Leonardo G. Trabuco, Ph.D. - Related publications

2010 University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
theoretical biophysics
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Porat J, Kothe U, Bayfield MA. Revisiting tRNA chaperones: New players in an ancient game. Rna (New York, N.Y.). PMID 33593999 DOI: 10.1261/rna.078428.120   
2021 Suzuki T. The expanding world of tRNA modifications and their disease relevance. Nature Reviews. Molecular Cell Biology. PMID 33658722 DOI: 10.1038/s41580-021-00342-0   
2021 Paris Z. Nuclear tRNA export in trypanosomes: a journey full of twists and turns guided by tRNA modifications. Parasitology. 1-4. PMID 33729118 DOI: 10.1017/S0031182021000482   
2021 Wu S, Hei Z, Zheng L, Zhou J, Liu Z, Wang J, Fang P. Structural analyses of a human lysyl-tRNA synthetase mutant associated with autosomal recessive nonsyndromic hearing impairment. Biochemical and Biophysical Research Communications. 554: 83-88. PMID 33784510 DOI: 10.1016/j.bbrc.2021.03.093   
2021 Sun Z, Tan J, Zhao M, Peng Q, Zhou M, Zuo S, Wu F, Li X, Dong Y, Xie M, Yang Y, Zhou J, Liu X, He Q, He Z, et al. Integrated genomic analysis reveals regulatory pathways and dynamic landscapes of the tRNA transcriptome. Scientific Reports. 11: 5226. PMID 33664286 DOI: 10.1038/s41598-021-83469-6   
2021 Chen B, Luo S, Zhang S, Ju Y, Gu Q, Xu J, Yang XL, Zhou H. Inhibitory mechanism of reveromycin A at the tRNA binding site of a class I synthetase. Nature Communications. 12: 1616. PMID 33712620 DOI: 10.1038/s41467-021-21902-0   
2021 Pochopien AA, Beckert B, Kasvandik S, Berninghausen O, Beckmann R, Tenson T, Wilson DN. Structure of Gcn1 bound to stalled and colliding 80S ribosomes. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33790014 DOI: 10.1073/pnas.2022756118   
2021 González García JS, Delgado J. Stochastic microswimming model of ribosome motion on the polysome. The European Physical Journal. E, Soft Matter. 44: 9. PMID 33683520 DOI: 10.1140/epje/s10189-021-00011-2   
2021 Pereira M, Ribeiro DR, Pinheiro MM, Ferreira M, Kellner S, Soares AR. mU54 tRNA Hypomodification by Lack of TRMT2A Drives the Generation of tRNA-Derived Small RNAs. International Journal of Molecular Sciences. 22. PMID 33799331 DOI: 10.3390/ijms22062941   
2021 Pan J, Liu P, Pajk F, Dumont HJ, Han BP. The mitochondrial genome of Sars, 1885 (Crustacea: Branchiopoda: Cladocera) from Hainan Island, China. Mitochondrial Dna. Part B, Resources. 6: 1279-1280. PMID 33829108 DOI: 10.1080/23802359.2021.1907252   
2021 Deparis Q, Duitama J, Foulquié-Moreno MR, Thevelein JM. Whole-Genome Transformation Promotes tRNA Anticodon Suppressor Mutations under Stress. Mbio. 12. PMID 33758086 DOI: 10.1128/mBio.03649-20   
2021 Tian T, Li S, Lang P, Zhao D, Zeng J. Full-length ribosome density prediction by a multi-input and multi-output model. Plos Computational Biology. 17: e1008842. PMID 33770074 DOI: 10.1371/journal.pcbi.1008842   
2021 Guimarães AR, Correia I, Sousa I, Oliveira C, Moura G, Bezerra AR, Santos MAS. tRNAs as a Driving Force of Genome Evolution in Yeast. Frontiers in Microbiology. 12: 634004. PMID 33776966 DOI: 10.3389/fmicb.2021.634004   
