↓ Skip to main content

Identification and characterization of cold-responsive microRNAs in tea plant (Camellia sinensis) and their targets using high-throughput sequencing and degradome analysis

Overview of attention for article published in BMC Plant Biology, October 2014
Altmetric Badge

Mentioned by

twitter
1 tweeter

Citations

dimensions_citation
121 Dimensions

Readers on

mendeley
78 Mendeley
You are seeing a free-to-access but limited selection of the activity Altmetric has collected about this research output. Click here to find out more.
Title
Identification and characterization of cold-responsive microRNAs in tea plant (Camellia sinensis) and their targets using high-throughput sequencing and degradome analysis
Published in
BMC Plant Biology, October 2014
DOI 10.1186/s12870-014-0271-x
Pubmed ID
Authors

Yue Zhang, Xujun Zhu, Xuan Chen, Changnian Song, Zhongwei Zou, Yuhua Wang, Mingle Wang, Wanping Fang, Xinghui Li

Abstract

BackgroundMicroRNAs (miRNAs) are approximately 19¿~¿21 nucleotide noncoding RNAs produced by Dicer-catalyzed excision from stem-loop precursors. Many plant miRNAs have critical functions in development, nutrient homeostasis, abiotic stress responses, and pathogen responses via interaction with specific target mRNAs. Camellia sinensis is one of the most important commercial beverage crops in the world. However, miRNAs associated with cold stress tolerance in C. sinensis remains unexplored. The use of high-throughput sequencing can provide a much deeper understanding of miRNAs. To obtain more insight into the function of miRNAs in cold stress tolerance, Illumina sequencing of C. sinensis sRNA was conducted.ResultSolexa sequencing technology was used for high-throughput sequencing of the small RNA library from the cold treatment of tea leaves. To align the sequencing data with known plant miRNAs, we characterized 106 conserved C. sinensis miRNAs. In addition, 215 potential candidate miRNAs were found, among, which 98 candidates with star sequences were chosen as novel miRNAs. Both congruously and differentially regulated miRNAs were obtained, and cultivar-specific miRNAs were identified by microarray-based hybridization in response to cold stress. The results were also confirmed by quantitative real-time polymerase chain reaction. To confirm the targets of miRNAs, two degradome libraries from two treatments were constructed. According to degradome sequencing, 455 and 591 genes were identified as cleavage targets of miRNAs from cold treatments and control libraries, respectively, and 283 targets were present in both libraries. Functional analysis of these miRNA targets indicated their involvement in important activities, such as development, regulation of transcription, and stress response.ConclusionsWe discovered 31 up-regulated miRNAs and 43 down-regulated miRNAs in `Yingshuang¿, and 46 up-regulated miRNA and 45 down-regulated miRNAs in `Baiye 1¿ in response to cold stress, respectively. A total of 763 related target genes were detected by degradome sequencing. The RLM-5¿RACE procedure was successfully used to map the cleavage sites in six target genes of C. sinensis. These findings reveal important information about the regulatory mechanism of miRNAs in C. sinensis, and promote the understanding of miRNA functions during the cold response. The miRNA genotype-specific expression model might explain the distinct cold sensitivities between tea lines.

Twitter Demographics

The data shown below were collected from the profile of 1 tweeter who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 78 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
India 1 1%
United States 1 1%
Unknown 76 97%

Demographic breakdown

Readers by professional status Count As %
Researcher 20 26%
Student > Ph. D. Student 17 22%
Student > Postgraduate 7 9%
Student > Bachelor 5 6%
Student > Master 5 6%
Other 12 15%
Unknown 12 15%
Readers by discipline Count As %
Agricultural and Biological Sciences 41 53%
Biochemistry, Genetics and Molecular Biology 12 15%
Medicine and Dentistry 3 4%
Environmental Science 1 1%
Chemical Engineering 1 1%
Other 2 3%
Unknown 18 23%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 23 October 2014.
All research outputs
#3,425,381
of 4,409,947 outputs
Outputs from BMC Plant Biology
#560
of 758 outputs
Outputs of similar age
#91,796
of 121,836 outputs
Outputs of similar age from BMC Plant Biology
#51
of 70 outputs
Altmetric has tracked 4,409,947 research outputs across all sources so far. This one is in the 2nd percentile – i.e., 2% of other outputs scored the same or lower than it.
So far Altmetric has tracked 758 research outputs from this source. They receive a mean Attention Score of 2.5. This one is in the 1st percentile – i.e., 1% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 121,836 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 1st percentile – i.e., 1% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 70 others from the same source and published within six weeks on either side of this one. This one is in the 1st percentile – i.e., 1% of its contemporaries scored the same or lower than it.