Skip to main content
 

Publications

Sternberg, S. H., Doudna, J. A. (2015). Expanding the Biologist’s Toolkit with CRISPR-Cas9. Molecular cell, 58(4), 568-574.

Nuñez, J. K., Lee, A. S., Engelman, A., Doudna, J. A. (2015). Integrase-mediated spacer acquisition during CRISPR-Cas adaptive immunity. Nature,519(7542), 193-198.

Singh, D., Sternberg, S. H., Fei, J., Doudna, J. A., Ha, T. (2015). Real-Time Observation of DNA Recognition by the RNA-Guided Endonuclease Cas9 using Single-Molecule FRET. Biophysical Journal, 108(2), 26a.

Wright, A. V., Sternberg, S. H., Taylor, D. W., Staahl, B. T., Bardales, J. A., Kornfeld, J. E., Doudna, J. A. (2015). Rational design of a split-Cas9 enzyme complex. Proceedings of the National Academy of Sciences, 112(10), 2984-2989.

Doudna, J. A., Charpentier, E. (2014). The new frontier of genome engineering with CRISPR-Cas9. Science, 346(6213), 1258096.

Staals, R. H., Zhu, Y., Taylor, D. W., Kornfeld, J. E., Sharma, K., Barendregt, A., … Doudna, J.A., Shinkai, A., van der Oost, J. (2014). RNA targeting by the type III-A CRISPR-Cas Csm complex of Thermus thermophilus. Molecular cell, 56(4), 518-530.

Gilbert, L. A., Horlbeck, M. A., Adamson, B., Villalta, J. E., Chen, Y., Whitehead, E. H., Guimaraes, C., Panning, B., Ploegh, H.L., Bassik, M.C., Qi, L.S., Kampmann, M. & Weissman, J. S. (2014). Genome-scale CRISPR-mediated control of gene repression and activation. Cell, 159(3), 647-661

Briner, A. E., Donohoue, P. D., Gomaa, A. A., Selle, K., Slorach, E. M., Nye, C. H., Haurwitz, R.E., Beisel, C.L., May, A.P., Barrangou, R. (2014). Guide RNA Functional Modules Direct Cas9 Activity and Orthogonality. Molecular Cell,56(2), 333-9.

O'Connell, M.R., Oakes, B.L., Sternberg, S.H., East-Seletsky, A., Kaplan, M., Doudna, J.A. (2014). Programmable RNA recognition and cleavage by CRISPR/Cas9. Nature. Epub ahead of print.

Anders, C., Niewoehner, O., Duerst, A., Jinek, M. (2014). Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease. Nature, 513(7519), 569-73.

Nuñez, J.K., Kranzusch, P.J., Noeske, J., Wright, A.V., Davies, C.W., Doudna, J.A. (2014). Cas1-Cas2 complex formation mediates spacer acquisition during CRISPR-Cas adaptive immunity. Nat Struct Mol Biol, 21(6), 528-34.

Hochstrasser, M.L., Taylor, D.W., Bhat, P., Guegler, C.K., Sternberg, S.H., Nogales, E., Doudna, J.A. (2014). CasA mediates Cas3-catalyzed target degradation during CRISPR RNA-guided interference. Proc Natl Acad Sci U S A, 111(18), 6618-23.

Barrangou, R., Marraffini, L. A. (2014). CRISPR-Cas systems: prokaryotes upgrade to adaptive immunity. Molecular cell, 54(2), 234-244.

Jinek, M., Jiang, F., Taylor, D.W., Sternberg, S.H., Kaya, E., Ma, E., Anders, C., Hauer, M., Zhou, K., Lin, S., Kaplan, M., Iavarone, A.T., Charpentier, E., Nogales, E., Doudna, J.A. (2014). Structures of Cas9 endonucleases reveal RNA-mediated conformational activation. Science, 343(6176), 1247997.

Sternberg, S.H., Redding, S., Jinek, M., Greene, E.C., Doudna, J.A. (2014). DNA interrogation by the CRISPR RNA-guided endonuclease Cas9. Nature, 507(7490), 62-7.

Niewoehner, O., Jinek, M., Doudna, J.A. (2014). Evolution of CRISPR RNA recognition and processing by Cas6 endonucleases. Nucleic Acids Res, 42(2), 1341-53.

