Full-length transcriptome sequencing and bioinformatics analysis of Polygonatum kingianum
10.16438/j.0513-4870.2023-1259
- VernacularTitle:滇黄精全长转录组测序及生物信息学分析
- Author:
Qi MI
1
;
Yan-li ZHAO
1
;
Ping XU
1
;
Meng-wen YU
1
;
Xuan ZHANG
1
;
Zhen-hua TU
1
;
Chun-hua LI
2
;
Guo-wei ZHENG
1
;
Jia CHEN
3
Author Information
1. College of Chinese Material Medica, Yunnan University of Chinese Medicine, Kunming 650500, China
2. Gongshan County Agriculture Village Ju Agriculture Comprehensive Development Service Center, Nujiang of the Lisu Autonomous Prefecture, Nujiang 673500, China
3. College of Ethnic Medicines, Yunnan University of Chinese Medicine, Kunming 650500, China
- Publication Type:Research Article
- Keywords:
italic>Polygonatum kingianum;
full-length transcriptome;
germplasm resource;
polysaccharide synthesis
- From:
Acta Pharmaceutica Sinica
2024;59(6):1864-1872
- CountryChina
- Language:Chinese
-
Abstract:
The purpose of this study was to enrich the genomic information and provide a basis for further development and utilization of Polygonatum kingianum. The fresh rhizome of P. kingianum was used as the experimental material, and the full-length transcriptome was sequenced by PacBio Sequel platform. The final measured polymerase reads were 1 120 485, with a total of 77.73 GB of data. In NR database, 41 864 homologous sequence alignments were aligned to 5 species; 40 506 were annotated in the KOG database and classified into 26 categories based on their functionality; 69 060 GO annotated 32 functional groups divided into 3 categories: cellular components, molecular functions, and biological processes; 45 779 annotations were added to 145 metabolic pathways in the KEGG database. Among them, there are 127 identified transcripts related to polysaccharide synthesis in the glycolysis/gluconeogenesis metabolic pathway, 144 in the starch and sucrose metabolic pathway, 85 in the amino acid sugar and nucleotide sugar metabolic pathway, and 69 in the fructose and mannose metabolic pathway. In addition, 1 781 transcription factors were detected, distributed in 37 transcription factor families; 180 293 SSR loci were detected, among which single base repeats accounted for the most, accounting for 30.48% of all base repeats, and at least five base repeats, accounting for only 0.14% of single base repeats. The results of this study provide important data supporting for enriching the genomic information of P. kingianum and exploring its effective biosynthetic pathway.
