Estimation of Genome Size of Ginseng Based on Herbgenomics by Flow Cytometric Analysis And High-throughput Sequence
- VernacularTitle:基于本草基因组学应用流式量测序技术检测人参基因组大小
- Author:
Xiaoyan ZHANG
1
,
2
;
Zhixiang LIU
;
Baosheng LIAO
;
Shuiming XIAO
;
Jiang XU
;
Wei SHENG
Author Information
- Keywords: Panax ginseng; genome size; flow cytometric analysis; high-throughput sequence; herbgenomics
- From: World Science and Technology-Modernization of Traditional Chinese Medicine 2017;19(10):1724-1728
- CountryChina
- Language:Chinese
- Abstract: Ginseng is the dried root and rhizome of Panax ginseng.The lack of genomic data has restricted the development of ginseng industry and basic research.The genome size of P.ginseng was estimated to be 3.42 Gb by using the genome data of Oryza sativa ssp.Nipponbare and Glycine max (L.) Merrill as the reference and the flow cytometric analysis.Meanwhile,shotgun libraries with the insert size of 250 bp and 500 bp were constructed,and sequenced for double terminal PE 150 by using Illumina Hiseq X Ten platform.Totally,183.82 Gb high quality data was obtained after filtering the raw data.The genome size of P.ginseng was 3.35 Gb and the sequencing depth was 54.87 X by K-mer analysis.In this study,flow cytometry and K-mer analysis were used to identify the genome size of ginseng,which provided basic data for the further whole genome sequencing and herbgenomics studies.
