Jeremy Wilusz Lab

Wilusz Lab Publications

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Antony, C., George, S.S., Blum, J., Somers, P., Thorsheim, C.L., Wu-Corts, D.J., Ai, Y., Gao, L., Lv, K., Tremblay, M.G., Moss, T., Tan, K., Wilusz, J.E., Ganley, A.R.D., Pimkin, M., and Paralkar, V.R. (2022) Control of ribosomal RNA synthesis by hematopoietic transcription factors. BioRxiv. PDF

Yang, L., Wilusz, J.E., and Chen, L.L. (2022) Biogenesis and regulatory roles of circular RNAs. Annu Rev Cell Dev Biol. PDF

Ai, Y., Liang, D., and Wilusz, J.E. (2022) CRISPR/Cas13 effectors have differing extents of off-target effects that limit their utility in eukaryotic cells. Nucleic Acids Res. 50: e65. PDF

Cable, J., Heard, E., Hirose, T., Prasanth, K.V., Chen, L.L., Henninger, J.E., Quinodoz, S.A., Spector, D.L., Diermeier, S.D., Porman, A.M., Kumar, D., Feinberg, M.W., Shen, X., Unfried, J.P., Johnson, R., Chen, C.K., Wilusz, J.E., Lempradl, A., McGeary, S.E., Wahba, L., Pyle, A.M., Hargrove, A.E., Simon, M.D., Marcia, M., Przanowska, R.K., Chang, H.Y., Jaffrey, S.R., Contreras, L.M., Chen, Q., Shi, J., Mendell, J.T., He, L., Song, E., Rinn, J.L., Lalwani, M.K., Kalem, M.C., Chuong, E.B., Maquat, L.E., and Liu, X. (2021) Noncoding RNAs: biology and applications—a Keystone Symposia report. Ann NY Acad Sci 1506: 118-141. PDF

Chen, L.L. and Wilusz, J.E. (2021) Methods for circular RNAs. Methods 196: 1-2. PDF

Liang, D., Tatomer, D.C., and Wilusz, J.E. (2021) Use of circular RNAs as markers of readthrough transcription to identify factors regulating cleavage/polyadenylation events. Methods 196: 121-128. PDF

Dodbele, S., Mutlu, N., and Wilusz, J.E. (2021) Best practices to ensure robust investigation of circular RNAs: pitfalls and tips. EMBO Rep 22: e52072. PDF

Meganck, R.M., Liu, J., Hale, A.E., Simon, K.E., Fanous, M.M., Vincent, H.A., Wilusz, J.E., Moorman, N.J., Marzluff, W.F., Asokan, A. (2021) Engineering highly efficient backsplicing and translation of synthetic circRNAs. Mol Ther Nucleic Acids 23: 821-834. PDF

He, C., Bozler, J., Janssen, K.A., Wilusz, J.E., Garcia, B.A., Schorn, A.J., and Bonasio, R. (2021) TET2 chemically modifies tRNAs and regulates tRNA fragment levels. Nat Struct Mol Biol 28: 62-70. PDF

Tatomer, D.C., Liang, D., and Wilusz, J.E. (2021) RNAi screening to identify factors that control circular RNA localization. Methods Mol Biol 2209: 321-332. PDF

Mendoza-Figueroa, M.S., Tatomer, D.C., and Wilusz, J.E. (2020) The Integrator complex in transcription and development. Trends Biochem Sci 45: 923-934. PDF

Dodbele, S. and Wilusz, J.E. (2020) Ending on a high note: Downstream ORFs enhance mRNA translational output. EMBO J. 39: e105959. PDF

Tatomer, D.C. and Wilusz, J.E. (2020) Attenuation of eukaryotic protein-coding gene expression via premature transcription termination. Cold Spring Harb Symp Quant Biol 84: 83-93. PDF

Xiao, M.S., Ai, Y., and Wilusz, J.E. (2020) Biogenesis and functions of circular RNAs come into focus. Trends Cell Biol 30: 226-240. PDF

Elrod, N.D., Henriques, T., Huang, K.L., Tatomer, D.C., Wilusz, J.E., Wagner, E.J., and Adelman, K. (2019) The Integrator complex attenuates promoter-proximal transcription at protein-coding genes. Mol Cell 76: 738-752. PDF

