Literature DB >> 32070859

Allosteric regulation of CRISPR-Cas9 for DNA-targeting and cleavage.

Zhicheng Zuo1, Jin Liu2.   

Abstract

The CRISPR-Cas9 system from Streptococcus pyogenes has been exploited as a programmable RNA-guided DNA-targeting and DNA-editing platform. This evolutionary tool enables diverse genetic manipulations with unprecedented precision and ease. Cas9 is an allosteric enzyme, which is allosterically regulated in conformational activation, target recognition, and DNA cleavage. Here, we outline the underlying allosteric control over the Cas9 complex assembly and targeting specificity. We further review the strategies for mitigating intrinsic Cas9 off-target effects through allosteric modulations and the advances in engineering controllable Cas9 systems that are responsive to external allosteric signals. Future development of highly specific, tunable CRISPR-Cas9 systems through allosteric modulations would greatly benefit applications that require both conditional control and high precision.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Year:  2020        PMID: 32070859      PMCID: PMC7308215          DOI: 10.1016/j.sbi.2020.01.013

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  55 in total

1.  Naturally Occurring Off-Switches for CRISPR-Cas9.

Authors:  April Pawluk; Nadia Amrani; Yan Zhang; Bianca Garcia; Yurima Hidalgo-Reyes; Jooyoung Lee; Alireza Edraki; Megha Shah; Erik J Sontheimer; Karen L Maxwell; Alan R Davidson
Journal:  Cell       Date:  2016-12-08       Impact factor: 41.582

Review 2.  Meet the Anti-CRISPRs: Widespread Protein Inhibitors of CRISPR-Cas Systems.

Authors:  Sungwon Hwang; Karen L Maxwell
Journal:  CRISPR J       Date:  2019-02

Review 3.  Precision Control of CRISPR-Cas9 Using Small Molecules and Light.

Authors:  Soumyashree A Gangopadhyay; Kurt J Cox; Debasish Manna; Donghyun Lim; Basudeb Maji; Qingxuan Zhou; Amit Choudhary
Journal:  Biochemistry       Date:  2019-01-22       Impact factor: 3.162

4.  Partial DNA-guided Cas9 enables genome editing with reduced off-target activity.

Authors:  Hao Yin; Chun-Qing Song; Sneha Suresh; Suet-Yan Kwan; Qiongqiong Wu; Stephen Walsh; Junmei Ding; Roman L Bogorad; Lihua Julie Zhu; Scot A Wolfe; Victor Koteliansky; Wen Xue; Robert Langer; Daniel G Anderson
Journal:  Nat Chem Biol       Date:  2018-01-29       Impact factor: 15.040

5.  Rapidly inducible Cas9 and DSB-ddPCR to probe editing kinetics.

Authors:  John C Rose; Jason J Stephany; William J Valente; Bridget M Trevillian; Ha V Dang; Jason H Bielas; Dustin J Maly; Douglas M Fowler
Journal:  Nat Methods       Date:  2017-07-24       Impact factor: 28.547

6.  Incorporation of bridged nucleic acids into CRISPR RNAs improves Cas9 endonuclease specificity.

Authors:  Christopher R Cromwell; Keewon Sung; Jinho Park; Amanda R Krysler; Juan Jovel; Seong Keun Kim; Basil P Hubbard
Journal:  Nat Commun       Date:  2018-04-13       Impact factor: 14.919

7.  Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease.

Authors:  Carolin Anders; Ole Niewoehner; Alessia Duerst; Martin Jinek
Journal:  Nature       Date:  2014-07-27       Impact factor: 49.962

8.  Conformational control of DNA target cleavage by CRISPR-Cas9.

Authors:  Samuel H Sternberg; Benjamin LaFrance; Matias Kaplan; Jennifer A Doudna
Journal:  Nature       Date:  2015-10-28       Impact factor: 49.962

9.  Profiling of engineering hotspots identifies an allosteric CRISPR-Cas9 switch.

Authors:  Benjamin L Oakes; Dana C Nadler; Avi Flamholz; Christof Fellmann; Brett T Staahl; Jennifer A Doudna; David F Savage
Journal:  Nat Biotechnol       Date:  2016-05-02       Impact factor: 54.908

10.  Evolved Cas9 variants with broad PAM compatibility and high DNA specificity.

Authors:  Johnny H Hu; Shannon M Miller; Maarten H Geurts; Weixin Tang; Liwei Chen; Ning Sun; Christina M Zeina; Xue Gao; Holly A Rees; Zhi Lin; David R Liu
Journal:  Nature       Date:  2018-02-28       Impact factor: 49.962

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  8 in total

1.  Establishing the allosteric mechanism in CRISPR-Cas9.

Authors:  Łukasz Nierzwicki; Pablo Ricardo Arantes; Aakash Saha; Giulia Palermo
Journal:  Wiley Interdiscip Rev Comput Mol Sci       Date:  2020-10-26

Review 2.  Understanding the molecular mechanisms and role of autophagy in obesity.

Authors:  Tapan Behl; Aayush Sehgal; Rajni Bala; Swati Chadha
Journal:  Mol Biol Rep       Date:  2021-04-02       Impact factor: 2.316

3.  Coordinated Actions of Cas9 HNH and RuvC Nuclease Domains Are Regulated by the Bridge Helix and the Target DNA Sequence.

Authors:  Kesavan Babu; Venkatesan Kathiresan; Pratibha Kumari; Sydney Newsom; Hari Priya Parameshwaran; Xiongping Chen; Jin Liu; Peter Z Qin; Rakhi Rajan
Journal:  Biochemistry       Date:  2021-11-10       Impact factor: 3.162

4.  Site-Specific Labeling Reveals Cas9 Induces Partial Unwinding Without RNA/DNA Pairing in Sequences Distal to the PAM.

Authors:  Yue Li; Yukang Liu; Jaideep Singh; Narin S Tangprasertchai; Ravi Trivedi; Yun Fang; Peter Z Qin
Journal:  CRISPR J       Date:  2022-03-23

Review 5.  Emerging Methods and Applications to Decrypt Allostery in Proteins and Nucleic Acids.

Authors:  Pablo R Arantes; Amun C Patel; Giulia Palermo
Journal:  J Mol Biol       Date:  2022-02-28       Impact factor: 6.151

6.  Rational Engineering of CRISPR-Cas9 Nuclease to Attenuate Position-Dependent Off-Target Effects.

Authors:  Zhicheng Zuo; Kesavan Babu; Chhandosee Ganguly; Ashwini Zolekar; Sydney Newsom; Rakhi Rajan; Yu-Chieh Wang; Jin Liu
Journal:  CRISPR J       Date:  2022-04

7.  Molecular Dynamics Reveals a DNA-Induced Dynamic Switch Triggering Activation of CRISPR-Cas12a.

Authors:  Aakash Saha; Pablo R Arantes; Rohaine V Hsu; Yogesh B Narkhede; Martin Jinek; Giulia Palermo
Journal:  J Chem Inf Model       Date:  2020-10-27       Impact factor: 4.956

8.  Enhanced specificity mutations perturb allosteric signaling in CRISPR-Cas9.

Authors:  Lukasz Nierzwicki; Kyle W East; Uriel N Morzan; Pablo R Arantes; Victor S Batista; George P Lisi; Giulia Palermo
Journal:  Elife       Date:  2021-12-15       Impact factor: 8.140

  8 in total

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