特产研究2023，Vol.45Issue(6)：1-5,5.DOI:10.16720/j.cnki.tcyj.2023.215
基于流式细胞术和K-mer分析的荆芥基因组大小评估
Genome-determination of Nepeta cataria Based on Flow Cytometry and K-mer Analysis
摘要
Abstract
Nepeta cataria is a common medicinal material in China.In order to study the genome size of Nepeta cataria,we evaluated the genome size,GC content,heterozygosity and repeat sequence of the germplasm resources of Nepeta cataria using flow cytometry and K-mer analysis.The results showed that the average genome size of Nepeta cataria was 0.76 Gb basing on flow cytometry.K-mer analysis showed that the genome size of Nepeta cataria was 0.903 Gb,GC content was 38.77％,heterozygosity rate was 0.32％,and repeat sequence was 66.93％.After genome assembly of Nepeta cataria,the total length of contig was 792,215,707 bp and contig N50 was 960 bp,and the total length of scaffold was 813,473,842 bp and scaffold N50 was 1 650 bp.Combining with the results of flow cytometry and genome-wide investigation,the genome size of Nepeta cataria was estimated to be about 0.7-0.9 Gb with high sequence repetition ratio.This study con-ducted a preliminary exploration of the genome of Nepeta cataria,and provided a reference for the genomics research of Nepeta cataria.关键词
荆芥/流式细胞术/K-mer/基因组大小Key words
Nepeta cataria/flow cytometry/K-mer/genome size分类
农业科技引用本文复制引用
姜涛,刘灵娣,田伟,刘铭,温春秀..基于流式细胞术和K-mer分析的荆芥基因组大小评估[J].特产研究,2023,45(6):1-5,5.基金项目
河北省重点研发计划专项项目(22326301D) （22326301D）
河北省农林科学院基本科研业务费项目(2021050203) （2021050203）
财政部和农业农村部:国家现代农业产业技术体系资助项目(CARS-21) （CARS-21）
