| Year |
Citation |
Score |
| 2023 |
Silveira d'Almeida G, Casius A, Henderson JC, Knuesel S, Aphasizhev R, Aphasizheva I, Manning AC, Lowe T, Alfonzo JD. tRNA has an unusually short half-life in . Rna (New York, N.Y.). PMID 37197826 DOI: 10.1261/rna.079674.123 |
0.428 |
|
| 2022 |
Dolce LG, Zimmer AA, Tengo L, Weis F, Rubio MAT, Alfonzo JD, Kowalinski E. Structural basis for sequence-independent substrate selection by eukaryotic wobble base tRNA deaminase ADAT2/3. Nature Communications. 13: 6737. PMID 36347890 DOI: 10.1038/s41467-022-34441-z |
0.472 |
|
| 2022 |
Bertotti S, Fleming I, Cámara MLM, Centeno Cameán C, Carmona SJ, Agüero F, Balouz V, Zahn A, Di Noia JM, Alfonzo JD, Buscaglia CA. Characterization of ADAT2/3 molecules in Trypanosoma cruzi and regulation of mucin gene expression by tRNA editing. The Biochemical Journal. 479: 561-580. PMID 35136964 DOI: 10.1042/BCJ20210850 |
0.315 |
|
| 2021 |
Kowalinski E, Alfonzo JD. METTLing in the right place: METTL8 is a mitochondrial tRNA-specific methyltransferase. Molecular Cell. 81: 4765-4767. PMID 34861186 DOI: 10.1016/j.molcel.2021.11.009 |
0.444 |
|
| 2021 |
Das AS, Alfonzo JD, Accornero F. The importance of RNA modifications: From cells to muscle physiology. Wiley Interdisciplinary Reviews. Rna. e1700. PMID 34664402 DOI: 10.1002/wrna.1700 |
0.358 |
|
| 2021 |
Alfonzo JD, Brown JA, Byers PH, Cheung VG, Maraia RJ, Ross RL. A call for direct sequencing of full-length RNAs to identify all modifications. Nature Genetics. PMID 34267373 DOI: 10.1038/s41588-021-00903-1 |
0.302 |
|
| 2021 |
Kulkarni S, Rubio MAT, Hegedűsová E, Ross RL, Limbach PA, Alfonzo JD, Paris Z. Preferential import of queuosine-modified tRNAs into Trypanosoma brucei mitochondrion is critical for organellar protein synthesis. Nucleic Acids Research. PMID 34244755 DOI: 10.1093/nar/gkab567 |
0.471 |
|
| 2020 |
Accornero F, Ross RL, Alfonzo JD. From canonical to modified nucleotides: balancing translation and metabolism. Critical Reviews in Biochemistry and Molecular Biology. 1-16. PMID 32933330 DOI: 10.1080/10409238.2020.1818685 |
0.322 |
|
| 2020 |
Dixit S, Alfonzo JD, Lukeš J. RNA-Binding Proteins and Their Targets in Trypanosoma brucei: Single Nucleotide Resolution Using iCLIP and iCLAP. Methods in Molecular Biology (Clifton, N.J.). 2116: 303-323. PMID 32221928 DOI: 10.1007/978-1-0716-0294-2_19 |
0.338 |
|
| 2020 |
Aphasizheva I, Alfonzo J, Carnes J, Cestari I, Cruz-Reyes J, Göringer HU, Hajduk S, Lukeš J, Madison-Antenucci S, Maslov DA, McDermott SM, Ochsenreiter T, Read LK, Salavati R, Schnaufer A, et al. Lexis and Grammar of Mitochondrial RNA Processing in Trypanosomes. Trends in Parasitology. 36: 337-355. PMID 32191849 DOI: 10.1016/J.Pt.2020.01.006 |
0.522 |
|
| 2019 |
Hegedűsová E, Kulkarni S, Burgman B, Alfonzo JD, Paris Z. The general mRNA exporters Mex67 and Mtr2 play distinct roles in nuclear export of tRNAs in Trypanosoma brucei. Nucleic Acids Research. PMID 31392978 DOI: 10.1093/nar/gkz671 |
0.462 |
|
| 2019 |
Dixit S, Henderson JC, Alfonzo JD. Multi-Substrate Specificity and the Evolutionary Basis for Interdependence in tRNA Editing and Methylation Enzymes. Frontiers in Genetics. 10: 104. PMID 30838029 DOI: 10.3389/fgene.2019.00104 |
0.341 |
|
| 2018 |
