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| Status |
Public on Nov 11, 2010 |
| Title |
Identification of miRNAs and their target genes in developing seeds of soybean by deep sequencing |
| Organism |
Glycine max |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
In our study, small RNA library and degradome library were constructed from developing soybean seeds for deep sequencing. We identified 26 new miRNAs in soybean by bioinformatic analysis, and further confirmed their expression by stem-loop RT-PCR. The miRNA star sequences of 38 known miRNAs and 8 new miRNAs were also discovered, providing additional evidence for the existence of miRNAs. Through degradome sequencing, 145 and 25 genes were identified as targets of annotated miRNAs and new miRNAs, respectively. Many identified miRNA targets may perform functions in soybean seed development by GO analysis. Additionally, soybean homolog of Arabidopsis SUPPRESSOR OF GENE SLIENCING 3(AtSGS3) was detected as target of the new identified miRNA Soy_25, suggesting presence of feedback control of miRNA biogenesis
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| Overall design |
sample 1: Examination of small RNA in soybean seed
sample 2: identification of miRNA targets in soybean seed
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| Contributor(s) |
Song Q, Zhang J |
| Citation(s) |
21219599 |
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| Submission date |
Nov 10, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Jinsong Zhang |
| E-mail(s) |
jszhang@genetics.ac.cn
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| Organization name |
IGDB
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| Street address |
No.1 West Beichen Road,Chaoyang District
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| City |
beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
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| Platforms (1) |
| GPL11192 |
Illumina Genome Analyzer II (Glycine max) |
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| Samples (2) |
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| Relations |
| SRA |
SRP004444 |
| BioProject |
PRJNA134691 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE25260_RAW.tar |
28.7 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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