Literature DB >> 29035385

Class 2 CRISPR-Cas RNA-guided endonucleases: Swiss Army knives of genome editing.

Stefano Stella1, Pablo Alcón1, Guillermo Montoya1.   

Abstract

CRISPR-Cas is a bacterial defense system against phage infection and nucleic acid invasion. Class 2 type II CRISPR-Cas9 has also been widely used for genome engineering. Here, we review novel insights into the CRISPR class 2 type V enzymes, specifically Cpf1 and C2c1, which display different DNA-recognition and cleavage characteristics than those of Cas9, the best-characterized member of class 2. Recent structures of these ribonucleoprotein complexes that capture several stages of the endonuclease reaction have provided molecular details of recognition, unzipping and cleavage of the target DNA, allowing their comparison with Cas9. A detailed understanding of these mechanisms is crucial for improving these genome engineering tools and expanding the genomic space that can be targeted.

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Year:  2017        PMID: 29035385     DOI: 10.1038/nsmb.3486

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN: 1545-9985            Impact factor:   15.369


  90 in total

1.  Identification of genes that are associated with DNA repeats in prokaryotes.

Authors:  Ruud Jansen; Jan D A van Embden; Wim Gaastra; Leo M Schouls
Journal:  Mol Microbiol       Date:  2002-03       Impact factor: 3.501

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.  Planting the seed: target recognition of short guide RNAs.

Authors:  Tim Künne; Daan C Swarts; Stan J J Brouns
Journal:  Trends Microbiol       Date:  2014-01-14       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.  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

7.  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

8.  Genome editing: progress and challenges for medical applications.

Authors:  Dana Carroll
Journal:  Genome Med       Date:  2016-11-15       Impact factor: 11.117

9.  The role of DNA shape in protein-DNA recognition.

Authors:  Remo Rohs; Sean M West; Alona Sosinsky; Peng Liu; Richard S Mann; Barry Honig
Journal:  Nature       Date:  2009-10-29       Impact factor: 49.962

10.  RNA-guided editing of bacterial genomes using CRISPR-Cas systems.

Authors:  Wenyan Jiang; David Bikard; David Cox; Feng Zhang; Luciano A Marraffini
Journal:  Nat Biotechnol       Date:  2013-01-29       Impact factor: 54.908

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  25 in total

Review 1.  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

Review 2.  Advancing biotechnology with CRISPR/Cas9: recent applications and patent landscape.

Authors:  Raphael Ferreira; Florian David; Jens Nielsen
Journal:  J Ind Microbiol Biotechnol       Date:  2018-01-24       Impact factor: 3.346

3.  Interfering with retrotransposition by two types of CRISPR effectors: Cas12a and Cas13a.

Authors:  Niubing Zhang; Xinyun Jing; Yuanhua Liu; Minjie Chen; Xianfeng Zhu; Jing Jiang; Hongbing Wang; Xuan Li; Pei Hao
Journal:  Cell Discov       Date:  2020-05-19       Impact factor: 10.849

Review 4.  General guidelines for CRISPR/Cas-based genome editing in plants.

Authors:  Musa Kavas; Ceyhun Kayihan; Ufuk Demirel; Emre Aksoy; Kubilay Yildirim; Bayram Ali Yerlikaya; Irmak Çalik; İlkay Sevgen
Journal:  Mol Biol Rep       Date:  2022-09-15       Impact factor: 2.742

Review 5.  Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants.

Authors:  Kira S Makarova; Yuri I Wolf; Jaime Iranzo; Sergey A Shmakov; Omer S Alkhnbashi; Stan J J Brouns; Emmanuelle Charpentier; David Cheng; Daniel H Haft; Philippe Horvath; Sylvain Moineau; Francisco J M Mojica; David Scott; Shiraz A Shah; Virginijus Siksnys; Michael P Terns; Česlovas Venclovas; Malcolm F White; Alexander F Yakunin; Winston Yan; Feng Zhang; Roger A Garrett; Rolf Backofen; John van der Oost; Rodolphe Barrangou; Eugene V Koonin
Journal:  Nat Rev Microbiol       Date:  2019-12-19       Impact factor: 60.633

6.  Real-time observation of DNA target interrogation and product release by the RNA-guided endonuclease CRISPR Cpf1 (Cas12a).

Authors:  Digvijay Singh; John Mallon; Anustup Poddar; Yanbo Wang; Ramreddy Tippana; Olivia Yang; Scott Bailey; Taekjip Ha
Journal:  Proc Natl Acad Sci U S A       Date:  2018-05-07       Impact factor: 11.205

7.  The bridge helix of Cas12a imparts selectivity in cis-DNA cleavage and regulates trans-DNA cleavage.

Authors:  Hari Priya Parameshwaran; Kesavan Babu; Christine Tran; Kevin Guan; Aleique Allen; Venkatesan Kathiresan; Peter Z Qin; Rakhi Rajan
Journal:  FEBS Lett       Date:  2021-02-28       Impact factor: 4.124

Review 8.  CRISPR-based genome editing through the lens of DNA repair.

Authors:  Tarun S Nambiar; Lou Baudrier; Pierre Billon; Alberto Ciccia
Journal:  Mol Cell       Date:  2022-01-20       Impact factor: 17.970

9.  Scaffold-mediated CRISPR-Cas9 delivery system for acute myeloid leukemia therapy.

Authors:  Tzu-Chieh Ho; Hye Sung Kim; Yumei Chen; Yamin Li; Mark W LaMere; Caroline Chen; Hui Wang; Jing Gong; Cal D Palumbo; John M Ashton; Hae-Won Kim; Qiaobing Xu; Michael W Becker; Kam W Leong
Journal:  Sci Adv       Date:  2021-05-19       Impact factor: 14.136

10.  Structure of the mini-RNA-guided endonuclease CRISPR-Cas12j3.

Authors:  Arturo Carabias; Anders Fuglsang; Piero Temperini; Tillmann Pape; Nicholas Sofos; Stefano Stella; Simon Erlendsson; Guillermo Montoya
Journal:  Nat Commun       Date:  2021-07-22       Impact factor: 14.919

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