Paris Z, Alfonzo JD. How the intracellular partitioning of tRNA and tRNA modification enzymes affects mitochondrial function. Iubmb Life. PMID 30358065 DOI: 10.1002/iub.1957 |
0.51 |
|
| 2018 |
Faktorová D, Bär A, Hashimi H, McKenney K, Horák A, Schnaufer A, Rubio MAT, Alfonzo JD, Lukeš J. TbUTP10, a protein involved in early stages of pre-18S rRNA processing in Trypanosoma brucei. Molecular and Biochemical Parasitology. 225: 84-93. PMID 30248370 DOI: 10.1016/j.molbiopara.2018.09.003 |
0.333 |
|
| 2017 |
McKenney KM, Rubio MAT, Alfonzo JD. Binding synergy as an essential step for tRNA editing and modification enzyme co-dependence in Trypanosoma brucei. Rna (New York, N.Y.). PMID 29042505 DOI: 10.1261/rna.062893.117 |
0.396 |
|
| 2017 |
Kessler AC, Kulkarni SS, Paulines MJ, Rubio MAT, Limbach PA, Paris Z, Alfonzo JD. Retrograde nuclear transport from the cytoplasm is required for tRNA(Tyr) maturation in T. brucei. Rna Biology. 0. PMID 28901827 DOI: 10.1080/15476286.2017.1377878 |
0.365 |
|
| 2017 |
Kessler AC, d'Almeida GS, Alfonzo JD. The role of intracellular compartmentalization on tRNA processing and modification. Rna Biology. 0. PMID 28850002 DOI: 10.1080/15476286.2017.1371402 |
0.335 |
|
| 2017 |
McKenney KM, Rubio MAT, Alfonzo JD. The Evolution of Substrate Specificity by tRNA Modification Enzymes. The Enzymes. 41: 51-88. PMID 28601226 DOI: 10.1016/bs.enz.2017.03.002 |
0.48 |
|
| 2017 |
Rubio MA, Gaston KW, McKenney KM, Fleming IM, Paris Z, Limbach PA, Alfonzo JD. Editing and methylation at a single site by functionally interdependent activities. Nature. 542: 494-497. PMID 28230119 DOI: 10.1038/Nature21396 |
0.307 |
|
| 2016 |
Lopes RR, Silveira GO, Eitler R, Vidal RS, Kessler A, Hinger S, Paris Z, Alfonzo JD, Polycarpo C. The essential function of the Trypanosoma brucei Trl1 homolog in procyclic cells is maturation of the intron-containing tRNATyr. Rna (New York, N.Y.). PMID 27284166 DOI: 10.1261/rna.056242.116 |
0.501 |
|
| 2016 |
McKenney KM, Alfonzo JD. From Prebiotics to Probiotics: The Evolution and Functions of tRNA Modifications. Life (Basel, Switzerland). 6. PMID 26985907 DOI: 10.3390/life6010013 |
0.411 |
|
| 2016 |
Fleming IM, Paris Z, Gaston KW, Balakrishnan R, Fredrick K, Rubio MA, Alfonzo JD. A tRNA methyltransferase paralog is important for ribosome stability and cell division in Trypanosoma brucei. Scientific Reports. 6: 21438. PMID 26888608 DOI: 10.1038/Srep21438 |
0.424 |
|
| 2015 |
Hauenschild R, Tserovski L, Schmid K, Thüring K, Winz ML, Sharma S, Entian KD, Wacheul L, Lafontaine DL, Anderson J, Alfonzo J, Hildebrandt A, Jäschke A, Motorin Y, Helm M. The reverse transcription signature of N-1-methyladenosine in RNA-Seq is sequence dependent. Nucleic Acids Research. PMID 26365242 DOI: 10.1093/Nar/Gkv895 |
0.433 |
|
| 2015 |
Sample PJ, Ko?ený L, Paris Z, Gaston KW, Rubio MA, Fleming IM, Hinger S, Horáková E, Limbach PA, Lukeš J, Alfonzo JD. A common tRNA modification at an unusual location: the discovery of wyosine biosynthesis in mitochondria. Nucleic Acids Research. 43: 4262-73. PMID 25845597 DOI: 10.1093/Nar/Gkv286 |
0.77 |
|
| 2015 |
