Cpf1 is a single RNA-guided endonuclease of a class 2 CRISPR-Cas system.
Bernd Zetsche,Jonathan S. Gootenberg,Omar O. Abudayyeh,Ian Slaymaker,Kira S. Makarova,Patrick Essletzbichler,Sara E. Volz,Julia Joung,John van der Oost,Aviv Regev,Aviv Regev,Eugene V. Koonin,Feng Zhang +12 more
TLDR
In this paper, the authors characterized Cpf1, a putative class 2 CRISPR effector, which is a single RNA-guided endonuclease lacking tracrRNA and utilizes a T-rich protospacer-adjacent motif.About:
This article is published in Cell.The article was published on 2015-10-22 and is currently open access. It has received 3436 citations till now. The article focuses on the topics: CRISPR/Cpf1 & Cas9.read more
Citations
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Understanding the diversity of genetic outcomes from CRISPR-Cas generated homology-directed repair.
TL;DR: Brett Sansbury et al. show that a CRISPR-Cas complex that provides double-stranded cleavage combined with a mammalian cell-free extract can enhance non-homologous end joining and homology-directed repair and use the system to show the range of genetic outcomes of gene-editing.
Journal ArticleDOI
Cas12aFDet: A CRISPR/Cas12a-based fluorescence platform for sensitive and specific detection of Listeria monocytogenes serotype 4c
Fan Li,Qinghua Ye,Moutong Chen,Xinran Xiang,Jumei Zhang,Rui Pang,Liang Xue,Juan Wang,Qihui Gu,Tao Lei,Xianhu Wei,Yu Ding,Qingping Wu +12 more
TL;DR: In this article, the authors proposed a CRISPR/Cas12a-based fluorescence detection platform named Cas12aFDet for rapid nucleic acid detection that overcomes the timeconsuming process and the risk of aerosol contamination during DNA amplicon transfer.
Journal ArticleDOI
Combinatorial mutagenesis en masse optimizes the genome editing activities of SpCas9.
Gigi C. G. Choi,Peng Zhou,Chaya T. L. Yuen,Becky K. C. Chan,Feng Xu,Siyu Bao,Hoi Yee Chu,Dawn Thean,Kaeling Tan,Koon Ho Wong,Zongli Zheng,Zongli Zheng,Alan S.L. Wong +12 more
TL;DR: This work systematically characterizes a library of 948 combination mutants of the widely used Streptococcus pyogenes Cas9 nuclease to optimize its genome-editing activity in human cells and identifies Opti-SpCas9, which possesses enhanced editing specificity without sacrificing potency and broad targeting range.
Posted ContentDOI
Structure Of The Cpf1 Endonuclease R-Loop Complex After Target DNA Cleavage
TL;DR: The study reveals a singular working model of RNA-guided DNA cleavage by Cpf1, opening up new avenues for engineering this genome modification system2-4.
Journal ArticleDOI
MinGenome: An In Silico Top-Down Approach for the Synthesis of Minimized Genomes
Lin Wang,Costas D. Maranas +1 more
TL;DR: A versatile genome reduction algorithm MinGenome is introduced that implements a mixed-integer linear programming (MILP) algorithm to identify in size descending order all dispensable contiguous sequences without affecting the organism's growth or other desirable traits.
References
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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Stephen F. Altschul,Thomas L. Madden,Alejandro A. Schäffer,Jinghui Zhang,Zheng Zhang,Webb Miller,David J. Lipman +6 more
TL;DR: A new criterion for triggering the extension of word hits, combined with a new heuristic for generating gapped alignments, yields a gapped BLAST program that runs at approximately three times the speed of the original.
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Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li,Richard Durbin +1 more
TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
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MUSCLE: multiple sequence alignment with high accuracy and high throughput
TL;DR: MUSCLE is a new computer program for creating multiple alignments of protein sequences that includes fast distance estimation using kmer counting, progressive alignment using a new profile function the authors call the log-expectation score, and refinement using tree-dependent restricted partitioning.
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A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity.
Martin Jinek,Krzysztof Chylinski,Krzysztof Chylinski,Ines Fonfara,Michael H. Hauer,Jennifer A. Doudna,Emmanuelle Charpentier +6 more
TL;DR: This study reveals a family of endonucleases that use dual-RNAs for site-specific DNA cleavage and highlights the potential to exploit the system for RNA-programmable genome editing.
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Multiplex Genome Engineering Using CRISPR/Cas Systems
Le Cong,Le Cong,F. Ann Ran,F. Ann Ran,David M. Cox,David M. Cox,Shuailiang Lin,Shuailiang Lin,Robert P. J. Barretto,Naomi Habib,Patrick D. Hsu,Patrick D. Hsu,Xuebing Wu,Wenyan Jiang,Luciano A. Marraffini,Feng Zhang +15 more
TL;DR: The type II prokaryotic CRISPR (clustered regularly interspaced short palindromic repeats)/Cas adaptive immune system has been shown to facilitate RNA-guided site-specific DNA cleavage as discussed by the authors.