Comparison of RNA Editing Activity of APOBEC1-A1CF and APOBEC1-RBM47 Complexes Reconstituted in HEK293T Cells
RNA editing is an important form of regulating gene expression and activity. APOBEC1 cytosine deaminase was initially characterized as pairing with a cofactor, A1CF, to form an active RNA editing complex that specifically targets APOB RNA in regulating lipid metabolism. Recent studies revealed that...
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Published in | Journal of molecular biology Vol. 431; no. 7; pp. 1506 - 1517 |
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Main Authors | , , |
Format | Journal Article |
Language | English |
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Elsevier Ltd
29.03.2019
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Abstract | RNA editing is an important form of regulating gene expression and activity. APOBEC1 cytosine deaminase was initially characterized as pairing with a cofactor, A1CF, to form an active RNA editing complex that specifically targets APOB RNA in regulating lipid metabolism. Recent studies revealed that APOBEC1 may be involved in editing other potential RNA targets in a tissue-specific manner, and another protein, RBM47, appears to instead be the main cofactor of APOBEC1 for editing APOB RNA. In this report, by expressing APOBEC1 with either A1CF or RBM47 from human or mouse in an HEK293T cell line with no intrinsic APOBEC1/A1CF/RBM47 expression, we have compared direct RNA editing activity on several known cellular target RNAs. By using a sensitive cell-based fluorescence assay that enables comparative quantification of RNA editing through subcellular localization changes of eGFP, the two APOBEC1 cofactors, A1CF and RBM47, showed clear differences for editing activity on APOB and several other tested RNAs, and clear differences were observed when mouse versus human genes were tested. In addition, we have determined the minimal domain requirement of RBM47 needed for activity. These results provide useful functional characterization of RBM47 and direct biochemical evidence for the differential editing selectivity on a number of RNA targets.
[Display omitted]
•RNA editing is detectable by subcellular localization changes of fluorescence signals due to loss of nuclear export signal fused to GFP.•APO1 + RBM47 complex is more active than APO1 + A1CF in editing ApoB mRNA, the canonical substrate of APO1.•The N-terminal RBM47 domains necessary and sufficient for APO1 activity share high homology with A1CF, but the C-terminal domains not needed for RNA editing activity share little homology between the two proteins.•Editing can be observed for substrates other than APOB, and different editing efficiencies were observed depending on whether A1CF or RBM47 was used as the cofactor.•There are significant differences in substrate preferences between human APO1 + A1CF/RBM47 or mouse APO1 + A1CF/RBM47 |
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AbstractList | RNA editing is an important form of regulating gene expression and activity. APOBEC1 cytosine deaminase was initially characterized as pairing with a cofactor, A1CF, to form an active RNA editing complex that specifically targets
APOB
RNA in regulating lipid metabolism. Recent studies revealed that APOBEC1 may be involved in editing other potential RNA targets in a tissue specific manner, and another protein, RBM47, appears to instead be the main cofactor of APOBEC1 for editing
APOB
RNA. In this report, by expressing APOBEC1 with either A1CF or RBM47 from human or mouse in an HEK293T cell line with no intrinsic APOBEC1/A1CF/RBM47 expression, we have compared direct RNA editing activity on several known cellular target RNAs. By using a sensitive cell-based fluorescence assay that enables comparative quantification of RNA editing through subcellular localization changes of eGFP, the two APOBEC1 cofactors, A1CF and RBM47, showed clear differences for editing activity on
APOB
and several other tested RNAs, and clear differences were observed when mouse vs. human genes were tested. In addition, we have determined the minimal domain requirement of RBM47 needed for activity. These results provide useful functional characterization of RBM47 and direct biochemical evidence for the differential editing selectivity on a number of RNA targets. RNA editing is an important form of regulating gene expression and activity. APOBEC1 cytosine deaminase was initially characterized as pairing with a cofactor, A1CF, to form an active RNA editing complex that specifically targets APOB RNA in regulating lipid metabolism. Recent studies revealed that APOBEC1 may be involved in editing other potential RNA targets in a tissue-specific manner, and another protein, RBM47, appears to instead be the main cofactor of APOBEC1 for editing APOB RNA. In this report, by expressing APOBEC1 with either A1CF or RBM47 from human or mouse in an HEK293T cell line with no intrinsic APOBEC1/A1CF/RBM47 expression, we have compared direct RNA editing activity on several known cellular target RNAs. By using a sensitive cell-based fluorescence assay that enables comparative quantification of RNA editing through subcellular localization changes of eGFP, the two APOBEC1 cofactors, A1CF and RBM47, showed clear differences for editing activity on APOB and several other tested RNAs, and clear differences were observed when mouse versus human genes were tested. In addition, we have determined