Transcriptome-wide identification and expression analysis of 2-ODD gene family in Salvia apiana Jepson
10.16438/j.0513-4870.2022-0648
- VernacularTitle:基于转录组测序的白鼠尾草2-ODD基因家族鉴定与表达分析
- Author:
Xiao-jing QIN
1
;
Jia-dong HU
1
;
Zhen-xi FANG
1
;
Wan-sheng CHEN
2
;
Qing LI
3
Author Information
1. Research and Development Center of Chinese Medicine Resources and Biotechnology, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China
2. Research and Development Center of Chinese Medicine Resources and Biotechnology, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China; Department of Pharmacy, Second Affiliated Hospital of Naval Medical University, Shanghai 200003, China
3. Department of Pharmacy, Second Affiliated Hospital of Naval Medical University, Shanghai 200003, China
- Publication Type:Research Article
- Keywords:
italic>Salvia apiana Jepson;
transcriptome;
2-oxoglutarate/Fe(II)-dependent dioxygenase;
bioinformatics;
expression analysis
- From:
Acta Pharmaceutica Sinica
2022;57(12):3675-3685
- CountryChina
- Language:Chinese
-
Abstract:
2-Oxoglutarate/Fe(II)-dependent dioxygenases (2-ODD) play an important role in plant primary and secondary metabolism. Based on the high-throughput sequencing platform Illumina NovaSeq 6000, the transcriptome of Salvia apiana Jepson was sequenced, and the obtained reads were de novo assembled. A total of 38 534 unigenes were obtained from the transcriptome. The assembled unigenes were annotated and 29 982 unigenes were given functional annotations. The 2-ODD genes were identified from the assembled S. apiana transcriptome database by bioinformatics methods, and the genes were analyzed, including the homology of the sequences, physicochemical characteristics, signal peptides, transmembrane domains, subcellular localization, secondary structure and tertiary structure, etc. The evolutionary relationships and the expression patterns of the identified 2-ODD genes were also analyzed. 39 full-length 2-ODD genes were identified from the transcriptome of S. apiana. The average length of these 2-ODD encoding proteins was 320 amino acids, the molecular weight was about 36.00 kDa, and most of them were hydrophilic proteins. Phylogenetic analysis divided these 2-ODD genes into several subfamilies. Gene expression analysis indicated that the 2-ODD genes were expressed in different parts of S. apiana, and the expression level of most genes was much higher in roots than that in leaves. This study can lay a foundation for further study of 2-ODD genes in S. apiana.