Larson, M.H., Gilbert, L.A., Wang, X., Lim, W.A., Weissman, J.S., Qi, L.S. (2013). CRISPR interference (CRISPRi) for sequence-specific control of gene expression. Nat Protoc, 8(11), 2180-96.

Gilbert, L.A., Larson, M.H., Morsut, L., Liu, Z., Brar, G.A., Torres, S.E., Stern-Ginossar, N., Brandman, O., Whitehead, E.H., Doudna, J.A., Lim, W.A., Weissman, J.S., Qi, L.S. (2013). CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes. Cell, 154(2), 442-51.

Karvelis, T., Gasiunas, G., Miksys, A., Barrangou, R., Horvath, P., Siksnys, V. (2013). crRNA and tracrRNA guide Cas9-mediated DNA interference in Streptococcus thermophilus. RNA biology, 10(5), 841-851.

Lee, H.Y., Haurwitz, R.E., Apffel, A., Zhou, K., Smart, B., Wenger, C.D., Laderman, S., Bruhn, L., Doudna, J.A. (2013). RNA-protein analysis using a conditional CRISPR nuclease. Proc Natl Acad Sci U S A, 110(14), 5416-21.

Chen, B., Gilbert, L. A., Cimini, B. A., Schnitzbauer, J., Zhang, W., Li, G. W., Park, J., Blackburn, E.H., Weissman, J.S., Qi, L.S., & Huang, B. (2013). Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system. Cell, 155(7), 1479-1491.

Qi, L. S., Larson, M. H., Gilbert, L. A., Doudna, J. A., Weissman, J. S., Arkin, A. P., & Lim, W. A. (2013). Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression. Cell, 152(5), 1173-1183.

Jinek, M., East, A., Cheng, A., Lin, S., Ma, E., Doudna, J. (2013). RNA-programmed genome editing in human cells. Elife, 2, e00471.

Haurwitz, R.E., Sternberg, S.H., Doudna, J.A. (2012). Csy4 relies on an unusual catalytic dyad to position and cleave CRISPR RNA. EMBO J, 31(12), 2824-32.

Gasiunas, G., Barrangou, R., Horvath, P., Siksnys, V. (2012). Cas9–crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria. Proceedings of the National Academy of Sciences,109(39), E2579-E2586.

Sashital, D.G., Wiedenheft, B., Doudna, J.A. (2012). Mechanism of foreign DNA selection in a bacterial adaptive immune system. Mol Cell, 46(5), 606-15.

Sternberg, S.H., Haurwitz, R.E., Doudna, J.A. (2012). Mechanism of substrate selection by a highly specific CRISPR endoribonuclease. RNA, 18(4), 661-72.

Wiedenheft, B., Sternberg, S.H., Doudna, J.A. (2012). RNA-guided genetic silencing systems in bacteria and archaea. Nature, 482(7385), 331-8.

Wiedenheft, B., van Duijn, E., Bultema, J.B., Waghmare, S.P., Zhou, K., Barendregt, A., Westphal, W., Heck, A.J., Boekema, E.J., Dickman, M.J., Doudna, J.A. (2011). RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions. Proc Natl Acad Sci U S A, 108(25), 10092-7.

Sashital, D.G., Jinek, M., Doudna, J.A. (2011). An RNA-induced conformational change required for CRISPR RNA cleavage by the endoribonuclease Cse3. Nat Struct Mol Biol, 18(6), 680-7.

Haurwitz, R.E., Jinek, M., Wiedenheft, B., Zhou, K., Doudna, J.A. (2010). Sequence- and structure-specific RNA processing by a CRISPR endonuclease. Science, 329(5997), 1355-8.

Horvath, P., Barrangou, R. (2010). CRISPR/Cas, the immune system of bacteria and archaea. Science, 327(5962), 167-170.

Wiedenheft, B., Zhou, K., Jinek, M., Coyle, S.M., Ma, W., Doudna, J.A. (2009). Structural basis for DNase activity of a conserved protein implicated in CRISPR-mediated genome defense. Structure, 17(6), 904-12.

Barrangou, R., Fremaux, C., Deveau, H., Richards, M., Boyaval, P., Moineau, S., Romero, D., Horvath, P. (2007). CRISPR provides acquired resistance against viruses in prokaryotes. Science, 315(5819), 1709-1712.