摘要
白芷为常用的药食同源物种,既是临床常用中药,又是香料,用途十分广泛。为获取白芷全基因组序列信息,该研究首次以杭白芷叶片DNA为材料,采用Nanopore测序技术构建杭白芷全基因组数据库,并利用生物信息学方法对获得的核苷酸序列进行组装、功能注释以及进化分析研究。结果表明:(1)原始测序数据过滤后获得662 Gb三代数据,Read N50约为32932 bp,经过组装得到杭白芷基因组大小为5.6 Gb,Contig N50约为806638 bp。(2)组装后的序列通过与KOG、GO、KEGG等功能数据库比对,得到了功能注释的基因占66.47%,KOG功能注释结果表明杭白芷的蛋白功能主要集中在一般功能预测、翻译后修饰、蛋白质转换、伴侣以及信号转导机制;GO功能分类表明杭白芷的基因集中在生物学过程及细胞组分;KEGG通路注释表明参与代谢途径的基因占主要地位。(3)杭白芷中鉴定到45个BGLU家族基因。该研究首次利用第三代测序技术对杭白芷全基因组进行解析,为杭白芷的系统生物学研究和BGLU在杭白芷生长发育中的后续功能研究提供了重要的理论参考。
Angelica dahurica is a common species of medicine and food homology,which is not only a common clinical traditional Chinese medicine,but also a spice,with a wide range of uses.In order to obtain the whole genome sequence information of A.dahurica,we used A.dahurica var.formosana leaf DNA as material,and the Nanopore sequencing technology was used to establish its nucleotide sequences database,then genome assembly,function annotation and evolution analysis were carried out by bioinformatic methods.The results were as follows:(1)A total of 662 Gb of the third-generation data were obtained after fittering the original sequencing data,with the Read N50 about 32932 bp.The assembled A.dahurica genome size was 5.6 Gb,Contig N50 was about 806638 bp.(2)The genes were with gene annotations accounted for 66.47%after being compared with functional databases such as NR,KOG and KEGG.The result of KOG gene annotation was that the protein function of A.dahurica concentrated in the general functional prediction,posttranslational modification,protein turnover,chaperones and signal transduction mechanisms.GO functional classification indicated that the genes of A.dahurica concentrated on cell biological processes and components.KEGG analysis found that the A.dahurica genes mostly involved in metabolic pathways.(3)And 45 genes of BGLU family were identified in A.dahurica.In this study,the whole genome of A.dahurica is resolved by the third-generation sequencing technology for the first time,which provides important theoretical references for the systematic biological study and the further study of the function of BGLU in the growth and development of A.dahurica.
作者
王雅兰
周罗静
张灵迂
章景
卞金辉
高继海
WANG Yalan;ZHOU Luojing;ZHANG Lingyu;ZHANG Jing;BIAN Jinhui;GAO Jihai(Key Laboratory of Distinctive Chinese Medicine Resources in Southwest China,Chengdu University of Traditional Chinese Medicine,Chengdu 611137,China)
出处
《广西植物》
CAS
CSCD
北大核心
2024年第4期777-792,共16页
Guihaia
基金
中央本级重大增减支项目(2060302)
国家中医药管理局项目(ZYYCXTD-D-202209)
四川省科技厅科技计划项目(2020YFN0152,22CXTD0009)
四川省中医药管理局项目(2022C001)
成都中医药大学人才提升项目(QNXZ2018017,QNXZ2019001)。
关键词
杭白芷
基因组
第三代测序技术
BGLU
基因家族
药用植物
Angelica dahurica var.formosana
genome
the third-generation sequencing technology
BGLU gene family
medicinal plant
