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Series GSE135614 Query DataSets for GSE135614
Status Public on Aug 10, 2019
Title Identification of known and novel miRNAs in the apical and basal spikelets of rice Oryza sativa cv. Mahalaxmi
Organism Oryza sativa
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary The advent of next generation sequencing (NGS) has greatly enriched the database of miRNAs. For plants so far 8455 miRNAs sequences from 73 species and 15401 miRNAs sequences from 150 species have been deposited in miRBase 22.0 and Plant Non-coding RNA Database, respectively. The occurrence of miRNAs in such a huge number, which is still increasing, is because of the fact that the profile of miRNAs expression differs greatly from species to species, both quantitatively and qualitatively. Besides, even within a species it is expected that the miRNA expression profile would differ from cultivar to cultivar depending on the trait with regard to which the two cultivars differ. Beises, the expression of a miRNA in a plant organ may differ depending upon it spatial location. The same is reflected in the NGS data of the apical and basal spikelets of the panicle of the rice cultivar Mahalaxmi.
 
Overall design Spikelets of Oryza sativa cv. Mahalaxmi were sampled on the 6th days after fertilization from the apical and basal region. sRNAs were isolated from the apical and basal spikelets. Known and novel miRnAs were identified bioinformatically, and their expression was validated by Northern.
 
Contributor(s) Shaw BP, Chandra T, Mishra S
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Submission date Aug 09, 2019
Last update date Aug 12, 2019
Contact name Birendra Prasad Shaw
E-mail(s) bpsils@yahoo.com
Phone 9437488362
Organization name Institute of Life Sciences
Street address Nalco Square, Besides Kalinga Hospital
City Bhubaneswar
State/province Odisha
ZIP/Postal code 751023
Country India
 
Platforms (1)
GPL27029 Ion Torrent Proton (Oryza sativa)
Samples (2)
GSM4023430 sRNA apical spikelets
GSM4023431 sRNA basal spikelets
Relations
BioProject PRJNA559463
SRA SRP217902

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SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE135614_RAW.tar 160.0 Kb (http)(custom) TAR (of XLSX)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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