Fujiwara, R., Damodaren, N., Wilusz, J.E., and Murakami, K. (2019) The capping enzyme facilitates promoter escape and assembly of a follow-on pre-initiation complex for re-initiation. Proc Natl Acad Sci USA. 116: 22573-22582. PDF

Tatomer, D.C., Elrod, N.D., Liang, D., Xiao, M.S., Jiang, J.Z., Jonathan, M., Huang, K.L., Wagner, E.J., Cherry, S., and Wilusz, J.E. (2019) The Integrator complex cleaves nascent mRNAs to attenuate transcription. Genes Dev 33: 1525-1538. PDF

Garikipati, V.N.S., Verma, S.K., Cheng, Z., Liang, D., Truongcao, M.M., Cimini, M., Yue, Y., Huang, G., Wang, C., Benedict, C., Mallaredy, V., Ibetti, J., Grisanti, L., Schumacher, S.M., Gao, E., Rajan, S., Wilusz, J.E., Goukassian, D., Houser, S., Koch, W.J., and Kishore, R. (2019) Circular RNA circFNDC3b modulates cardiac repair after myocardial infarction via FUS-1/VEGF-A axis. Nat Commun. 10: 4317. PDF

Xiao, M.S. and Wilusz, J.E. (2019) An improved method for circular RNA purification using RNase R that efficiently removes linear RNAs containing G-quadruplexes or structured 3’ ends. Nucleic Acids Res. 47: 8755-8769. PDF

Kearse, M.G., Goldman, D.H., Choi, J., Nwaezeapu, C., Liang, D., Green, K.M., Goldstrohm, A.C., Todd, P.K., Green, R., and Wilusz, J.E. (2019) Ribosome queuing enables non-AUG translation to be resistant to multiple protein synthesis inhibitors. Genes Dev 33: 871-885. PDF

Wilusz, J.E. (2019) Circle the wagons: Circular RNAs control innate immunity. Cell 177: 797-799. PDF

Meganck, R.M., Borchardt, E.K., Castellanos Rivera, R.M., Scalabrino, M.L., Wilusz, J.E., Marzluff, W.F. and Asokan, A. (2018) Tissue-dependent expression and translation of circular RNAs with recombinant AAV vectors in vivo. Mol Ther Nucleic Acids 13: 89-98. PDF

Huang, C., Liang, D., Tatomer, D.C., and Wilusz, J.E. (2018) A length-dependent evolutionarily conserved pathway controls nuclear export of circular RNAs. Genes Dev 32: 639-644. PDF

Wilusz, J.E. (2018) A 360° view of circular RNAs: From biogenesis to functions. Wiley Interdiscip Rev RNA 9: e1478. PDF

Liang, D., Tatomer, D.C., Luo, Z., Wu, H., Yang, L., Chen, L.L., Cherry, S., and Wilusz, J.E. (2017) The output of protein-coding genes shifts to circular RNAs when the pre-mRNA processing machinery is limiting. Mol Cell 68: 940-954. PDF

Kearse, M.G. and Wilusz, J.E. (2017) Non-AUG translation: a new start for protein synthesis in eukaryotes. Genes Dev 31: 1717-1731. PDF

Tatomer, D.C., Liang, D., and Wilusz, J.E. (2017) Inducible expression of eukaryotic circular RNAs from plasmids. Methods Mol Biol 1648: 143-154. PDF

Chen, Y.G., Kim, M.V., Chen, X., Batista, P.J., Aoyama, S., Wilusz, J.E., Iwasaki, A., and Chang, H.Y. (2017) Sensing self and foreign circular RNAs by intron identity. Mol Cell 67: 228-238. PDF

Tatomer, D.C. and Wilusz, J.E. (2017) An unchartered journey for ribosomes: Circumnavigating circular RNAs to produce proteins. Mol Cell 66: 1-2. PDF

He, C., Sidoli, S., Warneford-Thomson, R., Tatomer, D.C., Wilusz, J.E., Garcia, B.A., and Bonasio, R. (2016) High-resolution mapping of RNA-binding regions in the nuclear proteome of embryonic stem cells. Mol Cell 64: 416-430. PDF

Wilusz, J.E. (2016) Circular RNAs: Unexpected outputs of many protein-coding genes. RNA Biol 14: 1007-1017. PDF

