Yi-Tao Yu, Ph.D.

Yi-Tao Yu, Ph.D.

Contact Information

University of Rochester Medical Center
School of Medicine and Dentistry
601 Elmwood Ave, Box 712
Rochester, NY 14642

Office: (585) 275-1271
Fax: (585) 275-6007

Journal Articles

Showing all 67 journal articles available.

2016 Aug
Wu G, Radwan MK, Xiao M, Adachi H, Fan J, Yu YT. "The TOR signaling pathway regulates starvation-induced pseudouridylation of yeast U2 snRNA." RNA. 2016 Aug; 22(8):1146-52. Epub 2016 Jun 07.
2016 Jul 1
Huang C, Karijolich J, Yu YT. "Detection and quantification of RNA 2'-O-methylation and pseudouridylation." Methods : a companion to Methods in enzymology. 2016 Jul 1; 103:68-76. Epub 2016 Feb 04.
2016 Mar 15
Wu G, Adachi H, Ge J, Stephenson D, Query CC, Yu YT. "Pseudouridines in U2 snRNA stimulate the ATPase activity of Prp5 during spliceosome assembly." The EMBO journal. 2016 Mar 15; 35(6):654-67. Epub 2016 Feb 12.
Huang C, Wu G, Yu YT. "Purification and Functional Reconstitution of Box H/ACA Ribonucleoprotein Particles." Methods in molecular biology. 2016 1421:97-109.
2015 Oct
Karijolich J, Yi C, Yu YT. "Transcriptome-wide dynamics of RNA pseudouridylation." Nature reviews. Molecular cell biology. 2015 Oct; 16(10):581-5. Epub 2015 Aug 19.
2015 Apr
Karijolich J, Yu YT. "The new era of RNA modification." RNA. 2015 Apr; 21(4):659-60.
Enwerem II, Wu G, Yu YT, Hebert MD. "Cajal body proteins differentially affect the processing of box C/D scaRNPs." PloS one. 2015 10(4):e0122348. Epub 2015 Apr 13.
Wu G, Huang C, Yu YT. "Pseudouridine in mRNA: Incorporation, Detection, and Recoding." Methods in enzymology. 2015 560:187-217. Epub 2015 Apr 27.
2014 Nov 26
Adachi H, Yu YT. "Insight into the mechanisms and functions of spliceosomal snRNA pseudouridylation." World journal of biological chemistry. 2014 Nov 26; 5(4):398-408.
2014 Aug
Karijolich J, Yu YT. "Therapeutic suppression of premature termination codons: mechanisms and clinical considerations (review)." International journal of molecular medicine. 2014 Aug; 34(2):355-62. Epub 2014 Jun 17.
2014 Jan 6
Adachi H, Yu YT. "Purification of radiolabeled RNA products using denaturing gel electrophoresis." Current protocols in molecular biology. 2014 Jan 6; 105:Unit 4.20.. Epub 2014 Jan 06.
Jun Lim S, Scott A, Xiong XP, Vahidpour S, Karijolich J, Guo D, Pei S, Yu YT, Zhou R, Li W. "Requirement for CRIF1 in RNA interference and Dicer-2 stability." RNA biology. 2014 11(9):1171-9.
Yu YT, Meier UT. "RNA-guided isomerization of uridine to pseudouridine--pseudouridylation." RNA biology. 2014 11(12):1483-94.
2013 Aug 1
Fernández IS, Ng CL, Kelley AC, Wu G, Yu YT, Ramakrishnan V. "Unusual base pairing during the decoding of a stop codon by the ribosome." Nature. 2013 Aug 1; 500(7460):107-10. Epub 2013 Jun 30.
2013 Apr
Ge J, Yu YT. "RNA pseudouridylation: new insights into an old modification." Trends in biochemical sciences. 2013 Apr; 38(4):210-8. Epub 2013 Feb 04.
2013 Apr
Huang C, Yu YT. "Synthesis and labeling of RNA in vitro." Current protocols in molecular biology. 2013 Apr; Chapter 4:Unit4.15.
Huang, C; Yu, YT. "Synthesis and labeling of RNA in vitro." Wiley Current Protocols in Molecular Biology. 2013; .
2012 Mar 29
