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Series GSE123171 Query DataSets for GSE123171
Status Public on Nov 30, 2021
Title Identification and characterization of miRNAs during flag leaf senescence in rice by high-throughput sequencing.
Organism Oryza sativa
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary Senescence is the ultimate stage of plant development. Among the different levels of senescence processes, flag leaf senescence plays a crucial role in determining grain quality in rice. In the present study, efforts are made to identify the possible involvement of miRNAs in flag leaf senescence. Four small RNA libraries were generated from different stages of flag leaf senescence and sequenced by Illumina deep sequencing. A total of 29 known miRNA families and 494 novel miRNAs were identified in the senescing flag leaves. 21 known and 116 novel miRNAs exhibited differential expression pattern. Computational prediction and analysis of putative targets of detected miRNAs revealed that miRNAs regulate the flag leaf senescence mainly by regulating transcription factors and hormone metabolism genes. The present study gives a clue about the senescence-associated miRNAs which can be used as a tool for manipulating flag leaf senescence in rice and other crops.
 
Overall design Total four small RNA libraries of flag leaf senescence (US, ES, MS and LS) were constructed and high-throughput sequencing was performed using Illumina GA Iix system .
 
Contributor(s) Sasi JM, Kumar CV, Mani B, Bhardwaj A, Agarwal M, Katiyar-Agarwal S
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Submission date Nov 30, 2018
Last update date Dec 01, 2021
Contact name Jyothish M S
E-mail(s) jyothishmadambi@gmail.com
Phone 8800523700
Organization name University of Delhi
Department Department of Plant Molecular Biology
Lab Lab No.314
Street address Benito Juarez road
City New Delhi
State/province Delhi
ZIP/Postal code 110021
Country India
 
Platforms (1)
GPL15432 Illumina Genome Analyzer IIx (Oryza sativa)
Samples (4)
GSM3497928 un-senesced_leaf [US]
GSM3497929 early senescence_leaf [ES]
GSM3497930 mid-senescence_leaf [MS]
Relations
BioProject PRJNA507760
SRA SRP171627

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE123171_FLS_matrix_file.txt.gz 10.4 Kb (ftp)(http) TXT
GSE123171_FLS_summary.txt.gz 51.8 Kb (ftp)(http) TXT
GSE123171_RAW.tar 184.0 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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