Molleston, J.M., Sabin, L.R., Moy, R.H., Menghani, S.V., Rausch, K., Gordesky-Gold, B., Hopkins, K.C., Zhou, R., Jensen, T.H., Wilusz, J.E., and Cherry, S. (2016) A conserved virus-induced cytoplasmic TRAMP-like complex recruits the exosome to target viral RNA for degradation. Genes Dev 30: 1658-1670. PDF

Doucet, A.J., Wilusz, J.E., Miyoshi, T., Liu, Y., and Moran, J.V. (2015) A 3’ poly(A) tract is required for LINE-1 retrotransposition. Mol Cell 60: 728-741. PDF

Kramer, M.C., Liang, D., Tatomer, D.C., Gold, B., March, Z.M., Cherry, S., and Wilusz, J.E. (2015) Combinatorial control of Drosophila circular RNA expression by intronic repeats, hnRNPs, and SR proteins. Genes Dev 29: 2168-2182. PDF

Wilusz, J.E. (2015) Removing roadblocks to deep sequencing of modified RNAs. Nat Methods 12: 821-822. PDF

Wilusz, J.E. (2015) Long noncoding RNAs: Re-writing dogmas of RNA processing and stability. Biochim Biophys Acta 1859: 128-138. PDF

Wilusz, J.E. (2015) Repetitive elements regulate circular RNA biogenesis. Mob Genet Elements 5: 1-7. doi: 10.1080/2159256X.2015.1045682. PDF

Wilusz, J.E. (2015) Controlling translation via modulation of tRNA levels. Wiley Interdiscip Rev RNA 6: 453-470. PDF

Kuhn, C.-D., Wilusz, J.E., Zheng, Y., Beal, P.A., and Joshua-Tor, L. (2015) On-enzyme refolding permits small RNA and tRNA surveillance by the CCA-adding enzyme. Cell 160: 644-658. PDF

Wilusz, J.E. and Wilusz, J. (2014) Nonsense-mediated RNA decay: At the ‘cutting-edge’ of regulated snoRNA production. Genes Dev 28: 2447-2449. PDF

Liang, D. and Wilusz, J.E. (2014) Short intronic repeat sequences facilitate circular RNA production. Genes Dev 28: 2233-2247. PDF

Wilusz, J.E. and Sharp, P.A. (2013) A circuitous route to noncoding RNA. Science 340: 440-441. PDF

Wilusz, J.E. (2013) Noncoding RNA. In: Maloy, S. and Hughes, K. (eds.) Brenner’s Online Encyclopedia of Genetics. 2nd edn.

Wilusz, J.E., JnBaptiste, C.K., Lu, L.Y., Kuhn, C.-D., Joshua-Tor, L., and Sharp, P.A. (2012) A triple helix stabilizes the 3’ ends of long noncoding RNAs that lack poly(A) tails. Genes Dev 26: 2392-2407. PDF

Wilusz, J.E., Whipple, J.M., Phizicky, E.M., and Sharp, P.A. (2011) tRNAs marked with CCACCA are targeted for degradation. Science 334: 817-821. PDF

Wilusz, J.E. and Spector, D.L. (2010) An unexpected ending: non-canonical 3’ end processing mechanisms. RNA 16: 259-266. PDF

Wilusz, J.E., Sunwoo, H., and Spector, D.L. (2009) Long noncoding RNAs: functional surprises from the RNA world. Genes Dev 23: 1494-1504. PDF

Sunwoo, H., Dinger, M.E., Wilusz, J.E., Amaral, P.P., Mattick, J.S., and Spector, D.L. (2009) MEN ε/β nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles. Genome Res 19: 347-359. PDF

Wilusz, J.E., Freier, S.M., and Spector, D.L. (2008) 3’ end processing of a long nuclear-retained noncoding RNA yields a tRNA-like cytoplasmic RNA. Cell 135: 919-932. PDF

Wilusz, J.E. and Beemon, K.L. (2006) The negative regulator of splicing element of Rous sarcoma virus promotes polyadenylation. J. Virol. 80: 9634-9640. PDF

Wilusz, J.E., Devanney, S.C., and Caputi, M. (2005) Chimeric peptide nucleic acid compounds modulate splicing of the bcl-xgene in vitro and in vivo. Nucleic Acids Res 33: 6547-6554. PDF