Huang C, Wu G, Yu YT. "Inducing nonsense suppression by targeted pseudouridylation." Nature protocols. 2012 Mar 29; 7(4):789-800. Epub 2012 Mar 29.
Huang, C; Wu, G; Yu, YT. "Inducing nonsense suppression by targeted pseudouridylation." Nature Protocols. 2012; 7: 789-800.
2011 Sep
Yu AT, Ge J, Yu YT. "Pseudouridines in spliceosomal snRNAs." Protein & cell. 2011 Sep; 2(9):712-25. Epub 2011 Oct 06.
2011 Jun 15
Karijolich J, Yu YT. "Converting nonsense codons into sense codons by targeted pseudouridylation." Nature. 2011 Jun 15; 474(7351):395-8. Epub 2011 Jun 15.
2011 Jan 5
Wu G, Xiao M, Yang C, Yu YT. "U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP." The EMBO journal. 2011 Jan 5; 30(1):79-89. Epub 2010 Dec 03.
Wu G; Yu AT; Kantartzis A; Yu YT. "Functions and Mechanisms of Spliceosomal snRNA pseudouridylation." Wiley Interdisciplinary Reviews (WIREs) RNA. 2011; 2: 571-581.
Yu, AT; Ge, J; Yu, YT. "Pseudouridines in spliceosomal snRNAs." Protein & Cell. 2011; 2: 712-725.
Huang C, Karijolich J, Yu YT. "Post-transcriptional modification of RNAs by artificial Box H/ACA and Box C/D RNPs." Methods in molecular biology. 2011 718:227-44.
Wu G, Yu AT, Kantartzis A, Yu YT. "Functions and mechanisms of spliceosomal small nuclear RNA pseudouridylation." Wiley interdisciplinary reviews. RNA. 2011 2(4):571-81. Epub 2011 Feb 18.
2010 Sep
Chen C, Zhao X, Kierzek R, Yu YT. "A flexible RNA backbone within the polypyrimidine tract is required for U2AF65 binding and pre-mRNA splicing in vivo." Molecular and cellular biology. 2010 Sep; 30(17):4108-19. Epub 2010 Jul 06.
2010 Sep
Huang C, Yu YT. "Targeted 2'-O methylation at a nucleotide within the pseudoknot of telomerase RNA reduces telomerase activity in vivo." Molecular and cellular biology. 2010 Sep; 30(18):4368-78. Epub 2010 Jul 20.
2010 May
Ge J, Liu H, Yu YT. "Regulation of pre-mRNA splicing in Xenopus oocytes by targeted 2'-O-methylation." RNA. 2010 May; 16(5):1078-85. Epub 2010 Mar 26.
Karijolich J, Yu YT. "Spliceosomal snRNA modifications and their function." RNA biology. 2010 7(2):192-204. Epub 2010 Mar 14.
Karijolich J, Kantartzis A, Yu YT. "RNA modifications: a mechanism that modulates gene expression." Methods in molecular biology. 2010 629:1-19.
Karijolich J, Kantartzis A, Yu YT. "Quantitative analysis of RNA modifications." Methods in molecular biology. 2010 629:21-32.
2009 Jan
Xiao M, Yang C, Schattner P, Yu YT. "Functionality and substrate specificity of human box H/ACA guide RNAs." RNA. 2009 Jan; 15(1):176-86. Epub 2008 Nov 25.
Karijolich, J; Huang, C; Yu, YT. "Spliceosomal snRNA pseudouridylation." In DNA and RNA Modification Enzymes: Structure, Mechanism, Function and Evolution (ed. H. Grosjean). Landes Bioscience. 2009; : 461-474.
2008 Jul 1
Karijolich J, Yu YT. "Insight into the Protein Components of the Box H/ACA RNP." Current proteomics. 2008 Jul 1; 5(2):129-137.
2008 Jan
Zhao X, Yu YT. "Targeted pre-mRNA modification for gene silencing and regulation." Nature methods. 2008 Jan; 5(1):95-100. Epub 2007 Dec 09.
Stephenson, D; Karijolich, J; Yu, YT. "Functional roles of spliceosomal snRNA modifications in pre-mRNA splicing." In RNA and DNA Editing: Molecular Mechanisms and Their Integration into Biological Systems (ed. H. Smith). John Wiley & Sons Press, Hoboken, New Jersey, USA. 2008; : 175-189.
