Literature DB >> 28985502

The Revolution Continues: Newly Discovered Systems Expand the CRISPR-Cas Toolkit.

Karthik Murugan1, Kesavan Babu2, Ramya Sundaresan2, Rakhi Rajan2, Dipali G Sashital3.   

Abstract

CRISPR-Cas systems defend prokaryotes against bacteriophages and mobile genetic elements and serve as the basis for revolutionary tools for genetic engineering. Class 2 CRISPR-Cas systems use single Cas endonucleases paired with guide RNAs to cleave complementary nucleic acid targets, enabling programmable sequence-specific targeting with minimal machinery. Recent discoveries of previously unidentified CRISPR-Cas systems have uncovered a deep reservoir of potential biotechnological tools beyond the well-characterized Type II Cas9 systems. Here we review the current mechanistic understanding of newly discovered single-protein Cas endonucleases. Comparison of these Cas effectors reveals substantial mechanistic diversity, underscoring the phylogenetic divergence of related CRISPR-Cas systems. This diversity has enabled further expansion of CRISPR-Cas biotechnological toolkits, with wide-ranging applications from genome editing to diagnostic tools based on various Cas endonuclease activities. These advances highlight the exciting prospects for future tools based on the continually expanding set of CRISPR-Cas systems.
Copyright © 2017 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  C2c1; C2c2; CRISPR-Cas; Cas12; Cas13; Cas9; Cpf1; RNA-guided DNA cleavage; RNA-guided RNA cleavage; genome editing

Mesh:

Substances:

Year:  2017        PMID: 28985502      PMCID: PMC5683099          DOI: 10.1016/j.molcel.2017.09.007

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  76 in total

1.  Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells.

Authors:  Xuebing Wu; David A Scott; Andrea J Kriz; Anthony C Chiu; Patrick D Hsu; Daniel B Dadon; Albert W Cheng; Alexandro E Trevino; Silvana Konermann; Sidi Chen; Rudolf Jaenisch; Feng Zhang; Phillip A Sharp
Journal:  Nat Biotechnol       Date:  2014-04-20       Impact factor: 54.908

Review 2.  CRISPR-Cas9 Structures and Mechanisms.

Authors:  Fuguo Jiang; Jennifer A Doudna
Journal:  Annu Rev Biophys       Date:  2017-03-30       Impact factor: 12.981

Review 3.  Type III CRISPR-Cas Immunity: Major Differences Brushed Aside.

Authors:  Gintautas Tamulaitis; Česlovas Venclovas; Virginijus Siksnys
Journal:  Trends Microbiol       Date:  2016-10-20       Impact factor: 17.079

4.  Targeted mutagenesis in mice by electroporation of Cpf1 ribonucleoproteins.

Authors:  Junho K Hur; Kyoungmi Kim; Kyung Wook Been; Gayoung Baek; Sunghyeok Ye; Junseok W Hur; Seuk-Min Ryu; Youn Su Lee; Jin-Soo Kim
Journal:  Nat Biotechnol       Date:  2016-06-06       Impact factor: 54.908

Review 5.  Defining and improving the genome-wide specificities of CRISPR-Cas9 nucleases.

Authors:  Shengdar Q Tsai; J Keith Joung
Journal:  Nat Rev Genet       Date:  2016-05       Impact factor: 53.242

6.  Long-term dual-color tracking of genomic loci by modified sgRNAs of the CRISPR/Cas9 system.

Authors:  Shipeng Shao; Weiwei Zhang; Huan Hu; Boxin Xue; Jinshan Qin; Chaoying Sun; Yuao Sun; Wensheng Wei; Yujie Sun
Journal:  Nucleic Acids Res       Date:  2016-02-04       Impact factor: 16.971

Review 7.  The Discovery, Mechanisms, and Evolutionary Impact of Anti-CRISPRs.

Authors:  Adair L Borges; Alan R Davidson; Joseph Bondy-Denomy
Journal:  Annu Rev Virol       Date:  2017-07-27       Impact factor: 10.431

8.  Diversity and evolution of class 2 CRISPR-Cas systems.

Authors:  Sergey Shmakov; Aaron Smargon; David Scott; David Cox; Neena Pyzocha; Winston Yan; Omar O Abudayyeh; Jonathan S Gootenberg; Kira S Makarova; Yuri I Wolf; Konstantin Severinov; Feng Zhang; Eugene V Koonin
Journal:  Nat Rev Microbiol       Date:  2017-01-23       Impact factor: 60.633

9.  Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems.

