Jefferson Taliaferro, PhD

Publications

• Lo HG, Goering R, Kocere A, Lo J, Pockalny MC, White LK, Ramirez H, Martinez A, Jacobson S, Spitale RC, Pearson CG, Resendiz MJE, Mosimann C, Taliaferro JM. Quantification of subcellular RNA localization through direct detection of RNA oxidation. bioRxiv. 2024 Nov 12. PubMed PMID: 39605352
• Lo J, Vaeth KF, Bhardwaj G, Mukherjee N, Russ HA, Moore JK, Taliaferro JM. The RNA binding protein HNRNPA2B1 regulates RNA abundance and motor protein activity in neurites. bioRxiv. 2024 Aug 26. PubMed PMID: 39253515
• Chalivendra S, Shi S, Li X, Kuang Z, Giovinazzo J, Zhang L, Rossi J, Wang J, Saviola AJ, Welty R, Liu S, Vaeth KF, Zhou ZH, Hansen KC, Taliaferro JM, Zhao R. Selected humanization of yeast U1 snRNP leads to global suppression of pre-mRNA splicing and mitochondrial dysfunction in the budding yeast. RNA. 2024 Jul 16;30(8):1070-1088. PubMed PMID: 38688558
• Wong CH, Wingett SW, Qian C, Hunter MR, Taliaferro JM, Ross-Thriepland D, Bullock SL. Genome-scale requirements for dynein-based transport revealed by a high-content arrayed CRISPR screen. J Cell Biol. 2024 May 6;223(5). PubMed PMID: 38448164
• Li L, Han J, Lo HG, Tam WWL, Jia H, Tse ECM, Taliaferro JM, Li Y. Symmetry-breaking malachite green as a near-infrared light-activated fluorogenic photosensitizer for RNA proximity labeling. Nucleic Acids Res. 2024 Apr 24;52(7):e36. PubMed PMID: 38407347
• Lo HG, Pearson CG, Taliaferro JM. Differential subcellular localization of ASPM RNA and protein. MicroPubl Biol. 2024;2024. PubMed PMID: 38344067
• Eiler DR, Wimberly BT, Bilodeau DY, Taliaferro JM, Reigan P, Rissland OS, Kieft JS. The Giardia lamblia ribosome structure reveals divergence in several biological pathways and the mode of emetine function. Structure. 2024 Apr 4;32(4):400-410.e4. PubMed PMID: 38242118
• Wong CH, Wingett SW, Qian C, Taliaferro JM, Ross-Thriepland D, Bullock SL. Genome-scale requirements for dynein-based trafficking revealed by a high-content arrayed CRISPR screen. bioRxiv. 2023 Mar 1. PubMed PMID: 36909483
• Goering R, Arora A, Pockalny MC, Taliaferro JM. RNA localization mechanisms transcend cell morphology. Elife. 2023 Mar 3;12. PubMed PMID: 36867563
• Farmer T, Vaeth KF, Han KJ, Goering R, Taliaferro MJ, Prekeris R. The role of midbody-associated mRNAs in regulating abscission. J Cell Biol. 2023 Dec 4;222(12). PubMed PMID: 37922419
• Espinosa S, De Bortoli F, Li X, Rossi J, Wagley ME, Lo HG, Taliaferro JM, Zhao R. Human PRPF39 is an alternative splicing factor recruiting U1 snRNP to weak 5' splice sites. RNA. 2022 Oct 31;29(1):97-110. [Epub ahead of print] PubMed PMID: 36316087
• Taliaferro JM. Transcriptome-scale methods for uncovering subcellular RNA localization mechanisms. Biochemica et Biophysica Acta - Molecular Cell Research (2022) https://doi.org/10.1016/j.bbamcr.2021.119202
• Arora A, Goering R, Velez PT, Taliaferro JM. Visualization and quantification of subcellular RNA localization using single-molecule RNA fluorescence in situ hybridization. Methods in Molecular Biology. (2022) 244: 247-266.