2021 Xiong G, Jiang H, Wang XQ, Kang L, Liu L, Zhou XW, Wang P, Yang T. The complete mitochondrial genome of the Shen and its phylogenetic analyses. Mitochondrial Dna. Part B, Resources. 6: 329-330. PMID 33659667 DOI: 10.1080/23802359.2020.1866454   
2021 Tharp JM, Vargas-Rodriguez O, Schepartz A, Söll D. Genetic Encoding of Three Distinct Noncanonical Amino Acids Using Reprogrammed Initiator and Nonsense Codons. Acs Chemical Biology. PMID 33723984 DOI: 10.1021/acschembio.1c00120   
2021 Aggarwal SD, Lloyd AJ, Yerneni SS, Narciso AR, Shepherd J, Roper DI, Dowson CG, Filipe SR, Hiller NL. A molecular link between cell wall biosynthesis, translation fidelity, and stringent response in . Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33785594 DOI: 10.1073/pnas.2018089118   
2021 Aron ZD, Mehrani A, Hoffer ED, Connolly KL, Srinivas P, Torhan MC, Alumasa JN, Cabrera M, Hosangadi D, Barbor JS, Cardinale SC, Kwasny SM, Morin LR, Butler MM, Opperman TJ, et al. trans-Translation inhibitors bind to a novel site on the ribosome and clear Neisseria gonorrhoeae in vivo. Nature Communications. 12: 1799. PMID 33741965 DOI: 10.1038/s41467-021-22012-7   
2021 Nakamura A, Wang D, Komatsu Y. Analysis of GTP addition in the reverse (3'-5') direction by human tRNA guanylyltransferase. Rna (New York, N.Y.). PMID 33758037 DOI: 10.1261/rna.078287.120   
2021 Ding Y, Yu J, Guo Q, Gao B, Huang J. Molecular characterization of two Chinese pedigrees with maternally inherited hypertension. The Journal of Gene Medicine. e3328. PMID 33625761 DOI: 10.1002/jgm.3328   
2021 Ipsaro JJ, O'Brien PA, Bhattacharya S, Palmer AG, Joshua-Tor L. Asterix/Gtsf1 links tRNAs and piRNA silencing of retrotransposons. Cell Reports. 34: 108914. PMID 33789107 DOI: 10.1016/j.celrep.2021.108914   
2021 Akbar S, Bhakta S, Sengupta J. Structural insights into the interplay of protein biogenesis factors with the 70S ribosome. Structure (London, England : 1993). PMID 33761323 DOI: 10.1016/j.str.2021.03.005   
2021 Carter CW, Wills PR. The Roots of Genetic Coding in Aminoacyl-tRNA Synthetase Duality. Annual Review of Biochemistry. PMID 33781075 DOI: 10.1146/annurev-biochem-071620-021218   
2021 Moore PB. The PDB and the Ribosome. The Journal of Biological Chemistry. 100561. PMID 33744288 DOI: 10.1016/j.jbc.2021.100561   
2021 Li HM, Tan X, Zhang S, Yao J, Li HG. Transfer- or "transmission"- RNA fragments? The roles of tsRNAs in the reproductive system. Molecular Human Reproduction. PMID 33837423 DOI: 10.1093/molehr/gaab026   
2021 Shao D, Ahmed N, Soni N, O'Brien EP. RiboA: a web application to identify ribosome A-site locations in ribosome profiling data. Bmc Bioinformatics. 22: 156. PMID 33765913 DOI: 10.1186/s12859-021-04068-w   
2021 Dauloudet O, Neri I, Walter JC, Dorignac J, Geniet F, Parmeggiani A. Modelling the effect of ribosome mobility on the rate of protein synthesis. The European Physical Journal. E, Soft Matter. 44: 19. PMID 33686567 DOI: 10.1140/epje/s10189-021-00019-8   
2021 Srivastava A, Yesudhas D, Ahmad S, Gromiha MM. Deciphering the Role of Residues Involved in Disorder-To-Order Transition Regions in Archaeal tRNA Methyltransferase 5. Genes. 12. PMID 33799704 DOI: 10.3390/genes12030399   