Authors:  Sergey Shmakov; Omar O Abudayyeh; Kira S Makarova; Yuri I Wolf; Jonathan S Gootenberg; Ekaterina Semenova; Leonid Minakhin; Julia Joung; Silvana Konermann; Konstantin Severinov; Feng Zhang; Eugene V Koonin
Journal:  Mol Cell       Date:  2015-10-22       Impact factor: 17.970

10.  Cpf1 proteins excise CRISPR RNAs from mRNA transcripts in mammalian cells.

Authors:  Guocai Zhong; Haimin Wang; Yujun Li; Mai H Tran; Michael Farzan
Journal:  Nat Chem Biol       Date:  2017-06-19       Impact factor: 15.040

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  62 in total

Review 1.  Camelina sativa, an oilseed at the nexus between model system and commercial crop.

Authors:  Meghna R Malik; Jihong Tang; Nirmala Sharma; Claire Burkitt; Yuanyuan Ji; Marie Mykytyshyn; Karen Bohmert-Tatarev; Oliver Peoples; Kristi D Snell
Journal:  Plant Cell Rep       Date:  2018-06-07       Impact factor: 4.570

2.  The Francisella novicida Cas12a is sensitive to the structure downstream of the terminal repeat in CRISPR arrays.

Authors:  Chunyu Liao; Rebecca A Slotkowski; Tatjana Achmedov; Chase L Beisel
Journal:  RNA Biol       Date:  2018-10-12       Impact factor: 4.652

Review 3.  Exploring the Trans-Cleavage Activity of CRISPR-Cas12a (cpf1) for the Development of a Universal Electrochemical Biosensor.

Authors:  Yifan Dai; Rodrigo A Somoza; Liu Wang; Jean F Welter; Yan Li; Arnold I Caplan; Chung Chiun Liu
Journal:  Angew Chem Int Ed Engl       Date:  2019-10-17       Impact factor: 15.336

Review 4.  Spinocerebellar ataxias: prospects and challenges for therapy development.

Authors:  Tetsuo Ashizawa; Gülin Öz; Henry L Paulson
Journal:  Nat Rev Neurol       Date:  2018-10       Impact factor: 42.937

5.  Rodent gene drives for conservation: opportunities and data needs.

Authors:  John Godwin; Megan Serr; S Kathleen Barnhill-Dilling; Dimitri V Blondel; Peter R Brown; Karl Campbell; Jason Delborne; Alun L Lloyd; Kevin P Oh; Thomas A A Prowse; Royden Saah; Paul Thomas
Journal:  Proc Biol Sci       Date:  2019-11-06       Impact factor: 5.349

6.  CRISPR-Cas12a has widespread off-target and dsDNA-nicking effects.

Authors:  Karthik Murugan; Arun S Seetharam; Andrew J Severin; Dipali G Sashital
Journal:  J Biol Chem       Date:  2020-03-11       Impact factor: 5.157

Review 7.  Chemistry of Class 1 CRISPR-Cas effectors: Binding, editing, and regulation.

Authors:  Tina Y Liu; Jennifer A Doudna
Journal:  J Biol Chem       Date:  2020-08-14       Impact factor: 5.157

Review 8.  Insights into maize genome editing via CRISPR/Cas9.

Authors:  Astha Agarwal; Pranjal Yadava; Krishan Kumar; Ishwar Singh; Tanushri Kaul; Arunava Pattanayak; Pawan Kumar Agrawal
Journal:  Physiol Mol Biol Plants       Date:  2018-02-17

9.  Fluorescence-based methods for measuring target interference by CRISPR-Cas systems.

Authors:  Phong T Phan; Michael Schelling; Chaoyou Xue; Dipali G Sashital
Journal:  Methods Enzymol       Date:  2018-12-21       Impact factor: 1.600

10.  CRISPR-Cas molecular beacons as tool for studies of assembly of CRISPR-Cas effector complexes and their interactions with DNA.

Authors:  Vladimir Mekler; Konstantin Kuznedelov; Leonid Minakhin; Karthik Murugan; Dipali G Sashital; Konstantin Severinov
Journal:  Methods Enzymol       Date:  2018-12-01       Impact factor: 1.600

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