Publications

Research
Structure of DEAH/RHA ATPase Prp43p bound to RNA implicates a pair of hairpins and motif Va in translocation along RNA
He Y., Staley J.P., Andersen G.R., and Nielsen K.H.
RNA 2017
 

News & Views
Reverse transcriptases lend a hand in splicing catalysis
Piccirilli, J.A. and Staley, J.P.
Nat Struct Molec Biol 2016, 23(6): 507-9.

Research
Spliceosomal DEAH-box ATPases remodel pre-mRNA to activate alternative splice sites
Semlow, D.R., Blanco, M.R., Walter, N.G., and Staley, J.P. 
Cell 2016, 164(5): 985-98.

Research
Sequencing of lariat termini in S. cerevisiae reveals 5' splice sites, branch points, and novel splicing events
Qin, D.Q., Huang, L., Wlodaver, A.M., Andrade, J., and Staley, J.P. 
RNA 2016, 22(2): 237-53.

Research
Evidence for formation of a catalytic triplex in the spliceosome
Fica, S.M.†, Mefford, M.A.†, Piccirilli, J.A., and Staley, J.P. †Co-first authors. 
Nat Struct Mol Biol 2014, 21: 464-71.

Research
The DExD/H-box ATPase Prp2p destabilizes and proofreads the catalytic RNA core of the spliceosome
Wlodaver, A.M., and Staley, J.P.
RNA 2013, 20: 1-13.

Research
RNA catalyzes nuclear pre-mRNA splicing
†Fica, S.M., †Tuttle, N., Novak, T., Li, N.S., Lu, J., Koodathingal, P., Dai, Q., Staley, J.P., and Piccirilli, J.A. †Co-first authors.
Nature 2013, 503: 229-234.

Book Chapter
Mechanistic Insights into Mammalian pre-mRNA splicing
Fica, S.M., Small, E.C., Mefford, M., Staley, J.P.
2013, In Post-transcriptional Gene Regulation: RNA Processing in Eukaryotes, J.Y. Wu, ed.
Weinheim, Germany: Wiley-VCH Verlag GmbH & Co. KGaA, pp. 133–161

Point-of-View
Splicing fidelity: DEAD/H-box ATPases as molecular clocks
Koodathingal, P., and Staley, J.P.
RNA Biol 2013, 10: 1073-1079.

Research
A conformational switch in PRP8 mediates metal ion coordination that promotes pre-mRNA exon ligation
Schellenberg, M.J., Ritchie, D.B., Fica, S.M., Staley, J.P., Atta, K.A., LaPointe, P., MacMillan, A.M.
Nat Struct Mol Biol 2013, 20:728-734.

Research
Intronic sequence elements impede exon ligation and trigger a discard pathway that yields funcional telomerase RNA in fission yeast
Kanna, R., Hartnett, S., Voelker, R.B., Berglund, J.A., Staley J.P., and Baumann, P.
Genes Dev 2013, 27:627-638.

Perspective
Spliceosome activation: U4 is the path, stem 1 is the goal, and Prp8 is the keeper. Let’s cheer for the ATPase Brr2!
Nielsen, K.H., and Staley, J.P.
Genes Dev 2012, 22:2461-2467.

Review
Staying on message: ensuring fidelity in pre-mRNA splicing
Semlow, D.R., and Staley, J.P.
Trends in Biochem Sci 2012, 7:263-273.

Research
Meiosis-induced alterations in transcript architecture and noncoding RNA
expression in S. cerevisiae

Kim Guisbert, K.S., Zhang, Y., Flatow, J., Hurtado, S., Staley, J.P., Lin, S., and Sontheimer, E.J.
RNA 2013, 18:1142-1153.

Research
The DEAH Box ATPases Prp16 and Prp43 Cooperate to Proofread 5' Splice Site Cleavage during Pre-mRNA Splicing
Koodathingal, P., Novak, T., Piccirilli, J.A., and Staley, J.P.
Mol Cell 2010, 39:385-395.

Research
The spliceosome discards intermediates via the DEAH box ATPase Prp43p
Mayas, R.M., Maita, H., Semlow, D.R. and Staley, J.P.
Proc Natl Acad Sci 2010, 107:10020-10025.