Sample PJ, Gaston KW, Alfonzo JD, Limbach PA. RoboOligo: software for mass spectrometry data to support manual and de novo sequencing of post-transcriptionally modified ribonucleic acids. Nucleic Acids Research. 43: e64. PMID 25820423 DOI: 10.1093/Nar/Gkv145 |
0.699 |
|
| 2015 |
Lopes RR, Kessler AC, Polycarpo C, Alfonzo JD. Cutting, dicing, healing and sealing: the molecular surgery of tRNA. Wiley Interdisciplinary Reviews. Rna. 6: 337-49. PMID 25755220 DOI: 10.1002/wrna.1279 |
0.477 |
|
| 2013 |
Rubio MA, Paris Z, Gaston KW, Fleming IM, Sample P, Trotta CR, Alfonzo JD. Unusual noncanonical intron editing is important for tRNA splicing in Trypanosoma brucei. Molecular Cell. 52: 184-92. PMID 24095278 DOI: 10.1016/J.Molcel.2013.08.042 |
0.763 |
|
| 2013 |
Paris Z, Horáková E, Rubio MA, Sample P, Fleming IM, Armocida S, Lukes J, Alfonzo JD. The T. brucei TRM5 methyltransferase plays an essential role in mitochondrial protein synthesis and function. Rna (New York, N.Y.). 19: 649-58. PMID 23520175 DOI: 10.1261/Rna.036665.112 |
0.76 |
|
| 2013 |
Jackman JE, Alfonzo JD. Transfer RNA modifications: nature's combinatorial chemistry playground. Wiley Interdisciplinary Reviews. Rna. 4: 35-48. PMID 23139145 DOI: 10.1002/Wrna.1144 |
0.418 |
|
| 2012 |
Alfonzo JD. "Modified tRNA: fully equipped and ready to strike". Journal of Molecular Biology. 416: 465-6. PMID 22340733 DOI: 10.1016/j.jmb.2012.01.045 |
0.399 |
|
| 2012 |
Paris Z, Fleming IM, Alfonzo JD. Determinants of tRNA editing and modification: avoiding conundrums, affecting function. Seminars in Cell & Developmental Biology. 23: 269-74. PMID 22024020 DOI: 10.1016/j.semcdb.2011.10.009 |
0.421 |
|
| 2011 |
Ragone FL, Spears JL, Wohlgamuth-Benedum JM, Kreel N, Papavasiliou FN, Alfonzo JD. The C-terminal end of the Trypanosoma brucei editing deaminase plays a critical role in tRNA binding. Rna (New York, N.Y.). 17: 1296-306. PMID 21602302 DOI: 10.1261/rna.2748211 |
0.647 |
|
| 2011 |
Spears JL, Rubio MA, Gaston KW, Wywial E, Strikoudis A, Bujnicki JM, Papavasiliou FN, Alfonzo JD. A single zinc ion is sufficient for an active Trypanosoma brucei tRNA editing deaminase. The Journal of Biological Chemistry. 286: 20366-74. PMID 21507956 DOI: 10.1074/jbc.M111.243568 |
0.364 |
|
| 2011 |
Spears JL, Gaston KW, Alfonzo JD. Analysis of tRNA editing in native and synthetic substrates. Methods in Molecular Biology (Clifton, N.J.). 718: 209-26. PMID 21370051 DOI: 10.1007/978-1-61779-018-8_13 |
0.417 |
|
| 2010 |
Phizicky EM, Alfonzo JD. Do all modifications benefit all tRNAs? Febs Letters. 584: 265-71. PMID 19931536 DOI: 10.1016/J.Febslet.2009.11.049 |
0.337 |
|
| 2009 |
Wohlgamuth-Benedum JM, Rubio MA, Paris Z, Long S, Poliak P, Lukes J, Alfonzo JD. Thiolation controls cytoplasmic tRNA stability and acts as a negative determinant for tRNA editing in mitochondria. The Journal of Biological Chemistry. 284: 23947-53. PMID 19574216 DOI: 10.1074/jbc.M109.029421 |
0.676 |
|
| 2009 |
Alfonzo JD, Söll D. Mitochondrial tRNA import--the challenge to understand has just begun. Biological Chemistry. 390: 717-22. PMID 19558325 DOI: 10.1515/Bc.2009.101 |
0.51 |
|
| 2009 |
Paris Z, Rubio MA, Lukes J, Alfonzo JD. Mitochondrial tRNA import in Trypanosoma brucei is independent of thiolation and the Rieske protein. Rna (New York, N.Y.). 15: 1398-406. PMID 19465685 DOI: 10.1261/rna.1589109 |
