논문 상세보기
Characterization of chrysanthemum genome by NGS
- 언어ENG
- URLhttps://db.koreascholar.com/Article/Detail/302636
The Asteraceae/Compositae family is one of the biggest families in flowering plants and has more than 23000 species including the economically important lettuce, sunflower, and chicory as well as the agronomic weeds. With its significance and the progress in sequencing technology, its species have been subjected to the genome sequencing project worldwide. Although chrysanthemum is an important plant in the floricultural industry, however, it has been less studied at the level of genomics, compared with other species in the Asteraceae. There were only several reports on comparative analysis of transcriptome for chrysanthemum. Actually, the genome of Chrysanthemum species is known to be gigantic and complex with diverse status ranging from diploid to decaploid. Since the cultivated and commercial chrysanthemum exhibits hexaploid genome, we decided to select the diploid species with smaller genome as a material for reference genome sequencing. Thus, we launched a genome sequencing project with C. boreale which was previously reported to be diploid by cytogenetic analysis. We constructed sequencing libraries with insert size 300bp and 500bp and sequenced them from the paired end in 100bp read length with Illumina’s HiSeq platform. After quality checking, we preprocessed raw reads by removing duplicated reads and trimming reads with low quality value. Kmer frequency analysis with the cleaned reads showed that the genome is heterozygous, highly repetitive and gigantic, ranging from 2.9Gb to 5.8Gb. The cleaned reads were further subjected to error correction and primary assembly with SOAPdenovo2. Here, we’ll report the result of Kmer frequency analysis and genome assembly.