the minimal domain requirement of RBM47 needed for activity. These results provide useful functional characterization of RBM47 and direct biochemical evidence for the differential editing selectivity on a number of RNA targets. RNA editing is an important form of regulating gene expression and activity. APOBEC1 cytosine deaminase was initially characterized as pairing with a cofactor, A1CF, to form an active RNA editing complex that specifically targets APOB RNA in regulating lipid metabolism. Recent studies revealed that APOBEC1 may be involved in editing other potential RNA targets in a tissue-specific manner, and another protein, RBM47, appears to instead be the main cofactor of APOBEC1 for editing APOB RNA. In this report, by expressing APOBEC1 with either A1CF or RBM47 from human or mouse in an HEK293T cell line with no intrinsic APOBEC1/A1CF/RBM47 expression, we have compared direct RNA editing activity on several known cellular target RNAs. By using a sensitive cell-based fluorescence assay that enables comparative quantification of RNA editing through subcellular localization changes of eGFP, the two APOBEC1 cofactors, A1CF and RBM47, showed clear differences for editing activity on APOB and several other tested RNAs, and clear differences were observed when mouse versus human genes were tested. In addition, we have determined the minimal domain requirement of RBM47 needed for activity. These results provide useful functional characterization of RBM47 and direct biochemical evidence for the differential editing selectivity on a number of RNA targets. [Display omitted] •RNA editing is detectable by subcellular localization changes of fluorescence signals due to loss of nuclear export signal fused to GFP.•APO1 + RBM47 complex is more active than APO1 + A1CF in editing ApoB mRNA, the canonical substrate of APO1.•The N-terminal RBM47 domains necessary and sufficient for APO1 activity share high homology with A1CF, but the C-terminal domains not needed for RNA editing activity share little homology between the two proteins.•Editing can be observed for substrates other than APOB, and different editing efficiencies were observed depending on whether A1CF or RBM47 was used as the cofactor.•There are significant differences in substrate preferences between human APO1 + A1CF/RBM47 or mouse APO1 + A1CF/RBM47 |
Author | Chen, Xiaojiang S. Arnold, Don B. Wolfe, Aaron D. |
AuthorAffiliation | 2 Genetic, Molecular and Cellular Biology Program, Keck School of Medicine 4 Norris Comprehensive Cancer Center; University of Southern California, Los Angeles, CA 90089, USA 3 Center of Excellence in NanoBiophysics 1 Molecular and Computational Biology, Departments of Biological Sciences, Chemistry |
AuthorAffiliation_xml | – name: 2 Genetic, Molecular and Cellular Biology Program, Keck School of Medicine – name: 3 Center of Excellence in NanoBiophysics – name: 4 Norris Comprehensive Cancer Center; University of Southern California, Los Angeles, CA 90089, USA – name: 1 Molecular and Computational Biology, Departments of Biological Sciences, Chemistry |
Author_xml | – sequence: 1 givenname: Aaron D. surname: Wolfe fullname: Wolfe, Aaron D. organization: Molecular and Computational Biology, Department of Biological Sciences, Chemistry, University of Southern California, Los Angeles, CA 90089, USA – sequence: 2 givenname: Don B. surname: Arnold fullname: Arnold, Don B. organization: Molecular and Computational Biology, Department of Biological Sciences, Chemistry, University of Southern California, Los Angeles, CA 90089, USA – sequence: 3 givenname: Xiaojiang S. surname: Chen fullname: Chen, Xiaojiang S. email: xiaojiac@usc.edu organization: Molecular and Computational Biology, Department of Biological Sciences, Chemistry, University of Southern California, Los Angeles, CA 90089, USA |
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CitedBy_id | crossref_primary_10_1016_j_jmb_2023_168198 crossref_primary_10_1016_j_jmb_2023_168333 crossref_primary_10_1093_nar_gkaa1201 crossref_primary_10_1186_s13578_024_01216_6 crossref_primary_10_3390_v13030497 crossref_primary_10_4049_jimmunol_1901387 crossref_primary_10_1007_s11010_021_04256_5 crossref_primary_10_1038_s41598_022_19067_x crossref_primary_10_1261_rna_078678_121 crossref_primary_10_1093_narcan_zcaa027 crossref_primary_10_1002_iid3_379 crossref_primary_10_1002_wrna_1863 crossref_primary_10_3389_fonc_2019_00692 crossref_primary_10_1016_j_jgg_2021_05_006 |
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Keywords | APOBEC1 RNA editing RBM47 cofactor A1CF and RBM47 cell-based RNA editing assay A1CF NES APO1 |
Language | English |
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Snippet | RNA editing is an important form of regulating gene expression and activity. APOBEC1 cytosine deaminase was initially characterized as pairing with a cofactor,... |
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SubjectTerms | Animals APOBEC-1 Deaminase - chemistry APOBEC-1 Deaminase - genetics APOBEC-1 Deaminase - metabolism APOBEC1 cell-based RNA editing assay cofactor A1CF and RBM47 Gene Expression Regulation HEK293 Cells Humans Mice RNA Editing RNA, Messenger - metabolism RNA-Binding Proteins - chemistry RNA-Binding Proteins - genetics RNA-Binding Proteins - metabolism |
Title | Comparison of RNA Editing Activity of APOBEC1-A1CF and APOBEC1-RBM47 Complexes Reconstituted in HEK293T Cells |
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