Research
Autosomal-Dominant Retinitis Pigmentosa Caused by a Mutation in SNRNP200, a Gene Required for Unwinding of U4/U6 snRNAs
Zhao, C., Bellur, D.L., Lu, S., Zhao, F., Grassi, M.A., Bowne, S.J., Sullivan, L.S., Daiger, S.P., Chen, L.J., Pang, C.P., Zhao, K., Staley, J.P., and Larsson, C.
Am J Hum Genet 2009, 85:617-627.

Research
Evidence that U2/U6 helix I promotes both catalytic steps of pre-mRNA splicing and rearranges in between these steps
Mefford, M A. and Staley, J.P.
RNA 2009, 15:1386-1397.

Review
Assembly of ribosomes and spliceosomes: complex ribonucleoprotein machines
Staley, J.P. and Woolford J.L. Jr.
Curr Opin Cell Biol 2009, 21:109-118.

Commentary
Long-distance Splicing
Anderson, A.M. and Staley, J.P.
Proc Natl Acad Sci USA 2008, 105:1693-1694.

Research
A Role for Ubiquitin in the Spliceosome Assembly Pathway
Bellare, P., Small, E.C., Huang, X., Wohlschlegel, J.A., Staley, J.P. and Sontheimer, E.J.
Nat Struct Mol Biol 2008, 15(5):444-51.

Research
U2 toggles iteratively between the stem IIa and stem IIc conformations to promote pre-mRNA splicing
Hilliker, A.K., Mefford, M A. and Staley, J.P.
Genes Dev 2007, 21(7):821-834.

Review
DEAD on
Mayas, R.M. and Staley, J.P.
Nat Struct Mol Biol 2006, 13:954-955.

Research
The EF-G-like GTPase Snu114 Regulates Spliceosome Dynamics Mediated by Brr2p, a DExD/H-box ATPase
Small, E.C., Leggett, S.R., Winans, A.A. and Staley, J.P.
Mol Cell 2006, 23(3):389-99.

Research
Exon ligation is proofread by the DExD/H-box ATPase Prp22p
Mayas, R.M., Maita, H. and Staley, J.P.
Nat Struct Mol Biol 2006, 13:482-490.

Research
The splicing factor Prp43p, a DEAH box ATPase, functions in ribosome biogenesis
Leeds, N.B., Small, E.C., Hiley, S.L., Hughes, T.R. and Staley, J.P.
Mol Cell Biol 2006, 26:513-22. 

Research
Multiple functions for the invariant AGC triad of U6 snRNA
Hilliker, A.K. and Staley, J.P.
RNA 2004, 10:921-928. 

Commentary
Hanging on to the branch
Staley, J.P.
Nat Struct Biol 2002, 9:5-7. 

Research
Specific alterations of U1-C protein or U1 small nuclear RNA can eliminate the requirement of Prp28p, an essential DEAD box splicing factor
Chen, J.Y.F., Stands, L. Staley, J.P., Jackups, R.R., Jr. and Chang, T.H. 
Mol Cell 2001, 7:227.

Research
An RNA switch at the 5' splice site requires ATP and the DEAD box protein Prp28p. 
Staley, J.P. and Guthrie, C. 
Mol Cell 1999, 3:55-64.

Review
Mechanical devices of the spliceosome: motors, clocks, springs and things. 
Staley, J.P. and Guthrie, C. 
Cell 1998, 92:315-326.

Research
Formation of a native-like subdomain in a partially folded intermediate of bovine pancreatic trypsin inhibitor
Staley, J.P. and Kim, P.S. 
Protein Sci 1994, 3:1822-1832.

Research
Complete folding of bovine pancreatic trypsin inhibitor with only a single disulfide bond 
Staley, J.P. and Kim, P.S. 
Proc Natl Acad Sci USA 1992, 89:1519-1523.

Research
Role of a subdomain in the folding of bovine pancreatic trypsin inhibitor 
Staley, J.P. and Kim, P.S. 
Nature 1990, 344:685-688.