Literature DB >> 27088723

Multiplexed labeling of genomic loci with dCas9 and engineered sgRNAs using CRISPRainbow.

Hanhui Ma1, Li-Chun Tu2, Ardalan Naseri3, Maximiliaan Huisman2, Shaojie Zhang3, David Grunwald2, Thoru Pederson1.   

Abstract

A lack of techniques to image multiple genomic loci in living cells has limited our ability to investigate chromosome dynamics. Here we describe CRISPRainbow, a system for labeling DNA in living cells based on nuclease-dead (d) Cas9 combined with engineered single guide RNA (sgRNA) scaffolds that bind sets of fluorescent proteins. We demonstrate simultaneous imaging of up to six chromosomal loci in individual live cells and document large differences in the dynamic properties of different chromosomal loci.

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Year:  2016        PMID： 27088723      PMCID： PMC4864854          DOI： 10.1038/nbt.3526

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN： 1087-0156            Impact factor:   54.908


  19 in total

1.  LambdaN-GFP: an RNA reporter system for live-cell imaging.

Authors:  Nathalie Daigle; Jan Ellenberg
Journal:  Nat Methods       Date:  2007-07-01       Impact factor: 28.547

2.  Dynamics of telomeres and promyelocytic leukemia nuclear bodies in a telomerase-negative human cell line.

Authors:  Thibaud Jegou; Inn Chung; Gerrit Heuvelman; Malte Wachsmuth; Sabine M Görisch; Karin M Greulich-Bode; Petra Boukamp; Peter Lichter; Karsten Rippe
Journal:  Mol Biol Cell       Date:  2009-02-11       Impact factor: 4.138

3.  Visualization of repetitive DNA sequences in human chromosomes with transcription activator-like effectors.

Authors:  Hanhui Ma; Pablo Reyes-Gutierrez; Thoru Pederson
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-09       Impact factor: 11.205

Review 4.  Development and applications of CRISPR-Cas9 for genome engineering.

Authors:  Patrick D Hsu; Eric S Lander; Feng Zhang
Journal:  Cell       Date:  2014-06-05       Impact factor: 41.582

Review 5.  Advances in fluorescence labeling strategies for dynamic cellular imaging.

Authors:  Kevin M Dean; Amy E Palmer
Journal:  Nat Chem Biol       Date:  2014-07       Impact factor: 15.040

6.  Designed arginine-rich RNA-binding peptides with picomolar affinity.

Authors:  Ryan J Austin; Tianbing Xia; Jinsong Ren; Terry T Takahashi; Richard W Roberts
Journal:  J Am Chem Soc       Date:  2002-09-18       Impact factor: 15.419

7.  Orthogonal Cas9 proteins for RNA-guided gene regulation and editing.

Authors:  Kevin M Esvelt; Prashant Mali; Jonathan L Braff; Mark Moosburner; Stephanie J Yaung; George M Church
Journal:  Nat Methods       Date:  2013-09-29       Impact factor: 28.547

8.  Visualization of specific DNA sequences in living mouse embryonic stem cells with a programmable fluorescent CRISPR/Cas system.

Authors:  Tobias Anton; Sebastian Bultmann; Heinrich Leonhardt; Yolanda Markaki
Journal:  Nucleus       Date:  2014-03-12       Impact factor: 4.197

9.  Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system.

Authors:  Baohui Chen; Luke A Gilbert; Beth A Cimini; Joerg Schnitzbauer; Wei Zhang; Gene-Wei Li; Jason Park; Elizabeth H Blackburn; Jonathan S Weissman; Lei S Qi; Bo Huang
Journal:  Cell       Date:  2013-12-19       Impact factor: 41.582

10.  Improving CRISPR-Cas nuclease specificity using truncated guide RNAs.

Authors:  Yanfang Fu; Jeffry D Sander; Deepak Reyon; Vincent M Cascio; J Keith Joung
Journal:  Nat Biotechnol       Date:  2014-01-26       Impact factor: 54.908
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  123 in total

1.  Very fast CRISPR on demand.

Authors:  Yang Liu; Roger S Zou; Shuaixin He; Yuta Nihongaki; Xiaoguang Li; Shiva Razavi; Bin Wu; Taekjip Ha
Journal:  Science       Date:  2020-06-12       Impact factor: 47.728

2.  Determination of local chromatin interactions using a combined CRISPR and peroxidase APEX2 system.

Authors:  Wenqing Qiu; Zhijiao Xu; Min Zhang; Dandan Zhang; Hui Fan; Taotao Li; Qianfeng Wang; Peiru Liu; Zaihua Zhu; Duo Du; Minjia Tan; Bo Wen; Yun Liu
Journal:  Nucleic Acids Res       Date:  2019-05-21       Impact factor: 16.971

Review 3.  CRISPR Tools for Systematic Studies of RNA Regulation.

Authors:  Jesse Engreitz; Omar Abudayyeh; Jonathan Gootenberg; Feng Zhang
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-08-01       Impact factor: 10.005

4.  BEAT: A Python Program to Quantify Base Editing from Sanger Sequencing.

Authors:  Li Xu; Yakun Liu; Renzhi Han
Journal:  CRISPR J       Date:  2019-07-18

Review 5.  Illuminating Genomic Dark Matter with RNA Imaging.

Authors:  Arjun Raj; John L Rinn
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-05-01       Impact factor: 10.005

6.  FISHing Out the Details of CRISPR Genome Tracks.

Authors:  Allison J Coté; Arjun Raj
Journal:  Biophys J       Date:  2017-03-28       Impact factor: 4.033

7.  Tracking Multiple Genomic Elements Using Correlative CRISPR Imaging and Sequential DNA FISH.

Authors:  Juan Guan; Harrison Liu; Xiaoyu Shi; Siyu Feng; Bo Huang
Journal:  Biophys J       Date:  2017-03-28       Impact factor: 4.033

8.  Interrogating cell division errors using random and chromosome-specific missegregation approaches.

Authors:  Peter Ly; Don W Cleveland
Journal:  Cell Cycle       Date:  2017-06-26       Impact factor: 4.534

9.  The 4D nucleome project.

Authors:  Job Dekker; Andrew S Belmont; Mitchell Guttman; Victor O Leshyk; John T Lis; Stavros Lomvardas; Leonid A Mirny; Clodagh C O'Shea; Peter J Park; Bing Ren; Joan C Ritland Politz; Jay Shendure; Sheng Zhong
Journal:  Nature       Date:  2017-09-13       Impact factor: 49.962

10.  Transcription-coupled changes in nuclear mobility of mammalian cis-regulatory elements.

Authors:  Bo Gu; Tomek Swigut; Andrew Spencley; Matthew R Bauer; Mingyu Chung; Tobias Meyer; Joanna Wysocka
Journal:  Science       Date:  2018-01-25       Impact factor: 47.728
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