Dinshaw Patel: Publications

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2022

Gao, Y-G., McDonald, J., Malinina, L., Patel, D. J. & Brown, R. E. (2022). Ceramide-1-phosphate transfer protein promotes sphingolipid reorientation needed for binding during membrane interaction. J. Lipid Res. 63, 100151.

Andreev, V. I., et al., Patel, D. J. & Brennecke, J. (2022). Panaromix SUMOylation on chromatin connects the piRNA pathway to the cellular heterochromatin machinery. Nat. Struct. Mol. Biol. 29, 130-142.

Wang, X. et al. Patel, D. J. et al. & Ju, J. (2022). Combination of antiviral drugs to inhibit polymerase and exonuclease of SARS-C0V-2 as potential covid-19 therapeutics. Commun. Biol. 5:154.

Zheng, L., et al., Patel, D. J., et al., Ren, A. & Lai, E. C. (2022). Distinct structural bases for sequence-specific DNA binding by mammalian BEN domains. Genes Dev. 36, 225-240.

Campello Morillo, R. A., et al., Patel, D. J., et al., & Kafsack, B. F. (2022). The transcriptional regulator HDP1 controls expansion of the inner membrane complex during early sexual differentiation of malaria parasites. Nat. Microbiol. 7, 288-299.

Warren, G. M., et al., Patel, D.J., Greene, E. C. & Shuman, S. (2022). Structure-activity relations at a nucleobase-stacking tryptophan required for chemomechanical coupling in the DNA resecting motor-nuclease AdnAB. Nucleic Acids Res. 50, 952-961.

Wang, J., et al., Madhani, H. & Patel, D. J. (2022). SNF2 ATPase remodels DNA methyltransferase to enable durable epigenetic memory. Mol. Cell

Bao, H., et al. Patel, D. J., Groth, A. & Huang, H. (2022). NASP maintains histone H3-H4 homeostasis through two distinct H3 binding modes. Nucleic Acids Res.

Xie, W., et al., Jones, R. A., Tuschl, T. & Patel, D. J. (2022). Arabinose and xylose sugar-modified analogs of 2’,3’-cGAMP as STING agonists. Cell Chem. Biol.

Yu, Y., et al., Zhao, X. & Patel, D. J. Cryo-EM structure of dsDNA- and ATP-bound 6-subunit S. cerevisiae Smc5/6 complex. Proc. Natl. Acad. Scis. USA.

 

2021

Bouuaert, C. C., et al., Patel, D. J. & Keeney, S. (2021). DNA-driven condensation assembles the meiotic break machinery. Nature 592, 144-149.

Cheng, Y., et al, Patel, D. J., Jaffrey, S. R. & Kharas, M. G. (2021). m6A mRNA catalyzes a phase-separated nuclear body that suppresses myeloid leukemic differentiation. Cancer Cell 39, 958-972.

Gao, Y-G., et al., Patel, D. J., Malinia, L., & Brown, R. E. (2021). Phosphoinositide regulation of ceramide-1-phosphate transfer protein (CPTPs). J. Biol. Chem. 296:100600.

Hammond, C. M., et al., Patel, D. J., Huang, H. & Groth, A. (2021).  DNAJC9 integrates heat shock molecular chaperones into the histone chaperone network. Mol. Cell 81, 2533-2548.

Huang, X., et al., Patel, D. J., Toth, K. J., Aravin, A. A. & Li, S. (2021). Binding of guide piRNA triggers methylation of the unstructured N-terminal region of Aub leading to assembly of the piRNA amplification complex. Nat. Commun. 12: 4061.

Jia, N. & Patel, D. J. (2021). Structure-based functional mechanisms and biotechnology applications of anti-CRISPR proteins. Nat. Rev. Mol. Cell Biol. 22, 563-579.

Li, W., et al., Gozani, O., Patel, D. J. & Wang, Z. (2021). Molecular basis of nucleosomal H3K36 methylation by NSD methyltransferases. Nature 590, 498-503.

Ren, W. et al., Patel, D. J., et al., Wang, G. G. & Song, J. (2021). DNMT1 reads heterochromatic H4K20me3 to reinforce LINE-1 DNA methylation. Nat. Commun. 12: 2490.

Rostol, J.T., et al, Patel, D. J. & Marraffini, L. A. (2021). The Card1 nuclease provides bacterial defense during Type III CRISPR immunity. Nature 590, 624-629.

Sacramento, C. Q. et al. Patel, D. J. et al. & Souza, T. M. (2021). The in vitro anti-viral activity of the anti-hepatitis C virus (HCV) drugs daclatasvir and sofosbuvir against SARS-CoV-2. J. Antimicrobial Chemotherapy 76, 1874-1885.

Schnabl, J., et al., Patel, D. J. & Brennecke, J. (2021). Molecular principles of Piwi-mediated cotranscriptional silencing through the dimeric SFiNX complex. Genes Dev. 35, 392-409.

