. rapa Chinese cabbage “Chiifu” cultivar is already published, using that
genome sequence information as reference, 1248 single nucleotide polymorphism (SNPs)
were identified for 102 annotated glucosinolate biosynthesis genes from 9 genotypes, a
few of which were validated by tagging to the B.rapa reference linkage map. In another
way, to establish detail relationship between different cultivated and wild Brassica
species, we used secondary metabolite glucosinolate phenotype and the sequences of the
genes involved in glucosinolates biosynthesis pathway. These gene specific SNPs
markers and sequence variation among different Brassica species could be used for
tagging and isolation of important genes, and subsequently in Brassica breeding program.