0.546 |
|
| 2008 |
Simoes-Barbosa A, Louly C, Franco OL, Rubio MA, Alfonzo JD, Johnson PJ. The divergent eukaryote Trichomonas vaginalis has an m7G cap methyltransferase capable of a single N2 methylation. Nucleic Acids Research. 36: 6848-58. PMID 18957443 DOI: 10.1093/Nar/Gkn706 |
0.347 |
|
| 2008 |
Rubio MA, Rinehart JJ, Krett B, Duvezin-Caubet S, Reichert AS, Söll D, Alfonzo JD. Mammalian mitochondria have the innate ability to import tRNAs by a mechanism distinct from protein import. Proceedings of the National Academy of Sciences of the United States of America. 105: 9186-91. PMID 18587046 DOI: 10.1073/Pnas.0804283105 |
0.569 |
|
| 2008 |
Gaston KW, Rubio MA, Alfonzo JD. OXOPAP assay: for selective amplification of aminoacylated tRNAs from total cellular fractions. Methods (San Diego, Calif.). 44: 170-5. PMID 18241798 DOI: 10.1016/j.ymeth.2007.10.003 |
0.368 |
|
| 2007 |
García LT, Leite NR, Alfonzo JD, Thiemann OH. Effects of Trypanosoma brucei tryptophanyl-tRNA synthetases silencing by RNA interference. MemóRias Do Instituto Oswaldo Cruz. 102: 757-62. PMID 17924007 |
0.348 |
|
| 2007 |
Gaston KW, Rubio MA, Spears JL, Pastar I, Papavasiliou FN, Alfonzo JD. C to U editing at position 32 of the anticodon loop precedes tRNA 5' leader removal in trypanosomatids. Nucleic Acids Research. 35: 6740-9. PMID 17916576 DOI: 10.1093/nar/gkm745 |
0.404 |
|
| 2007 |
Ling J, Roy H, Qin D, Rubio MA, Alfonzo JD, Fredrick K, Ibba M. Pathogenic mechanism of a human mitochondrial tRNAPhe mutation associated with myoclonic epilepsy with ragged red fibers syndrome. Proceedings of the National Academy of Sciences of the United States of America. 104: 15299-304. PMID 17878308 DOI: 10.1073/Pnas.0704441104 |
0.428 |
|
| 2007 |
Rubio MA, Pastar I, Gaston KW, Ragone FL, Janzen CJ, Cross GA, Papavasiliou FN, Alfonzo JD. An adenosine-to-inosine tRNA-editing enzyme that can perform C-to-U deamination of DNA. Proceedings of the National Academy of Sciences of the United States of America. 104: 7821-6. PMID 17483465 DOI: 10.1073/Pnas.0702394104 |
0.39 |
|
| 2007 |
Madej MJ, Alfonzo JD, Hüttenhofer A. Small ncRNA transcriptome analysis from kinetoplast mitochondria of Leishmania tarentolae. Nucleic Acids Research. 35: 1544-54. PMID 17287292 DOI: 10.1093/nar/gkm004 |
0.346 |
|
| 2007 |
Alfonzo JD, Papavasiliou FN. Transfer RNA Editing Enzymes; At the Crossroads of Affinity and Specificity Rna and Dna Editing: Molecular Mechanisms and Their Integration Into Biological Systems. 121-145. DOI: 10.1002/9780470262269.ch5 |
0.326 |
|
| 2006 |
Rubio MA, Ragone FL, Gaston KW, Ibba M, Alfonzo JD. C to U editing stimulates A to I editing in the anticodon loop of a cytoplasmic threonyl tRNA in Trypanosoma brucei. The Journal of Biological Chemistry. 281: 115-20. PMID 16269406 DOI: 10.1074/Jbc.M510136200 |
0.398 |
|
| 2005 |
Roy H, Ling J, Alfonzo J, Ibba M. Loss of editing activity during the evolution of mitochondrial phenylalanyl-tRNA synthetase. The Journal of Biological Chemistry. 280: 38186-92. PMID 16162501 DOI: 10.1074/Jbc.M508281200 |
0.585 |
|
| 2005 |
Rinehart J, Krett B, Rubio MA, Alfonzo JD, Söll D. Saccharomyces cerevisiae imports the cytosolic pathway for Gln-tRNA synthesis into the mitochondrion. Genes & Development. 19: 583-92. PMID 15706032 DOI: 10.1101/Gad.1269305 |