Karijolich, J.; Yu, Y.T.;. "Pre-mRNA splicing". Wiley Encyclopedia of Chemical Biology. (ed. TP Begley). 2007; : DOI: 10.1002/9780470048672.wecb520. Article Online Posting.
Zhao X, Yu YT. "Incorporation of 5-fluorouracil into U2 snRNA blocks pseudouridylation and pre-mRNA splicing in vivo." Nucleic acids research. 2007 35(2):550-8. Epub 2006 Dec 14.
Karijolich J, Stephenson D, Yu YT. "Biochemical purification of box H/ACA RNPs involved in pseudouridylation." Methods in enzymology. 2007 425:241-62.
Dai Q, Fong R, Saikia M, Stephenson D, Yu YT, Pan T, Piccirilli JA. "Identification of recognition residues for ligation-based detection and quantitation of pseudouridine and N6-methyladenosine." Nucleic acids research. 2007 35(18):6322-9. Epub 2007 Sep 18.
2006 Feb
Yu YT. "The most complex pseudouridylase." Structure. 2006 Feb; 14(2):167-8.
Moon KH, Zhao X, Yu YT. "Pre-mRNA splicing in the nuclei of Xenopus oocytes." Methods in molecular biology. 2006 322:149-63.
2005 Jul 6
Ma X, Yang C, Alexandrov A, Grayhack EJ, Behm-Ansmant I, Yu YT. "Pseudouridylation of yeast U2 snRNA is catalyzed by either an RNA-guided or RNA-independent mechanism." The EMBO journal. 2005 Jul 6; 24(13):2403-13. Epub 2005 Jun 16.
2005 Feb 25
Yang C, McPheeters DS, Yu YT. "Psi35 in the branch site recognition region of U2 small nuclear RNA is important for pre-mRNA splicing in Saccharomyces cerevisiae." The Journal of biological chemistry. 2005 Feb 25; 280(8):6655-62. Epub 2004 Dec 20.
Yu, Y.-T.; Terns, R. M.; Terns, M. P.;. "Mechanisms and functions of RNA-guided RNA modifications". In Fine-tuning of RNA functions by modification and editing, Topics in Current Genetics series, vol. 12 (ed. H. Grosjean). Springer-Verlag Press, New York, USA. 2005; : 223-262. Link
2004 Jun
Zhao X, Yu YT. "Detection and quantitation of RNA base modifications." RNA. 2004 Jun; 10(6):996-1002.
2004 Apr
Zhao X, Yu YT. "Pseudouridines in and near the branch site recognition region of U2 snRNA are required for snRNP biogenesis and pre-mRNA splicing in Xenopus oocytes." RNA. 2004 Apr; 10(4):681-90.
2003 Nov
Behm-Ansmant I, Urban A, Ma X, Yu YT, Motorin Y, Branlant C. "The Saccharomyces cerevisiae U2 snRNA:pseudouridine-synthase Pus7p is a novel multisite-multisubstrate RNA:Psi-synthase also acting on tRNAs." RNA. 2003 Nov; 9(11):1371-82.
2003 Apr 15
Ma X, Zhao X, Yu YT. "Pseudouridylation (Psi) of U2 snRNA in S. cerevisiae is catalyzed by an RNA-independent mechanism." The EMBO journal. 2003 Apr 15; 22(8):1889-97.
2002 Dec
Zhao X, Li ZH, Terns RM, Terns MP, Yu YT. "An H/ACA guide RNA directs U2 pseudouridylation at two different sites in the branchpoint recognition region in Xenopus oocytes." RNA. 2002 Dec; 8(12):1515-25.
2001 Mar 19
Yu YT, Shu MD, Narayanan A, Terns RM, Terns MP, Steitz JA. "Internal modification of U2 small nuclear (sn)RNA occurs in nucleoli of Xenopus oocytes." The Journal of cell biology. 2001 Mar 19; 152(6):1279-88.
Yu YT. "Site-specific 4-thiouridine incorporation into RNA molecules." Methods in enzymology. 2000 318:71-88.
1999 May
