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HITS-CLIP analysis of human ALKBH8 reveals interactions with fully processed substrate tRNAs and with specific noncoding RNAs
I. Cavallin, M. Bartosovic, T. Skalicky, P. Rengaraj, M. Demko, MC. Schmidt-Dengler, A. Drino, M. Helm, S. Vanacova
Language English Country United States
Document type Journal Article, Research Support, Non-U.S. Gov't
NLK
Free Medical Journals
from 1995 to 6 months ago
PubMed Central
from 1995 to 1 year ago
Europe PubMed Central
from 1995 to 1 year ago
Open Access Digital Library
from 1995-03-01
- MeSH
- AlkB Homolog 8, tRNA Methyltransferase genetics MeSH
- Anticodon MeSH
- Chromatin Immunoprecipitation Sequencing * MeSH
- Humans MeSH
- RNA, Untranslated genetics MeSH
- RNA, Transfer * genetics metabolism MeSH
- Check Tag
- Humans MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
Transfer RNAs acquire a large plethora of chemical modifications. Among those, modifications of the anticodon loop play important roles in translational fidelity and tRNA stability. Four human wobble U-containing tRNAs obtain 5-methoxycarbonylmethyluridine (mcm5U34) or 5-methoxycarbonylmethyl-2-thiouridine (mcm5s2U34), which play a role in decoding. This mark involves a cascade of enzymatic activities. The last step is mediated by alkylation repair homolog 8 (ALKBH8). In this study, we performed a transcriptome-wide analysis of the repertoire of ALKBH8 RNA targets. Using a combination of HITS-CLIP and RIP-seq analyses, we uncover ALKBH8-bound RNAs. We show that ALKBH8 targets fully processed and CCA modified tRNAs. Our analyses uncovered the previously known set of wobble U-containing tRNAs. In addition, both our approaches revealed ALKBH8 binding to several other types of noncoding RNAs, in particular C/D box snoRNAs.
Central European Institute of Technology Masaryk University 625 00 Brno Czech Republic
Medical University of Vienna Center for Anatomy and Cell Biology 1090 Vienna Austria
References provided by Crossref.org
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