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| Status |
Public on Mar 09, 2011 |
| Title |
Small RNA sequences from Schizosaccharomyces japonicus |
| Organism |
Schizosaccharomyces japonicus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Small interfering RNAs (siRNAs) are known to be involved in both transposon silencing and centromere function, leading us to investigate the interplay between these two roles in the Schizosaccharomyces lineage. In S. pombe, the centromeric repeats produce dicer-dependent siRNAs that are required for maintenance of centromeric structure, function and transcriptional silencing via Argonaute-dependent heterochromatin formation13. However, transposons are silenced in S. pombe by RNAi-independent mechanisms and do not produce abundant siRNAs. To investigate whether centromere-directed siRNA production is conserved within the transposon-rich centromeres of S. japonicus, we isolated and sequenced small RNAs from log-phase S. japonicus cultures. The small RNAs have a modal size of 23 nucleotides and 94% map to transposons, both telomeric and centromeric.
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| Overall design |
Isolation and computational analysis of small RNAs from wild-type S. japonicus
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| Contributor(s) |
Martienssen R, Vaughn M, Hansen K |
| Citation(s) |
21511999 |
| |
| Submission date |
Mar 08, 2011 |
| Last update date |
Jun 11, 2013 |
| Contact name |
Matthew Wayne Vaughn |
| E-mail(s) |
[email protected]
|
| Phone |
(512) 232-7124
|
| Organization name |
University of Texas at Austin
|
| Department |
Texas Advanced Computing Center
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| Lab |
Vaughn
|
| Street address |
10100 Burnet Rd
|
| City |
Austin |
| State/province |
TX |
| ZIP/Postal code |
78758 |
| Country |
USA |
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| Platforms (1) |
| GPL13256 |
Illumina Genome Analyzer II (Schizosaccharomyces japonicus) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA138031 |
