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Transcriptome profiling of drought responsive noncoding RNAs and their target genes in rice
Pil Joong Chung1, Harin Jung1, Dong-Hoon Jeong2
1Graduate School of International Agricultural Technology and Crop Biotechnology Institute/GreenBio Science & Technology, Seoul National University, Pyeongchang, 25354, Korea.
BMC Genomics
|August 10, 2016
Summary
This study identified 66 drought-responsive microRNAs (miRNAs) and 98 long noncoding RNAs (lncRNAs) in rice. These noncoding RNAs and their target genes are crucial for drought stress responses in plants.
Area of Science:
- Plant Biology
- Genomics
- Molecular Biology
Background:
- Transcriptome profiling aids in understanding plant stress responses.
- Genome-wide analysis reveals drought-responsive noncoding RNAs and their target genes.
Purpose of the Study:
- To identify and characterize noncoding RNAs (miRNAs and lncRNAs) involved in rice drought stress response.
- To investigate the regulatory roles of these noncoding RNAs and their target genes.
Main Methods:
- RNA sequencing (RNA-seq) of drought-stressed rice leaves.
- Quantitative reverse transcription PCR (qRT-PCR) for expression validation.
- Parallel Analysis of RNA Ends (PARE) to confirm miRNA-guided cleavage.
Main Results:
- 66 microRNAs (miRNAs) and 98 long noncoding RNAs (lncRNAs) showed significant differential expression under drought stress.
- Drought-responsive miRNAs exhibited negative correlations with their putative target genes.
- Specific miRNA/target pairs, like miR171f-5p and Os03g0828701-00, were validated.
- miR171f precursor was linked to both root development and drought stress response.
Conclusions:
- Identified key rice noncoding RNAs (66 miRNAs, 98 lncRNAs) regulated by drought stress.
- Demonstrated negative correlation between noncoding RNA transcript levels and their target genes.
- These findings provide insights into the molecular mechanisms of drought tolerance in rice.
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