Wang, B., et al., Patel, D. J. & Yang, H. (2021). Structural basis for self-cleavage prevention by tag:anti-tag pairing complementarity in Type VI Cas13 CRISPR systems. Mol. Cell 81, 1100-1115.

Warren, G. M., Wang, J., Patel, D. J. & Shuman, S. (2021). Oligomeric quarternary structure of Escherichia coli and Mycobacterium smegmatis Lhr helicases is nucleated by a novel C-terminal domain composed of five winged-helix modules. Nucleic Acids Res. 49, 3876-3887.

Xie, W., et al., & Patel, D. J. (2021). Molecular mechanisms of assembly and remodeling of human Shieldin complex. Proc. Natl. Acad. Scis. USA. 118, e2024512118.

Yu, Y., et al., Patel, D. J. & Zhao, X. (2021). Integrative analysis reveals unique structure and functional features of the Smc5/6 complex. Proc. Natl. Acad. Scis. USA. 118, e2026844118.

 

2020

Hohl, M., et al., Patel, D. J., Burgers, P. M., Cobb, J. A. & Petrini, J. H. (2020). Modeling cancer genomic data in yeast reveals selection against ATM function during tumorigenesis. PLOS Genetics 16:e1008422.

Jia, N., et al., & Patel, D. J. (2020). Structure-function insights into the initial step of DNA integration by a CRISPR-Cas-Transposon complex.  Cell Res. 30, 182-184.

Meeske, A. J., et al., Patel, D. J. & Marraffini, L. A. (2020). Phage-encoded anti-CRISPR enables full escape from type VIA CRISPR-Cas immunity. Science 369, 54-59.

Ren, W., et al., Patel, D. J., Wang, G. G. & Song, J. (2020). Direct readout of heterochromatic H3K9me3 and H4K20me3 regulate DNMT1-mediated maintenance DNA methylation. Proc. Natl. Acad. Scis. USA 117, 18439-18447.

Teplova, M., et al., Ren, A., Patel, D. J. & Micura R. (2020). On crucial roles of two hydrated Mg2+ ions in reaction catalysis of the pistol ribozyme. Angew. Chemie Int. Edn. 59, 2837-2843.

Xie, W., et al., Brennecke, J., Ameres, S. L. & Patel, D. J. (2020). Structural and functional analysis of miRNA 3’-end trimming by Nibbler. Proc. Natl. Acad. Scis. USA. 117, 30370-30379.

 

2019

Batki, J., et al, Patel, D. J. and Brennecke, J. (2019). The SFINX complex licenses piRNA-guided heterochromatin formation. Nat. Struct. Mol. Biol. 26,720-731.

Boekhout, M., et al., Patel, D. J. & Keeney, S. (2019). REC114 partner ANKRD31controls number, timing and location of meiotic DNA breaks. Mol. Cell 74, 1053-1068.

Hirano, Y., et al., Chalfant, C. E., Patel, D. J. and Brown, R. (2019). Structural basis of phosphatidylcholine recognition by the C2-domain of cytosolic phospholipase A2. eLife 8:e44760.

Jia, N., Jones, R., Sukenick, G, & Patel, D. J. (2019). Second messenger cA4 formation within the composite Csm1 Palm pocket of type III-A CRISPR-Cas Csm complex and its release path. Mol. Cell 75, 933-943.

Jia, N., Jones, R., Yang, G., Ouerfelli, O. & Patel, D. J. (2019). CRISPR-Cas III-A Csm6 CARF domain is a ring nuclease triggering stepwise cA4 cleavage with ApA>p formation terminating RNase activity. Mol. Cell 75, 944-956.

Jia, N., et al., Greene, E. C., Patel, D. J. & Shuman, S. (2019). Structure and single-molecule kinetic analysis of the mycobacterial motor-nuclease AdnAB illuminate the mechanism of DNA double-strand break resection. Proc. Natl. Acad. Scis. USA. 116, 24507-24516.

Jia, N., et al., Marraffini, L. A. & Patel, D. J. (2019). Type III-A CRISPR Csm complexes: Assembly, target RNA recognition, periodic cleavage and autoimmunity. Mol. Cell 73, 264-267.

Lama, L., et al., Patel, D. J. & Tuschl, T. (2019). Development of human cGAS-specific small molecule inhibitors with biochemical and cell-based activity for repression of dsDNA-triggered interferon expression. Nat. Commun. 10: 2261.

Minuesa, G. et al. & Patel, D. J., et al., & Kharas, M. G. (2019). Small-molecule targeting of MUSASHI RNA-binding activity in acute myeloid leukemia. Nat. Commun. 10:2691.

Xie, W., et al., Tuschl, T. & Patel, D. J. (2019). Human cGAS catalytic domain has an additional DNA-binding interface that enhances enzymatic activity and liquid phase condensation. Proc. Natl. Acad. Scis. USA 116,11046-11955.

Zheng, L., et al., Patel, D. J., Micura, R. & Ren, A. (2019). Hatchet ribozyme structure and implications for the precatalytic fold and cleavage mechanism. Proc. Natl. Acad. Scis. USA  116, 10783-10791.