• Espinosa S, De Bortoli F, Li X, Rossi J, Wagley ME, Lo HG, Taliaferro JM, Zhao R. Human PRPF39 is an alternative splicing factor recruiting U1 snRNP to weak 5' splice sites. RNA. 2022 Oct 31. [Epub ahead of print] PubMed PMID: 36316087
• Arora A, Castro-Gutierrez R, Moffatt C, Eletto D, Becker R, Brown M, Moor AE, Russ HA, Taliaferro JM. High-throughput identification of RNA localization elements in neuronal cells. Nucleic Acids Res. 2022 Oct 14;50(18):10626-10642. PubMed PMID: 36107770
• Lee S, Chen YC, Gillen AE, Taliaferro JM, Deplancke B, Li H, Lai EC. Diverse cell-specific patterns of alternative polyadenylation in Drosophila. Nat Commun. 2022 Sep 13;13(1):5372. PubMed PMID: 36100597
• Lo HG, Engel KL, Goering R, Li Y, Spitale RC, Taliaferro JM. Halo-seq: An RNA Proximity Labeling Method for the Isolation and Analysis of Subcellular RNA Populations. Curr Protoc. 2022 May;2(5):e424. PubMed PMID: 35532287
• Taliaferro JM. Transcriptome-scale methods for uncovering subcellular RNA localization mechanisms. Biochim Biophys Acta Mol Cell Res. 2022 Apr;1869(4):119202. PubMed PMID: 34998919
• Engel KL, Lo HG, Goering R, Li Y, Spitale RC, Taliaferro JM. Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq. Nucleic Acids Res. 2022 Feb 28;50(4):e24. PubMed PMID: 34875090
• Arora A, Goering R, Velez PT, Taliaferro JM. Visualization and Quantification of Subcellular RNA Localization Using Single-Molecule RNA Fluorescence In Situ Hybridization. Methods Mol Biol. 2022;2404:247-266. PubMed PMID: 34694613
• Arora A, Gutierrez RC, Eletto D, Becker R, Brown M, Moor AE, Russ HA, Taliaferro JM. High-throughput identification of RNA localization elements reveals a regulatory role for A/G rich sequences. bioRxiv. (2021) https://doi.org/10.1101/2021.10.20.465152
• Gillen AE, Goering R, Taliaferro JM. Quantifying alternative polyadenylation in RNAseq data with LABRAT. Methods in Enzymology. (2021) 655: 245-262.
• Engel KL, Lo HYG, Goering R, Li Y, Spitale R, Taliaferro JM. Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq. Nucleic Acids Res. (2021) https://doi.org/10.1093/nar/gkab1185
• Arora A, Goering R, Lo HYG, Taliaferro JM. Mechanical Fractionation of cultured neuronal cells into cell body and neurite fractions. Bio-protocol. (2021) 10.21769/BioProtoc.4048
• Lee S, Wei L, Zhang B, Goering R, Majumdar S, Wen J, Taliaferro JM, Lai EC. ELAV/Hu RNA binding proteins determine multiple programs of neural alternative splicing. PLOS Genetics. (2021) https://doi.org/10.1101/2020.09.21.305912
• Raj N, McEachin ZT, Harousseau W, Zhou Y, Zhang F, Merritt-Garza ME, Taliaferro JM, Kalinowska M, Marro SG, Hales CM, Berry-Kravis E, Wolf-Ochoa MW, Martinez-Cerdeno V, Wernig M, Chen L, Klann E, Warren ST, Jin P, Wen Z, Bassell GJ. Cell-type-specific profiling of human cellular models of fragile X syndrome reveal Pi3K-dependent defects in translation and neurogenesis. Cell Reports. (2021) https://doi.org/10.1016/j.celrep.2021.108991
• Goering R, Engel KL, Gillen AE, Fong N, Bentley DL, Taliaferro JM. LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival. BMC Genomics. (2021) https://doi.org/10.1186/s12864-021-07781-1
