The Staley Lab

Export of discarded splicing intermediates requires mRNA export factors and the nuclear basket
Zeng, Y., and Staley, J.P.
eLife 2024

Profiling of Nascent Lariat Intermediates Reveals Key Genetic Determinants of the Timing of Human Co-transcriptional Splicing
Zeng, Y., Fair F.J., Zeng H., Krishanamohan, A., Hou, Y., Hall, J.M., Ruthenburg, A.J., and Staley, J.P.
Molecular Cell 2022

Profiling of Nascent Lariat Intermediates Reveals Key Genetic Determinants of the Timing of Human Co-transcriptional Splicing
Zeng, Y., Fair F.J., Zeng H., Krishanamohan, A., Hou, Y., Hall, J.M., Ruthenburg, A.J., and Staley, J.P.
bioRxiv 2021, pre-print

Termination of pre-mRNA splicing requires that the ATPase and RNA unwindase Prp43 acts on the catalytic snRNA U6 
Toroney, R., Nielsen K.H., and Staley, J.P.
Genes Dev 2019, 33(21-22):1555-1574.

Termination of pre-mRNA splicing requires that the ATPase and RNA unwindase Prp43 acts on the catalytic snRNA U6 
Toroney, R., Nielsen K.H., and Staley, J.P.
bioRxiv 2019, pre-print

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, 23(7)1110-1124.

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

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.

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.

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.

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.

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.

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

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

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.

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

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.

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

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.

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.

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.