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HITS-CLIP analysis of human ALKBH8 points towards its role in tRNA and noncoding RNA regulation

Ivana Cavallin, View ORCID ProfileMarek Bartošovič, View ORCID ProfileTomas Skalický, View ORCID ProfilePraveenkumar Rengaraj, Martina Christina Schmidt-Dengler, Aleksej Drino, View ORCID ProfileMark Helm, View ORCID ProfileŠtěpánka Vaňáčová
doi: https://doi.org/10.1101/2022.01.17.476611
Ivana Cavallin
1Central European Institute of Technology, Masaryk University, Brno, Czech Republic
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Marek Bartošovič
1Central European Institute of Technology, Masaryk University, Brno, Czech Republic
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Tomas Skalický
1Central European Institute of Technology, Masaryk University, Brno, Czech Republic
2Institute of Parasitology, Biology Centre, Czech Academy of Sciences, 370 05 České Budějovice (Budweis), Czech Republic
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Praveenkumar Rengaraj
1Central European Institute of Technology, Masaryk University, Brno, Czech Republic
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Martina Christina Schmidt-Dengler
3Johannes Gutenberg-Universität Mainz, Institute of Pharmaceutical and Biomedical Science (IPBS), D-55128 Mainz, Germany
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Aleksej Drino
4Medical University of Vienna, Center for Anatomy & Cell Biology, 1090 Vienna, Austria
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Mark Helm
3Johannes Gutenberg-Universität Mainz, Institute of Pharmaceutical and Biomedical Science (IPBS), D-55128 Mainz, Germany
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Štěpánka Vaňáčová
1Central European Institute of Technology, Masaryk University, Brno, Czech Republic
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  • ORCID record for Štěpánka Vaňáčová
  • For correspondence: stepanka.vanacova@ceitec.muni.cz
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Abstract

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-seq and RIP-seq analyses, we uncover ALKBH8-bound RNAs. It targets an additional wobble U-containing tRNA tRNALys(UUU). More interestingly, the spectrum of bound RNAs includes other types of non-coding RNAs, such as C/D box snoRNAs, 7SK RNA or some miRNAs, respectively.

Competing Interest Statement

The authors have declared no competing interest.

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Posted January 17, 2022.
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HITS-CLIP analysis of human ALKBH8 points towards its role in tRNA and noncoding RNA regulation
Ivana Cavallin, Marek Bartošovič, Tomas Skalický, Praveenkumar Rengaraj, Martina Christina Schmidt-Dengler, Aleksej Drino, Mark Helm, Štěpánka Vaňáčová
bioRxiv 2022.01.17.476611; doi: https://doi.org/10.1101/2022.01.17.476611
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HITS-CLIP analysis of human ALKBH8 points towards its role in tRNA and noncoding RNA regulation
Ivana Cavallin, Marek Bartošovič, Tomas Skalický, Praveenkumar Rengaraj, Martina Christina Schmidt-Dengler, Aleksej Drino, Mark Helm, Štěpánka Vaňáčová
bioRxiv 2022.01.17.476611; doi: https://doi.org/10.1101/2022.01.17.476611

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