2021 Wang YJ, Gilbert WV. Quantitative Comparisons of Translation Activity by Ribosome Profiling with Internal Standards. Methods in Molecular Biology (Clifton, N.J.). 2252: 127-149. PMID 33765273 DOI: 10.1007/978-1-0716-1150-0_5   
2021 Wang X, Yue Z, Xu F, Wang S, Hu X, Dai J, Zhao G. Coevolution of ribosomal RNA expansion segment 7L and assembly factor Noc2p specializes the ribosome biogenesis pathway between Saccharomyces cerevisiae and Candida albicans. Nucleic Acids Research. PMID 33823547 DOI: 10.1093/nar/gkab218   
2021 Kisly I, Kattel C, Remme J, Tamm T. Luciferase-based reporter system for in vitro evaluation of elongation rate and processivity of ribosomes. Nucleic Acids Research. PMID 33684199 DOI: 10.1093/nar/gkab121   
2021 Jiang X, Prabhakar A, Van der Voorn SM, Ghatpande P, Celona B, Venkataramanan S, Calviello L, Lin C, Wang W, Black BL, Floor SN, Lagna G, Hata A. Control of ribosomal protein synthesis by the Microprocessor complex. Science Signaling. 14. PMID 33622983 DOI: 10.1126/scisignal.abd2639   
2021 Tian XC, Xian XQ, Zhang GF, Castañé C, Romeis J, Wan FH, Zhang YB. Complete mitochondrial genome of a predominant parasitoid, (Hymenoptera: Eulophidae) of the South American tomato leafminer (Lepidoptera: Gelechiidae). Mitochondrial Dna. Part B, Resources. 6: 562-563. PMID 33628929 DOI: 10.1080/23802359.2021.1875902   
2021 Müller C, Crowe-McAuliffe C, Wilson DN. Ribosome Rescue Pathways in Bacteria. Frontiers in Microbiology. 12: 652980. PMID 33815344 DOI: 10.3389/fmicb.2021.652980   
2021 Levy M, Falkovich R, Vonshak O, Bracha D, Tayar AM, Shimizu Y, Daube SS, Bar-Ziv RH. Boundary-Free Ribosome Compartmentalization by Gene Expression on a Surface. Acs Synthetic Biology. PMID 33595282 DOI: 10.1021/acssynbio.0c00613   
2021 Aquino GRR, Krogh N, Hackert P, Martin R, Gallesio JD, van Nues RW, Schneider C, Watkins NJ, Nielsen H, Bohnsack KE, Bohnsack MT. RNA helicase-mediated regulation of snoRNP dynamics on pre-ribosomes and rRNA 2'-O-methylation. Nucleic Acids Research. PMID 33721027 DOI: 10.1093/nar/gkab159   
2021 Sun L, Wei N, Kuhle B, Blocquel D, Novick S, Matuszek Z, Zhou H, He W, Zhang J, Weber T, Horvath R, Latour P, Pan T, Schimmel P, Griffin PR, et al. CMT2N-causing aminoacylation domain mutants enable Nrp1 interaction with AlaRS. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33753480 DOI: 10.1073/pnas.2012898118   
2021 Vorontsov IE, Egorov AA, Anisimova AS, Eliseeva IA, Makeev VJ, Gladyshev VN, Dmitriev SE, Kulakovskiy IV. Assessing Ribosome Distribution Along Transcripts with Polarity Scores and Regression Slope Estimates. Methods in Molecular Biology (Clifton, N.J.). 2252: 269-294. PMID 33765281 DOI: 10.1007/978-1-0716-1150-0_13   
2021 Takehara Y, Yashiroda H, Matsuo Y, Zhao X, Kamigaki A, Matsuzaki T, Kosako H, Inada T, Murata S. The ubiquitination-deubiquitination cycle on the ribosomal protein eS7A is crucial for efficient translation. Iscience. 24: 102145. PMID 33665564 DOI: 10.1016/j.isci.2021.102145   
