[1]徐萍,张萱,于梦雯,等.重楼全长转录组测序及生物信息学分析[J].江苏农业学报,2025,(07):1412-1421.[doi:doi:10.3969/j.issn.1000-4440.2025.07.017]
　XU Ping,ZHANG Xuan,YU Mengwen,et al.Full-length transcriptome sequencing and bioinformatics analysis of Paris[J].,2025,(07):1412-1421.[doi:doi:10.3969/j.issn.1000-4440.2025.07.017]
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重楼全长转录组测序及生物信息学分析()
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江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2025年07期
页码:
1412-1421
栏目:
园艺
出版日期:
2025-07-31

文章信息/Info

Title:
Full-length transcriptome sequencing and bioinformatics analysis of Paris
作者:
徐萍1; 张萱1; 于梦雯1; 徐洪高1; 涂振华1; 章晓叶1; 张洁1; 欧征刚2; 陈佳3; 郑国伟1
(1.云南中医药大学中药学院, 云南昆明650500；2.普拉底乡人民政府农业综合服务中心,云南怒江673501；3.云南中医药大学民族医药学院,云南昆明650500)
Author(s):
XU Ping1; ZHANG Xuan1; YU Mengwen1; XU Honggao1; TU Zhenhua1; ZHANG Xiaoye1; ZHANG Jie1; OU Zhenggang2; CHEN Jia3; ZHENG Guowei1
(1.College of Traditional Chinese Medicine, Yunnan University of Chinese Medicine, Kunming 650500, China;2.Agricultural Comprehensive Service Center of Puladi Township People’s Government, Nujiang 673501, China;3.College of Ethnic Medicine, Yunnan University of Chinese Medicine, Kunming 650500, China)
关键词:
重楼; 全长转录组; 功能注释; 皂苷
Keywords:
Paris; full-length transcriptome; function annotation; saponin
分类号:
R282.71
DOI:
doi:10.3969/j.issn.1000-4440.2025.07.017
文献标志码:
A
摘要:
本研究旨在通过对重楼全长转录组数据的获取和分析,为系统挖掘重楼皂苷合成基因奠定基础。采用PacBio Sequel平台的第三代测序技术,对皂苷含量差异显著的3种重楼属植物云南重楼[Paris polyphylla Smith var. yunnanensis (Franch.) Hand.-Mazz.]、球药隔重楼(Paris fargesii Franch.)和长柱重楼[Paris forrestii (Takht.) H. Li]的根茎混合样品进行深度测序,对所得数据进行全面的生物信息学分析。共获得42 771个转录本,其中40 945个(95.73%)转录本成功比对到KEGG、NR、Swiss-Prot、TrEMBL、KOG、GO和Pfam等7大功能数据库。成功识别出与胆固醇合成相关的48个基因,特异性筛选出参与重楼皂苷修饰的2类关键酶基因:120个细胞色素P450酶基因和53个UDP-糖基转移酶基因。此外,还检测到2 327个转录因子,分别属于71个转录因子家族。在MISA分析中共发现27 451个微卫星序列（SSR）,以SSR之间有重叠的复合类型最多,占全部重复类型的32.88%。综上,本研究借助高通量全长转录组测序,系统地解析了重楼根茎组织的转录谱,并成功挖掘出与重楼皂苷合成密切相关的候选基因及调控元件,为后续深入探讨重楼皂苷的生物合成分子机制奠定了基础。
Abstract:
The purpose of this study is to lay a foundation for the systematic exploration of saponin synthesis genes in Paris by obtaining the full-length transcriptome data of Paris. The third-generation sequencing technology on PacBio Sequel platform was used. In this study, the rhizome mixed samples of Paris polyphylla Smith var. yunnanensis (Franch.) Hand.-Mazz., Paris fargesii Franch. and Paris forrestii (Takht.) H. Li with significant differences in saponin content were deeply sequenced, and then the obtained data were comprehensively analyzed by bioinformatics. A total of 42 771 transcripts were obtained, of which 40 945 (95.73%) were successfully matched to seven functional databases, namely KEGG, NR, Swiss-Prot, TrEMBL, KOG, GO and Pfam. Through enrichment analysis of KEGG pathway, 48 genes related to cholesterol synthesis were successfully identified, and two kinds of key enzyme genes involved in saponin modification were specifically screened: 120 cytochrome P450 enzyme genes and 53 UDP-glucosyltransferase genes. Additionally, 2 327 transcription factors were detected, belonging to 71 transcription factor families. A total of 27 451 microsatellite sequences (SSR) were found by MISA analysis, there were the most coincident types with overlapping SSR, accounting for 32.88% of all repeat types. With the help of high-throughput full-length transcriptome sequencing technology, the transcriptome of rhizome tissue of Paris was systematically analyzed, and the candidate genes and regulatory elements closely related to saponin synthesis were successfully excavated. These findings lay the groundwork for further study on the molecular mechanism of saponin biosynthesis in Paris.

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备注/Memo

备注/Memo:
收稿日期：2024-09-04基金项目：国家自然科学基金地区科学基金项目(82160718)；云南省科技厅基础研究专项面上项目(202301AT070257)；云南省兴滇英才支持计划青年人才专项(YNWR-QNBJ-2020-257、XDYC-QNRC-2022-0277)；云南省中医药基础研究联合专项(202101AZ070001-057)作者简介：徐萍(2000-),女,云南昭通人,硕士研究生,研究方向为中药材有效成分积累机制。(E-mail)2633822198@qq.com通讯作者：陈佳,(
更新日期/Last Update: 2025-08-19