Proteome-Wide Analysis of ADAR-Mediated Messenger RNA Editing during Fruit Fly Ontogeny
Adenosine-to-inosine RNA editing is an enzymatic post-transcriptional modification which modulates immunity and neural transmission in multicellular organisms. In particular, it involves editing of mRNA codons with the resulting amino acid substitutions. We identified such sites for developmental pr...
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Published in | Journal of proteome research Vol. 19; no. 10; pp. 4046 - 4060 |
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Main Authors | , , , , , , , , , , , |
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Language | English |
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American Chemical Society
02.10.2020
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Abstract | Adenosine-to-inosine RNA editing is an enzymatic post-transcriptional modification which modulates immunity and neural transmission in multicellular organisms. In particular, it involves editing of mRNA codons with the resulting amino acid substitutions. We identified such sites for developmental proteomes of Drosophila melanogaster at the protein level using available data for 15 stages of fruit fly development from egg to imago and 14 time points of embryogenesis. In total, 40 sites were obtained, each belonging to a unique protein, including four sites related to embryogenesis. The interactome analysis has revealed that the majority of the editing-recoded proteins were associated with synaptic vesicle trafficking and actomyosin organization. Quantitation data analysis suggested the existence of a phase-specific RNA editing regulation with yet unknown mechanisms. These findings supported the transcriptome analysis results, which showed that a burst in the RNA editing occurs during insect metamorphosis from pupa to imago. Finally, targeted proteomic analysis was performed to quantify editing-recoded and genomically encoded versions of five proteins in brains of larvae, pupae, and imago insects, which showed a clear tendency toward an increase in the editing rate for each of them. These results will allow a better understanding of the protein role in physiological effects of RNA editing. |
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AbstractList | Adenosine-to-inosine RNA editing is an enzymatic post-transcriptional modification which modulates immunity and neural transmission in multicellular organisms. In particular, it involves editing of mRNA codons with the resulting amino acid substitutions. We identified such sites for developmental proteomes of
at the protein level using available data for 15 stages of fruit fly development from egg to imago and 14 time points of embryogenesis. In total, 40 sites were obtained, each belonging to a unique protein, including four sites related to embryogenesis. The interactome analysis has revealed that the majority of the editing-recoded proteins were associated with synaptic vesicle trafficking and actomyosin organization. Quantitation data analysis suggested the existence of a phase-specific RNA editing regulation with yet unknown mechanisms. These findings supported the transcriptome analysis results, which showed that a burst in the RNA editing occurs during insect metamorphosis from pupa to imago. Finally, targeted proteomic analysis was performed to quantify editing-recoded and genomically encoded versions of five proteins in brains of larvae, pupae, and imago insects, which showed a clear tendency toward an increase in the editing rate for each of them. These results will allow a better understanding of the protein role in physiological effects of RNA editing. Adenosine-to-inosine RNA editing is an enzymatic post-transcriptional modification which modulates immunity and neural transmission in multicellular organisms. In particular, it involves editing of mRNA codons with the resulting amino acid substitutions. We identified such sites for developmental proteomes of Drosophila melanogaster at the protein level using available data for 15 stages of fruit fly development from egg to imago and 14 time points of embryogenesis. In total, 40 sites were obtained, each belonging to a unique protein, including four sites related to embryogenesis. The interactome analysis has revealed that the majority of the editing-recoded proteins were associated with synaptic vesicle trafficking and actomyosin organization. Quantitation data analysis suggested the existence of a phase-specific RNA editing regulation with yet unknown mechanisms. These findings supported the transcriptome analysis results, which showed that a burst in the RNA editing occurs during insect metamorphosis from pupa to imago. Finally, targeted proteomic analysis was performed to quantify editing-recoded and genomically encoded versions of five proteins in brains of larvae, pupae, and imago insects, which showed a clear tendency toward an increase in the editing rate for each of them. These results will allow a better understanding of the protein role in physiological effects of RNA editing. |
Author | Levitsky, Lev I Pyatnitskiy, Mikhail A Kliuchnikova, Anna A Goncharov, Anton O Kuznetsova, Ksenia G Ilina, Irina Y Zgoda, Victor G Gorshkov, Mikhail V Moshkovskii, Sergei A Novikova, Svetlana E Farafonova, Tatyana E Ivanov, Mark V |
AuthorAffiliation | V.L. Talrose Institute for Energy Problems of Chemical Physics Skolkovo Institute of Science and Technology Institute of Biomedical Chemistry Pirogov Russian National Research Medical University |
AuthorAffiliation_xml | – name: Institute of Biomedical Chemistry – name: V.L. Talrose Institute for Energy Problems of Chemical Physics – name: Pirogov Russian National Research Medical University – name: Skolkovo Institute of Science and Technology |
Author_xml | – sequence: 1 givenname: Anna A orcidid: 0000-0001-9230-1238 surname: Kliuchnikova fullname: Kliuchnikova, Anna A organization: Pirogov Russian National Research Medical University – sequence: 2 givenname: Anton O surname: Goncharov fullname: Goncharov, Anton O organization: Institute of Biomedical Chemistry – sequence: 3 givenname: Lev I orcidid: 0000-0002-4048-0876 surname: Levitsky fullname: Levitsky, Lev I organization: V.L. Talrose Institute for Energy Problems of Chemical Physics – sequence: 4 givenname: Mikhail A surname: Pyatnitskiy fullname: Pyatnitskiy, Mikhail A organization: Institute of Biomedical Chemistry – sequence: 5 givenname: Svetlana E orcidid: 0000-0003-2777-2476 surname: Novikova fullname: Novikova, Svetlana E organization: Institute of Biomedical Chemistry – sequence: 6 givenname: Ksenia G orcidid: 0000-0001-7447-4047 surname: Kuznetsova fullname: Kuznetsova, Ksenia G – sequence: 7 givenname: Mark V orcidid: 0000-0003-4762-2846 surname: Ivanov fullname: Ivanov, Mark V organization: V.L. Talrose Institute for Energy Problems of Chemical Physics – sequence: 8 givenname: Irina Y surname: Ilina fullname: Ilina, Irina Y – sequence: 9 givenname: Tatyana E surname: Farafonova fullname: Farafonova, Tatyana E organization: Institute of Biomedical Chemistry – sequence: 10 givenname: Victor G surname: Zgoda fullname: Zgoda, Victor G organization: Skolkovo Institute of Science and Technology – sequence: 11 givenname: Mikhail V orcidid: 0000-0001-9572-3452 surname: Gorshkov fullname: Gorshkov, Mikhail V organization: V.L. Talrose Institute for Energy Problems of Chemical Physics – sequence: 12 givenname: Sergei A surname: Moshkovskii fullname: Moshkovskii, Sergei A email: smosh@mail.ru organization: Pirogov Russian National Research Medical University |
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SubjectTerms | Adenosine Deaminase - genetics Adenosine Deaminase - metabolism Animals Drosophila melanogaster - genetics Drosophila melanogaster - metabolism Drosophila Proteins - genetics Drosophila Proteins - metabolism Inosine - metabolism Proteome - genetics Proteome - metabolism Proteomics RNA Editing RNA, Messenger - genetics |
Title | Proteome-Wide Analysis of ADAR-Mediated Messenger RNA Editing during Fruit Fly Ontogeny |
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