Publications

Preprints

Rodrigo Fregoso Ocampo, Jack P.K. Bravo, Tyler L Dangerfield, Isabel Noceda, Samatar Jirde, Lisa M Alexander, Anjali Das, Sarah Nielsen, Kenneth A Johnson, Christopher T Brown, Cristina N Butterfield, Daniela SA Goltsman, David W Taylor. (2024). DNA targeting by compact Cas9d and its resurrected ancestor. bioRxiv (preprint).

Peer-reviewed papers

2024

J. P. K. Bravo^†, Delisa A. Ramos, Rodrigo Fregoso Ocampo, Caiden Ingram & David W. Taylor. (2024) Plasmid targeting and destruction by the DdmDE bacterial defence system. Nature. 10.1038/s41586-024-07515-9

Grace N Hibshman, J. P. K. Bravo^†, Matthew Hooper, Hongshan Zhang, Tyler L Dangerfield, Ilya J Finkelstein, Kenneth A Johnson, David W Taylor^†. (2024) Unraveling the mechanisms of PAMless DNA interrogation by SpRY Cas9. Nature Communications. 10.1038/s41467-024-47830-3 ^†Co-corresponding author.

Schwartz, E. A.*, Bravo, J. P. K.*, et al. (2024) Assembly of multi-subunit fusion proteins into the RNA-targeting type III-D CRISPR-Cas effector complex. Nature Communications. 10.1038/s41467-024-47506-y

Kamatar, A., Bravo J.P.K et al. (2024) Lipid droplets as substrates for protein phase separation. Biophysical Journal. 10.1016/j.bpj.2024.03.015

Jurre Steens*, Jack P.K. Bravo*, Carl Raymund P Salazar*, Caglar Yildiz, Afonso M Amieiro, Stephan Kostlbacher, Stijn HP Prinsen, Constantinos Patinios, Andreas Bardis, Arjan Barendrecht, Richard A Scheltema, Thijs JG Ettema, John van der Oost, David W Taylor, Raymond Staals. (2024) Type III-B CRISPR-Cas cascade of proteolytic cleavages. Science. 10.1126/science.adk0378

2023

Bravo, J. P. K., et al. (2023) RNA targeting unleashes indiscriminate nuclease activity of CRISPR–Cas12a2. Nature. 10.1038/s41586-022-05560-w

O’Brien, R. E., Bravo, J. P. K., et al. (2023) Structural snapshots of R-loop formation by a type I-C CRISPR-Cascade. Molecular Cell. j.molcel.2023.01.024

Yelland, J. N. Bravo, J. P. K., et al. (2023). A single 2’-O-methylation of ribosomal RNA gates assembly of a functional ribosome. Nature Structural and Molecular Biology. 10.1038/s41594-022-00891-8

2022

Bravo, J. P. K.^†, et al. (2022). Constructing the next-generation of CRISPR-Cas tools from structural blueprints. Current Opinion in Biotechnology. 10.1016/j.copbio.2022.102839.^{. †}Corresponding author.

Bravo, J. P. K., et al. (2022). Structural basis for broad anti-phage immunity by DISARM. Nature Communications. 10.1038/s41467-022-30673-1

Schwartz, E. A.*, McBridge, T. M.*, Bravo, J. P. K.*, et al. (2022). Structural rearrangements allow nucleic acid discrimination by type I-D Cascade. Nature Communications. 10.1038/s41467-022-30402-8.

Bravo, J. P. K., et al. (2022). Structural basis for mismatch surveillance by CRISPR-Cas9. Nature. 10.1038/s41586-022-04470-1

2021

Bravo, J.P.K., et al. (2021). Structural basis of rotavirus RNA chaperone displacement and RNA annealing. PNAS. 10.1073/pnas.2100198118

Geiger, F., Papa, G., Arter, W.E., Acker, J., Saar, K.L., Qi, R., Bravo, J.P.K., et al. (2021). Liquid-liquid phase separation underpins the formation of replication factories in rotaviruses. EMBO Journal. 10.15252/embj.2021107711

Steens, J.A., Zhu, Y., Taylor, D.W., Bravo, J.P.K., et al. (2021) SCOPE enables type III CRISPR-Cas diagnostics using flexible targeting and stringent CARF ribonuclease activation. Nature Communications. 10.1038/s41467-021-25337-5

Zhou, Y.*, Bravo, J.P.K.*, Taylor, H.N.*, et al. (2021). Structure of a type IV CRISPR-Cas ribonucleoprotein complex. iScience. 10.1016/j.isci.2021.102201

Bravo, J.P.K., et al. (2021). Remdesivir is a delayed translocation inhibitor of SARS CoV-2 replication. Molecular Cell. 10.1016/j.molcel.2021.01.035

2020

O’Brien, R.E., Santos, I. C., Wrapp, D., Bravo, J. P. K., et al. (2020). Structural basis for assembly of non-canonical small subunits into type I-C Cascade. Nature Communications. 10.1038/s41467-020-19785-8.

2018

Bravo, J. P. K., et al. (2018) Stability of local secondary structure determines selectivity of viral RNA chaperones. Nucleic Acids Research, 10.1101/293191.