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| Status |
Public on Jul 27, 2014 |
| Title |
Characterization of Sus scrofa small RNA sequences present in both female and male gonads |
| Organism |
Sus scrofa |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
We used deep sequencing to characterize 3 families of sRNAs (piRNAs, miRNAs, and tRFs) present in Sus scrofa gonads and focused on the sRNA fraction present in both male and female gonads. Of the sequences detected in the testes, 2.6% of piRNAs, 9% of miRNAs, and 10% of tRFs were also present in the ovaries.
Notably, the majority of the shared piRNAs mapped to the introns of ribosomal RNAs and were derived from clustered loci. In addition, the most abundant miRNAs present in the ovaries and testes are conserved and are involved in many biological processes such as the regulation of homeobox genes, the control of cell proliferation, and carcinogenesis.
Unexpectedly, we detected a novel sRNA type, the tRFs, which are 30–36-nt RNA fragments derived from tRNA molecules, in gonads
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| Overall design |
Determination miRNA, piRNA and tRF expression in swine gonads
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| Contributor(s) |
Kowalczykiewicz D, Świercz A, Handschuh L, Wiechetek K, Figlerowicz M, Wrzesinski J |
| Citation(s) |
25415416 |
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| Submission date |
May 07, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Aleksandra Maria Swiercz |
| E-mail(s) |
aswiercz@cs.put.poznan.pl
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| Organization name |
Poznan University of Technology
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| Department |
Institute of Computing Science
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| Street address |
Piotrowo 2
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| City |
Poznan |
| ZIP/Postal code |
60-965 |
| Country |
Poland |
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| Platforms (1) |
| GPL15064 |
Illumina Genome Analyzer IIx (Sus scrofa) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA246414 |
| SRA |
SRP041762 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE57414_RAW.tar |
9.5 Mb |
(http)(custom) |
TAR (of FA) |
| GSE57414_Tables_both.pdf.gz |
205.4 Kb |
(ftp)(http) |
PDF |
| GSE57414_both_miRNA.fa.gz |
143.7 Kb |
(ftp)(http) |
FA |
| GSE57414_both_piRNA.fa.gz |
220.6 Kb |
(ftp)(http) |
FA |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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