Identification of MicroRNAs and transcript targets in Camelina sativa by deep sequencing and computational methods
Abstract
Camelina sativa is an annual oilseed crop that is under intensive development for renewable resources of biofuels and industrial oils. MicroRNAs, or miRNAs, are endogenously encoded small RNAs that play key roles in diverse plant biological processes. Here, we conducted deep sequencing on small RNA libraries prepared from camelina leaves, flower buds and two stages of developing seeds corresponding to initial and peak storage products accumulation. Computational analyses identified 207 known miRNAs belonging to 63 families, as well as 5 novel miRNAs. These miRNAs, especially members of the miRNA families, varied greatly in different tissues and developmental stages. The predicted miRNA target genes are involved in a broad range of physiological functions including lipid metabolism. This report is the first step toward elucidating roles of miRNAs in C. sativa and will provide additional tools to improve this oilseed crop for biofuels and biomaterials.
- Authors:
-
- Montana State Univ., Bozeman, MT (United States)
- Chinese Academy of Sciences (CAS), Beijing (China)
- Publication Date:
- Research Org.:
- Donald Danforth Plant Science Center, St. Louis, MO (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1202364
- Grant/Contract Number:
- AR0000202
- Resource Type:
- Accepted Manuscript
- Journal Name:
- PLoS ONE
- Additional Journal Information:
- Journal Volume: 10; Journal Issue: 3; Journal ID: ISSN 1932-6203
- Publisher:
- Public Library of Science
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; 09 BIOMASS FUELS
Citation Formats
Poudel, Saroj, Aryal, Niranjan, Lu, Chaofu, and Wang, Tai. Identification of MicroRNAs and transcript targets in Camelina sativa by deep sequencing and computational methods. United States: N. p., 2015.
Web. doi:10.1371/journal.pone.0121542.
Poudel, Saroj, Aryal, Niranjan, Lu, Chaofu, & Wang, Tai. Identification of MicroRNAs and transcript targets in Camelina sativa by deep sequencing and computational methods. United States. doi:10.1371/journal.pone.0121542.
Poudel, Saroj, Aryal, Niranjan, Lu, Chaofu, and Wang, Tai. Tue .
"Identification of MicroRNAs and transcript targets in Camelina sativa by deep sequencing and computational methods". United States. doi:10.1371/journal.pone.0121542. https://www.osti.gov/servlets/purl/1202364.
@article{osti_1202364,
title = {Identification of MicroRNAs and transcript targets in Camelina sativa by deep sequencing and computational methods},
author = {Poudel, Saroj and Aryal, Niranjan and Lu, Chaofu and Wang, Tai},
abstractNote = {Camelina sativa is an annual oilseed crop that is under intensive development for renewable resources of biofuels and industrial oils. MicroRNAs, or miRNAs, are endogenously encoded small RNAs that play key roles in diverse plant biological processes. Here, we conducted deep sequencing on small RNA libraries prepared from camelina leaves, flower buds and two stages of developing seeds corresponding to initial and peak storage products accumulation. Computational analyses identified 207 known miRNAs belonging to 63 families, as well as 5 novel miRNAs. These miRNAs, especially members of the miRNA families, varied greatly in different tissues and developmental stages. The predicted miRNA target genes are involved in a broad range of physiological functions including lipid metabolism. This report is the first step toward elucidating roles of miRNAs in C. sativa and will provide additional tools to improve this oilseed crop for biofuels and biomaterials.},
doi = {10.1371/journal.pone.0121542},
journal = {PLoS ONE},
number = 3,
volume = 10,
place = {United States},
year = {2015},
month = {3}
}
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Works referencing / citing this record:
High throughput sequencing of small RNAs reveals dynamic microRNAs expression of lipid metabolism during Camellia oleifera and C. meiocarpa seed natural drying
journal, July 2017
- Feng, Jin-Ling; Yang, Zhi-Jian; Chen, Shi-Pin
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