0.592 |
|
| 2003 |
Sbicego S, Alfonzo JD, Estévez AM, Rubio MA, Kang X, Turck CW, Peris M, Simpson L. RBP38, a novel RNA-binding protein from trypanosomatid mitochondria, modulates RNA stability. Eukaryotic Cell. 2: 560-8. PMID 12796301 DOI: 10.1128/Ec.2.3.560-568.2003 |
0.402 |
|
| 2002 |
Crain PF, Alfonzo JD, Rozenski J, Kapushoc ST, McCloskey JA, Simpson L. Modification of the universally unmodified uridine-33 in a mitochondria-imported edited tRNA and the role of the anticodon arm structure on editing efficiency. Rna (New York, N.Y.). 8: 752-61. PMID 12088148 DOI: 10.1017/S1355838202022045 |
0.541 |
|
| 2002 |
Kapushoc ST, Alfonzo JD, Simpson L. Differential localization of nuclear-encoded tRNAs between the cytosol and mitochondrion in Leishmania tarentolae. Rna (New York, N.Y.). 8: 57-68. PMID 11871660 DOI: 10.1017/S1355838202012281 |
0.502 |
|
| 2000 |
Kapushoc ST, Alfonzo JD, Rubio MA, Simpson L. End processing precedes mitochondrial importation and editing of tRNAs in Leishmania tarentolae. The Journal of Biological Chemistry. 275: 37907-14. PMID 10993905 DOI: 10.1074/Jbc.M007838200 |
0.559 |
|
| 2000 |
Rubio MA, Liu X, Yuzawa H, Alfonzo JD, Simpson L. Selective importation of RNA into isolated mitochondria from Leishmania tarentolae. Rna (New York, N.Y.). 6: 988-1003. PMID 10917595 DOI: 10.1017/S1355838200991519 |
0.479 |
|
| 2000 |
Simpson L, Thiemann OH, Savill NJ, Alfonzo JD, Maslov DA. Evolution of RNA editing in trypanosome mitochondria Proceedings of the National Academy of Sciences of the United States of America. 97: 6986-6993. PMID 10860961 DOI: 10.1073/Pnas.97.13.6986 |
0.412 |
|
| 1999 |
Alfonzo JD, Blanc V, Estévez AM, Rubio MA, Simpson L. C to U editing of the anticodon of imported mitochondrial tRNA(Trp) allows decoding of the UGA stop codon in Leishmania tarentolae. The Embo Journal. 18: 7056-62. PMID 10601027 DOI: 10.1093/Emboj/18.24.7056 |
0.562 |
|
| 1999 |
Estévez AM, Thiemann OH, Alfonzo JD, Simpson L. T7 RNA polymerase-driven transcription in mitochondria of Leishmania tarentolae and Trypanosoma brucei Molecular and Biochemical Parasitology. 103: 251-259. PMID 10551367 DOI: 10.1016/S0166-6851(99)00139-5 |
0.383 |
|
| 1999 |
Blanc V, Alfonzo JD, Aphasizhev R, Simpson L. The mitochondrial RNA ligase from Leishmania tarentolae can join RNA molecules bridged by a complementary RNA Journal of Biological Chemistry. 274: 24289-24296. PMID 10446205 DOI: 10.1074/Jbc.274.34.24289 |
0.409 |
|
| 1998 |
Alfonzo JD, Thiemann OH, Simpson L. Purification and characterization of MAR1. A mitochondrial associated ribonuclease from Leishmania tarentolae Journal of Biological Chemistry. 273: 30003-30011. PMID 9792721 DOI: 10.1074/Jbc.273.45.30003 |
0.51 |
|
| 1998 |
Simpson L, Wang SH, Thiemann OH, Alfonzo JD, Maslov DA, Avila HA. U-insertion/deletion Edited Sequence Database Nucleic Acids Research. 26: 170-176. PMID 9399827 DOI: 10.1093/Nar/26.1.170 |
0.382 |
|
| 1997 |
Alfonzo JD, Thiemann O, Simpson L. The Mechanism of U Insertion/Deletion RNA Editing in Kinetoplastid Mitochondria Nucleic Acids Research. 25: 3571-3759. DOI: 10.1093/nar/25.19.3571 |
0.409 |
|
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