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Structural and functional basis of mammalian microRNA biogenesis by Dicer

D. Zapletal, E. Taborska, J. Pasulka, R. Malik, K. Kubicek, M. Zanova, C. Much, M. Sebesta, V. Buccheri, F. Horvat, I. Jenickova, M. Prochazkova, J. Prochazka, M. Pinkas, J. Novacek, DF. Joseph, R. Sedlacek, C. Bernecky, D. O'Carroll, R. Stefl, P. Svoboda

. 2022 ; 82 (21) : 4064-4079.e13. [pub] 2022Nov03

Language English Country United States

Document type Journal Article, Research Support, Non-U.S. Gov't, Comment

Persistent link   https://www.medvik.cz/link/bmc22032737

MicroRNA (miRNA) and RNA interference (RNAi) pathways rely on small RNAs produced by Dicer endonucleases. Mammalian Dicer primarily supports the essential gene-regulating miRNA pathway, but how it is specifically adapted to miRNA biogenesis is unknown. We show that the adaptation entails a unique structural role of Dicer's DExD/H helicase domain. Although mice tolerate loss of its putative ATPase function, the complete absence of the domain is lethal because it assures high-fidelity miRNA biogenesis. Structures of murine Dicer•-miRNA precursor complexes revealed that the DExD/H domain has a helicase-unrelated structural function. It locks Dicer in a closed state, which facilitates miRNA precursor selection. Transition to a cleavage-competent open state is stimulated by Dicer-binding protein TARBP2. Absence of the DExD/H domain or its mutations unlocks the closed state, reduces substrate selectivity, and activates RNAi. Thus, the DExD/H domain structurally contributes to mammalian miRNA biogenesis and underlies mechanistical partitioning of miRNA and RNAi pathways.

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$a Structural and functional basis of mammalian microRNA biogenesis by Dicer / $c D. Zapletal, E. Taborska, J. Pasulka, R. Malik, K. Kubicek, M. Zanova, C. Much, M. Sebesta, V. Buccheri, F. Horvat, I. Jenickova, M. Prochazkova, J. Prochazka, M. Pinkas, J. Novacek, DF. Joseph, R. Sedlacek, C. Bernecky, D. O'Carroll, R. Stefl, P. Svoboda
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$a MicroRNA (miRNA) and RNA interference (RNAi) pathways rely on small RNAs produced by Dicer endonucleases. Mammalian Dicer primarily supports the essential gene-regulating miRNA pathway, but how it is specifically adapted to miRNA biogenesis is unknown. We show that the adaptation entails a unique structural role of Dicer's DExD/H helicase domain. Although mice tolerate loss of its putative ATPase function, the complete absence of the domain is lethal because it assures high-fidelity miRNA biogenesis. Structures of murine Dicer•-miRNA precursor complexes revealed that the DExD/H domain has a helicase-unrelated structural function. It locks Dicer in a closed state, which facilitates miRNA precursor selection. Transition to a cleavage-competent open state is stimulated by Dicer-binding protein TARBP2. Absence of the DExD/H domain or its mutations unlocks the closed state, reduces substrate selectivity, and activates RNAi. Thus, the DExD/H domain structurally contributes to mammalian miRNA biogenesis and underlies mechanistical partitioning of miRNA and RNAi pathways.
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$a Taborska, Eliska $u Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic
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$a Pasulka, Josef $u Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic
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$a Malik, Radek $u Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic
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$a Kubicek, Karel $u CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic; Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic
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$a Zanova, Martina $u CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic
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$a Much, Christian $u Centre for Regenerative Medicine, Institute for Regeneration and Repair, Institute for Stem Cell Research, School of Biological Sciences, University of Edinburgh, 5 Little France Drive, Edinburgh EH16 4UU, UK; European Molecular Biology Laboratory (EMBL), Mouse Biology Unit, Via Ramarini 32, Monterotondo Scalo 00015, Italy
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$a Sebesta, Marek $u CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic
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$a Horvat, Filip $u Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic; Bioinformatics Group, Department of Biology, Faculty of Science, University of Zagreb, Horvatovac 102a, 10000 Zagreb, Croatia
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$a Jenickova, Irena $u Czech Centre for Phenogenomics and Laboratory of Transgenic Models of Diseases, Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Prumyslova 595, 252 50 Vestec, Czech Republic
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$a Prochazkova, Michaela $u Czech Centre for Phenogenomics and Laboratory of Transgenic Models of Diseases, Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Prumyslova 595, 252 50 Vestec, Czech Republic
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$a Prochazka, Jan $u Czech Centre for Phenogenomics and Laboratory of Transgenic Models of Diseases, Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Prumyslova 595, 252 50 Vestec, Czech Republic
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$a Pinkas, Matyas $u CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic
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$a Novacek, Jiri $u CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic
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$a Joseph, Diego F $u Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic
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$a Sedlacek, Radislav $u Czech Centre for Phenogenomics and Laboratory of Transgenic Models of Diseases, Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Prumyslova 595, 252 50 Vestec, Czech Republic
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$a Bernecky, Carrie $u Institute of Science and Technology Austria (ISTA), Am Campus 1, 3400 Klosterneuburg, Austria
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$a O'Carroll, Dónal $u Centre for Regenerative Medicine, Institute for Regeneration and Repair, Institute for Stem Cell Research, School of Biological Sciences, University of Edinburgh, 5 Little France Drive, Edinburgh EH16 4UU, UK; European Molecular Biology Laboratory (EMBL), Mouse Biology Unit, Via Ramarini 32, Monterotondo Scalo 00015, Italy; Wellcome Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, UK
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$a Stefl, Richard $u CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic; National Centre for Biomolecular Research, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic. Electronic address: richard.stefl@ceitec.muni.cz
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$a Svoboda, Petr $u Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Videnska 1083, 142 20 Prague 4, Czech Republic. Electronic address: svobodap@img.cas.cz
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