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  Mapping the small RNA content of simian immunodeficiency virions (SIV)

Brameier, M., Ibing, W., Höfer, K., Montag, J., Stahl-Hennig, C., & Motzkus, D. (2013). Mapping the small RNA content of simian immunodeficiency virions (SIV). PLoS One, 8(9), e75063. doi:10.1371/journal.pone.0075063.

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Brameier, M., Author
Ibing, W., Author
Höfer, K.1, 2, Author           
Montag, J., Author
Stahl-Hennig, C., Author
Motzkus, D., Author
Affiliations:
1Unit of Infection Models, German Primate Center, Göttingen, Germany, ou_persistent22              
2Institute of Pharmacy and Molecular Biotechnology (IPMB), Heidelberg University, ou_persistent22              

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Free keywords: Base Sequence Cell Line Exosomes/metabolism High-Throughput Nucleotide Sequencing Humans MicroRNAs/genetics/metabolism Molecular Sequence Data RNA, Ribosomal/genetics/metabolism RNA, Small Cytoplasmic/genetics/metabolism RNA, Small Nucleolar/genetics/metabolism RNA, Transfer, Lys/genetics/metabolism RNA, Untranslated/metabolism RNA, Viral/genetics/*metabolism Signal Recognition Particle/genetics/metabolism Simian Immunodeficiency Virus/*genetics Virion/*genetics
 Abstract: Recent evidence indicates that regulatory small non-coding RNAs are not only components of eukaryotic cells and vesicles, but also reside within a number of different viruses including retroviral particles. Using ultra-deep sequencing we have comprehensively analyzed the content of simian immunodeficiency virions (SIV), which were compared to mock-control preparations. Our analysis revealed that more than 428,000 sequence reads matched the SIV mac239 genome sequence. Among these we could identify 12 virus-derived small RNAs (vsRNAs) that were highly abundant. Beside known retrovirus-enriched small RNAs, like 7SL-RNA, tRNA(Lys3) and tRNA(Lys) isoacceptors, we also identified defined fragments derived from small ILF3/NF90-associated RNA snaR-A14, that were enriched more than 50 fold in SIV. We also found evidence that small nucleolar RNAs U2 and U12 were underrepresented in the SIV preparation, indicating that the relative number or the content of co-isolated exosomes was changed upon infection. Our comprehensive atlas of SIV-incorporated small RNAs provides a refined picture of the composition of retrovirions, which gives novel insights into viral packaging.

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 Dates: 2013-10-03
 Publication Status: Issued
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 Identifiers: Other: 24086438
DOI: 10.1371/journal.pone.0075063
ISSN: 1932-6203 (Electronic)1932-6203 (Linking)
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Title: PLoS One
Source Genre: Journal
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Pages: - Volume / Issue: 8 (9) Sequence Number: - Start / End Page: e75063 Identifier: -