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Full-Length Transcriptome Analysis of Four Different Tissues of Cephalotaxus oliveri
- Source :
- International Journal of Molecular Sciences, Vol 22, Iss 787, p 787 (2021), International Journal of Molecular Sciences, Volume 22, Issue 2
- Publication Year :
- 2021
- Publisher :
- MDPI AG, 2021.
-
Abstract
- Cephalotaxus oliveri is a tertiary relict conifer endemic to China, regarded as a national second-level protected plant in China. This species has experienced severe changes in temperature and precipitation in the past millions of years, adapting well to harsh environments. In view of global climate change and its endangered conditions, it is crucial to study how it responds to changes in temperature and precipitation for its conservation work. In this study, single-molecule real-time (SMRT) sequencing and Illumina RNA sequencing were combined to generate the complete transcriptome of C. oliveri. Using the RNA-seq data to correct the SMRT sequencing data, the four tissues obtained 63,831 (root), 58,108 (stem), 33,013 (leaf) and 62,436 (male cone) full-length unigenes, with a N50 length of 2523, 3480, 3181, and 3267 bp, respectively. Additionally, 35,887, 11,306, 36,422, and 25,439 SSRs were detected for the male cone, leaf, root, and stem, respectively. The number of long non-coding RNAs predicted from the root was the largest (11,113), and the other tissues were 3408 (stem), 3193 (leaf), and 3107 (male cone), respectively. Functional annotation and enrichment analysis of tissue-specific expressed genes revealed the special roles in response to environmental stress and adaptability in the different four tissues. We also characterized the gene families and pathways related to abiotic factors. This work provides a comprehensive transcriptome resource for C. oliveri, and this resource will facilitate further studies on the functional genomics and adaptive evolution of C. oliveri.
- Subjects :
- 0106 biological sciences
0301 basic medicine
gene families
pathways
Biology
01 natural sciences
Catalysis
Inorganic Chemistry
Transcriptome
lcsh:Chemistry
03 medical and health sciences
Cephalotaxus oliveri
Gene family
multiple tissues
Physical and Theoretical Chemistry
Molecular Biology
Gene
SMRT
lcsh:QH301-705.5
Spectroscopy
Abiotic component
Organic Chemistry
General Medicine
biology.organism_classification
Computer Science Applications
030104 developmental biology
lcsh:Biology (General)
lcsh:QD1-999
Evolutionary biology
Functional genomics
transcriptome
010606 plant biology & botany
Single molecule real time sequencing
Conifer cone
Subjects
Details
- Language :
- English
- ISSN :
- 16616596 and 14220067
- Volume :
- 22
- Issue :
- 787
- Database :
- OpenAIRE
- Journal :
- International Journal of Molecular Sciences
- Accession number :
- edsair.doi.dedup.....03e788ee527636640b2d90a007891eab