Transcriptomic Profiling of Fruit Development in Black Raspberry Rubus coreanus
Joint Authors
Chen, Qing
Sun, Bo
Wang, Yan
Tang, Haoru
Liu, Xunju
Hu, Yueyang
Hu, Yaodong
Wang, Xiaorong
Source
International Journal of Genomics
Issue
Vol. 2018, Issue 2018 (31 Dec. 2018), pp.1-13, 13 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2018-04-01
Country of Publication
Egypt
No. of Pages
13
Main Subjects
Abstract EN
The wild Rubus species R.
coreanus, which is widely distributed in southwest China, shows great promise as a genetic resource for breeding.
One of its outstanding properties is adaptation to high temperature and humidity.
To facilitate its use in selection and breeding programs, we assembled de novo 179,738,287 R.
coreanus reads (125 bp in length) generated by RNA sequencing from fruits at three representative developmental stages.
We also used the recently released draft genome of R.
occidentalis to perform reference-guided assembly.
We inferred a final 95,845-transcript reference for R.
coreanus.
Of these genetic resources, 66,597 (69.5%) were annotated.
Based on these results, we carried out a comprehensive analysis of differentially expressed genes.
Flavonoid biosynthesis, phenylpropanoid biosynthesis, plant hormone signal transduction, and cutin, suberin, and wax biosynthesis pathways were significantly enriched throughout the ripening process.
We identified 23 transcripts involved in the flavonoid biosynthesis pathway whose expression perfectly paralleled changes in the metabolites.
Additionally, we identified 119 nucleotide-binding site leucine-rich repeat (NBS-LRR) protein-coding genes, involved in pathogen resistance, of which 74 were in the completely conserved domain.
These results provide, for the first time, genome-wide genetic information for understanding developmental regulation of R.
coreanus fruits.
They have the potential for use in breeding through functional genetic approaches in the near future.
American Psychological Association (APA)
Chen, Qing& Liu, Xunju& Hu, Yueyang& Sun, Bo& Hu, Yaodong& Wang, Xiaorong…[et al.]. 2018. Transcriptomic Profiling of Fruit Development in Black Raspberry Rubus coreanus. International Journal of Genomics،Vol. 2018, no. 2018, pp.1-13.
https://search.emarefa.net/detail/BIM-1172868
Modern Language Association (MLA)
Chen, Qing…[et al.]. Transcriptomic Profiling of Fruit Development in Black Raspberry Rubus coreanus. International Journal of Genomics No. 2018 (2018), pp.1-13.
https://search.emarefa.net/detail/BIM-1172868
American Medical Association (AMA)
Chen, Qing& Liu, Xunju& Hu, Yueyang& Sun, Bo& Hu, Yaodong& Wang, Xiaorong…[et al.]. Transcriptomic Profiling of Fruit Development in Black Raspberry Rubus coreanus. International Journal of Genomics. 2018. Vol. 2018, no. 2018, pp.1-13.
https://search.emarefa.net/detail/BIM-1172868
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1172868