• Goering R, Engel KL, Gillen AE, Fong N, Bentley DL, Taliaferro JM. LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival. bioRxiv. (2020) https://doi.org/10.1101/2020.10.05.326702
• Lee S, Zhang B, Wei L, Goering R, Majumdar S, Taliaferro JM, Lai EC. Overlapping activities of ELAV/ Hu RNA binding proteins specify multiple neural alternative splicing programs. bioRxiv. (2020) https:// doi.org/10.1101/2020.09.21.305912
• Goering R, Hudish LI, Guzman BB, Raj N, Bassell GJ, Russ HA, Dominguez D, Taliaferro JM. FMRP promotes RNA localization to neuronal projections through interactions between its RGG domain and G-quadruplex sequences. eLife. (2020) https://doi.org/10.7554/eLife.52621
• Kawale AA, Taliaferro JM, Kang HS, Hartmuller C, Greelof A, Stehle R, Burge CB, Rio DC, Sattler M. Structural evolution of the tissue-specific U2AF2 paralog and alternative splicing factor LS2. bioRxiv. (2020) https://doi.org/10.1101/2020.08.15.252130
• Hudish LI, Bubak A, Triolo T, Niemeyer CS, Sussel L, Nagel M, Taliaferro JM, Russ HA. Modeling hypoxia-induced neuropathies using a fast and scalable human motor neuron differentiation system. Stem Cell Rep. (2020) https://doi.org/10.1016/j.stemcr.2020.04.003
• Engel KL, Arora A, Goering R, Lo HYG, Taliaferro JM. Mechanisms and consequences of subcellular RNA localization across diverse cell types. Traffic. (2020) doi:10.1111/tra.12730
• Gillette CM, Hazegh KE, Nemkov T, Stefanoni D, D’Allessandro A, Taliaferro JM, Reis T. Gene-Diet Interactions: Dietary Rescue of Metabolic Defects in spen-depleted Drosophila melanogaster. Genetics. (2020) https://doi.org/10.1534/genetics.119.303015
• Narula A, Ellis J, Taliaferro JM, Rissland OS. Coding regions affect mRNA stability in human cells. RNA. 2019 Dec;25(12):1751-1764. PubMed PMID: 31527111
• Taliaferro JM. Classical and emerging techniques to identify and quantify localized RNAs. Wiley Interdiscip Rev RNA. 2019 Sep;10(5):e1542. PubMed PMID: 31044542
• Goering R, Hudish LI, Guzman B, Raj N, Bassell GJ, Russ HA, Dominguez D, Taliaferro JM. (2019) bioarXiv. FMRP promotes RNA localization to neuronal projections through interactions between its RGG domain and G-quadruplex sequences
• Gillette CM, Hazegh KE, Nemkov T, Stefanoni D, D'Alessandro A, Taliaferro JM, Reis T. (2019) bioarXiv. Gene-diet interactions: dietary rescue of metabolic defects in spen-depleted Drosophila
• Arends T, Taliaferro JM, Peterman E, Knapp JR, O'Connor BP, Torres RM, Hagman JR. (2019) bioarXiv. SPRK3 regulates alternative pre-mRNA splicing required for B lymphocyte development and humoral responsiveness
• Rothenberg DA, Taliaferro JM, Huber SM, Begley TJ, Dedon PC, White FM. A Proteomics Approach to Profiling the Temporal Translational Response to Stress and Growth. iScience. 2018 Nov 30;9:367-381. PubMed PMID: 30466063
• Rothenberg DA, Taliaferro JM, Huber SM, Begley TJ, Dedon PC, White FM. A Proteomics Approach to Profiling the Temporal Translational Response to Stress and Growth. iScience. 2018 Nov 30;9:367-381. PubMed PMID: 30466063
• Vidaki M, Drees F, Saxena T, Lanslots E, Taliaferro MJ, Tatarakis A, Burge CB, Wang ET, Gertler FB. A Requirement for Mena, an Actin Regulator, in Local mRNA Translation in Developing Neurons. Neuron. 2017 Aug 2;95(3):608-622.e5. PubMed PMID: 28735747