Yu YT. "Construction of 4-thiouridine site-specifically substituted RNAs for cross-linking studies." Methods : a companion to Methods in enzymology. 1999 May; 18(1):13-21.
Yu, Y.T.; Scharl, E.C.; Smith, C.M.; Steitz, J.A. ;. "The growing world of small nuclear ribonucleoprotein particles". In The RNA World, 2nd edition (eds. Gesteland, Cech, and Atkins),Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York. 1999; : 487-524. Link
1998 Oct 1
Yu YT, Shu MD, Steitz JA. "Modifications of U2 snRNA are required for snRNP assembly and pre-mRNA splicing." The EMBO journal. 1998 Oct 1; 17(19):5783-95.
1997 Sep
Lapham J, Yu YT, Shu MD, Steitz JA, Crothers DM. "The position of site-directed cleavage of RNA using RNase H and 2'-O-methyl oligonucleotides is dependent on the enzyme source." RNA. 1997 Sep; 3(9):950-1.
1997 Jul
Yu YT, Steitz JA. "A new strategy for introducing photoactivatable 4-thiouridine ((4S)U) into specific positions in a long RNA molecule." RNA. 1997 Jul; 3(7):807-10.
1997 Jun 10
Yu YT, Steitz JA. "Site-specific crosslinking of mammalian U11 and u6atac to the 5' splice site of an AT-AC intron." Proceedings of the National Academy of Sciences of the United States of America. 1997 Jun 10; 94(12):6030-5.
1997 Mar
Yu YT, Shu MD, Steitz JA. "A new method for detecting sites of 2'-O-methylation in RNA molecules." RNA. 1997 Mar; 3(3):324-31.
1996 Dec 15
Yu YT, Tarn WY, Yario TA, Steitz JA. "More Sm snRNAs from vertebrate cells." Experimental cell research. 1996 Dec 15; 229(2):276-81.
1996 Aug
Maroney PA, Yu YT, Jankowska M, Nilsen TW. "Direct analysis of nematode cis- and trans-spliceosomes: a functional role for U5 snRNA in spliced leader addition trans-splicing and the identification of novel Sm snRNPs." RNA. 1996 Aug; 2(8):735-45.
1996 Aug
Denker JA, Maroney PA, Yu YT, Kanost RA, Nilsen TW. "Multiple requirements for nematode spliced leader RNP function in trans-splicing." RNA. 1996 Aug; 2(8):746-55.
1995 Mar
Yu YT, Maroney PA, Darzynkiwicz E, Nilsen TW. "U6 snRNA function in nuclear pre-mRNA splicing: a phosphorothioate interference analysis of the U6 phosphate backbone." RNA. 1995 Mar; 1(1):46-54.
1993 Dec 17
Yu YT, Maroney PA, Nilsen TW. "Functional reconstitution of U6 snRNA in nematode cis- and trans-splicing: U6 can serve as both a branch acceptor and a 5' exon." Cell. 1993 Dec 17; 75(6):1049-59.
1992 Dec 11
Hannon GJ, Maroney PA, Yu YT, Hannon GE, Nilsen TW. "Interaction of U6 snRNA with a sequence required for function of the nematode SL RNA in trans-splicing." Science. 1992 Dec 11; 258(5089):1775-80.
1992 May 5
Yu YT, Nilsen TW. "Sequence requirements for maturation of the 5' terminus of human 18 S rRNA in vitro." The Journal of biological chemistry. 1992 May 5; 267(13):9264-8.


Karijolich, J., Huang, C. and Yu, Y.-T.. "Spliceosomal snRNA pseudouridylation". DNA and RNA Modification Enzymes: Structure, Mechanism, Function and Evolution. H. Grosjean. Austin, Texas: Landes Bioscience, 2009. 461-474
Stephenson, D., Karijolich, J. and Yu, Y.-T.. "Functional roles of spliceosomal snRNA modifications in pre-mRNA splicing". RNA and DNA Editing: Molecular Mechanisms and Their Integration into Biological. H. Smith. Hoboken, New Jersey: John Wiley & Sons Press, 2008. 175-189