2021 Peng GX, Zhang Y, Wang QQ, Li QR, Xu H, Wang ED, Zhou XL. The human tRNA taurine modification enzyme GTPBP3 is an active GTPase linked to mitochondrial diseases. Nucleic Acids Research. PMID 33619562 DOI: 10.1093/nar/gkab104   
2021 Maksimova EM, Vinogradova DS, Osterman IA, Kasatsky PS, Nikonov OS, Milón P, Dontsova OA, Sergiev PV, Paleskava A, Konevega AL. Multifaceted Mechanism of Amicoumacin A Inhibition of Bacterial Translation. Frontiers in Microbiology. 12: 618857. PMID 33643246 DOI: 10.3389/fmicb.2021.618857   
2021 Eshraghi M, Karunadharma PP, Blin J, Shahani N, Ricci EP, Michel A, Urban NT, Galli N, Sharma M, Ramírez-Jarquín UN, Florescu K, Hernandez J, Subramaniam S. Mutant Huntingtin stalls ribosomes and represses protein synthesis in a cellular model of Huntington disease. Nature Communications. 12: 1461. PMID 33674575 DOI: 10.1038/s41467-021-21637-y   
2021 Seo Y, Chae J, Ki JS. Complete mitochondrial genome of the hydrozoan jellyfish Mayer, 1910 (Cnidaria; Hydrozoa; Leptothecata) with phylogenetic analysis. Mitochondrial Dna. Part B, Resources. 6: 1202-1203. PMID 33796784 DOI: 10.1080/23802359.2021.1903363   
2021 Lv K, Gong C, Antony C, Han X, Ren JG, Donaghy R, Cheng Y, Pellegrino S, Warren AJ, Paralkar VR, Tong W. HectD1 controls hematopoietic stem cell regeneration by coordinating ribosome assembly and protein synthesis. Cell Stem Cell. PMID 33711283 DOI: 10.1016/j.stem.2021.02.008   
2021 Vasu K, Ramachandiran I, Terenzi F, Khan D, China A, Khan K, Chechi A, Baleanu-Gogonea C, Gogonea V, Fox PL. The zinc-binding domain of mammalian prolyl-tRNA synthetase is indispensable for catalytic activity and organism viability. Iscience. 24: 102215. PMID 33748704 DOI: 10.1016/j.isci.2021.102215   
2021 D'Orazio KN, Green R. Ribosome states signal RNA quality control. Molecular Cell. PMID 33713598 DOI: 10.1016/j.molcel.2021.02.022   
2021 Aguirre Rivera J, Larsson J, Volkov IL, Seefeldt AC, Sanyal S, Johansson M. Real-time measurements of aminoglycoside effects on protein synthesis in live cells. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33619089 DOI: 10.1073/pnas.2013315118   
2021 Jin X, Zhang Z, Nie Z, Wang C, Meng F, Yi Q, Chen M, Sun J, Zou J, Jiang P, Guan MX. An animal model for mitochondrial tyrosyl-tRNA synthetase deficiency reveals links between oxidative phosphorylation and retinal function. The Journal of Biological Chemistry. 100437. PMID 33610547 DOI: 10.1016/j.jbc.2021.100437   
2021 Hasan M, Gulzar H, Zafar A, Ul Haq A, Mustafa G, Tariq T, Khalid A, Mahmmod A, Shu X, Mahmood N. Multiplexing surface anchored functionalized iron carbide nanoparticle: A low molecular weight proteome responsive nano-tracer. Colloids and Surfaces. B, Biointerfaces. 203: 111746. PMID 33839473 DOI: 10.1016/j.colsurfb.2021.111746   
2021 Sinha AK, Winther KS. The RelA hydrolase domain acts as a molecular switch for (p)ppGpp synthesis. Communications Biology. 4: 434. PMID 33790389 DOI: 10.1038/s42003-021-01963-z   
2021 Qiu J, Qian SB. Poly-A Tailing and Adaptor Ligation Methods for Ribo-Seq Library Construction. Methods in Molecular Biology (Clifton, N.J.). 2252: 221-237. PMID 33765278 DOI: 10.1007/978-1-0716-1150-0_10