期刊
RNA
卷 28, 期 12, 页码 1568-1581出版社
COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT
DOI: 10.1261/rna.079421.122
关键词
ALKBH8; Trm9; wobble uridine modification; mcm(5)U; mcm(5)s(2)U; HITS-CLIP
资金
- Czech Science Foundation [19-21829S, 20-19617S]
- Ministry of Education, Youth and Sports within program INTER-COST [LTC18052]
- CEITEC 2020 [LQ1601]
- Brno City Municipality Scholarship for Talented Ph.D. Students
- MEYS CR [LM2018129]
- project e-Infrastruktura CZ within the program Projects of Large Research, Development, and Innovations Infrastructures [e-INFRA LM2018140]
This study analyzed the RNA targets of ALKBH8 and found that ALKBH8 not only binds to a known set of tRNAs containing wobble U, but also to several other types of noncoding RNAs.
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 (mcm(5)U(34)) or 5-methoxycarbonylmethyl-2-thiouridine (mcm(5)s(2)U(34)), 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.
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