CRISPR-based genomic tools for the manipulation of genetically intractable microorganisms

被引：69

作者：

Shapiro, Rebecca S. ^{[1
,2
,3
]}

Chavez, Alejandro ^{[4
]}

Collins, James J. ^{[1
,2
,5
]}

机构：

[1] MIT, Dept Biol Engn, Inst Med Engn & Sci, Synthet Biol Ctr, 77 Massachusetts Ave, Cambridge, MA 02139 USA

[2] Broad Inst MIT & Harvard, Cambridge, MA 02142 USA

[3] Univ Guelph, Dept Mol & Cellular Biol, Guelph, ON, Canada

[4] Columbia Univ Coll Phys & Surg, Dept Pathol & Cell Biol, 630 W 168th St, New York, NY 10032 USA

[5] Harvard Univ, Wyss Inst Biol Inspired Engn, Boston, MA 02115 USA

来源：

NATURE REVIEWS MICROBIOLOGY | 2018年 / 16卷 / 06期

关键词：

HOMOLOGOUS RECOMBINATION; FUNCTIONAL GENOMICS; RNA INTERFERENCE; GENE REPLACEMENT; PLASMODIUM; DNA; TOXOPLASMA; YEAST; ACHIEVEMENTS; DETERMINANTS;

D O I：

10.1038/s41579-018-0002-7

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Genetic manipulation of microorganisms has been crucial in understanding their biology, yet for many microbial species, robust tools for comprehensive genetic analysis were lacking until the advent of CRISPR-Cas-based gene editing techniques. In this Progress article, we discuss advances in CRISPR-based techniques for the genetic analysis of genetically intractable microorganisms, with an emphasis on mycobacteria, fungi and parasites. We discuss how CRISPR-based analyses in these organisms have enabled the discovery of novel gene functions, the investigation of genetic interaction networks and the identification of virulence factors.

引用

页码：333 / 339

页数：7

共 94 条

[1] A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response [J].

Adamson, Britt ;

Norman, Thomas M. ;

Jost, Marco ;

Cho, Min Y. ;

Nunez, James K. ;

Chen, Yuwen ;

Villalta, Jacqueline E. ;

Gilbert, Luke A. ;

Horlbeck, Max A. ;

Hein, Marco Y. ;

Pak, Ryan A. ;

Gray, Andrew N. ;

Gross, Carol A. ;

Dixit, Atray ;

Parnas, Oren ;

Regev, Aviv ;

Weissman, Jonathan S. .

CELL, 2016, 167 (07) :1867-+

[2] STUDIES ON THE CHEMICAL NATURE OF THE SUBSTANCE INDUCING TRANSFORMATION OF PNEUMOCOCCAL TYPES INDUCTION OF TRANSFORMATION BY A DESOXYRIBONUCLEIC ACID FRACTION ISOLATED FROM PNEUMOCOCCUS TYPE III [J].

Avery, Oswald T. ;

MacLeod, Colin M. ;

McCarty, Maclyn .

JOURNAL OF EXPERIMENTAL MEDICINE, 1944, 79 (02) :137-158

[3] Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants:: the Keio collection [J].

Baba, Tomoya ;

Ara, Takeshi ;

Hasegawa, Miki ;

Takai, Yuki ;

Okumura, Yoshiko ;

Baba, Miki ;

Datsenko, Kirill A. ;

Tomita, Masaru ;

Wanner, Barry L. ;

Mori, Hirotada .

MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1) :2006.0008

[4] Quantitative Genome-Wide Genetic Interaction Screens Reveal Global Epistatic Relationships of Protein Complexes in Escherichia coli [J].

Babu, Mohan ;

Arnold, Roland ;

Bundalovic-Torma, Cedoljub ;

Gagarinova, Alla ;

Wong, Keith S. ;

Kumar, Ashwani ;

Stewart, Geordie ;

Samanfar, Bahram ;

Aoki, Hiroyuki ;

Wagih, Omar ;

Vlasblom, James ;

Phanse, Sadhna ;

Lad, Krunal ;

Yu, Angela Yeou Hsiung ;

Graham, Christopher ;

Jin, Ke ;

Brown, Eric ;

Golshani, Ashkan ;

Kim, Philip ;

Moreno-Hagelsieb, Gabriel ;

Greenblatt, Jack ;

Houry, Walid A. ;

Parkinson, John ;

Emili, Andrew .

PLOS GENETICS, 2014, 10 (02)

[5] Molecular genetics and comparative genomics reveal RNAi is not functional in malaria parasites [J].

Baum, Jake ;

Papenfuss, Anthony T. ;

Mair, Gunnar R. ;

Janse, Chris J. ;

Vlachou, Dina ;

Waters, Andrew P. ;

Cowman, Alan F. ;

Crabb, Brendan S. ;

de Koning-Ward, Tania F. .

NUCLEIC ACIDS RESEARCH, 2009, 37 (11) :3788-3798

[6] Exploiting CRISPR-Cas nucleases to produce sequence-specific antimicrobials [J].

Bikard, David ;

Euler, Chad W. ;

Jiang, Wenyan ;

Nussenzweig, Philip M. ;

Goldberg, Gregory W. ;

Duportet, Xavier ;

Fischetti, Vincent A. ;

Marraffini, Luciano A. .

NATURE BIOTECHNOLOGY, 2014, 32 (11) :1146-1150

[7] Evolution of pathogenicity and sexual reproduction in eight Candida genomes [J].

Butler, Geraldine ;

Rasmussen, Matthew D. ;

Lin, Michael F. ;

Santos, Manuel A. S. ;

Sakthikumar, Sharadha ;

Munro, Carol A. ;

Rheinbay, Esther ;

Grabherr, Manfred ;

Forche, Anja ;

Reedy, Jennifer L. ;

Agrafioti, Ino ;

Arnaud, Martha B. ;

Bates, Steven ;

Brown, Alistair J. P. ;

Brunke, Sascha ;

Costanzo, Maria C. ;

Fitzpatrick, David A. ;

de Groot, Piet W. J. ;

Harris, David ;

Hoyer, Lois L. ;

Hube, Bernhard ;

Klis, Frans M. ;

Kodira, Chinnappa ;

Lennard, Nicola ;

Logue, Mary E. ;

Martin, Ronny ;

Neiman, Aaron M. ;

Nikolaou, Elissavet ;

Quail, Michael A. ;

Quinn, Janet ;

Santos, Maria C. ;

Schmitzberger, Florian F. ;

Sherlock, Gavin ;

Shah, Prachi ;

Silverstein, Kevin A. T. ;

Skrzypek, Marek S. ;

Soll, David ;

Staggs, Rodney ;

Stansfield, Ian ;

Stumpf, Michael P. H. ;

Sudbery, Peter E. ;

Srikantha, Thyagarajan ;

Zeng, Qiandong ;

Berman, Judith ;

Berriman, Matthew ;

Heitman, Joseph ;

Gow, Neil A. R. ;

Lorenz, Michael C. ;

Birren, Bruce W. ;

Kellis, Manolis .

NATURE, 2009, 459 (7247) :657-662

[8] Gene silencing by CRISPR interference in mycobacteria [J].

Choudhary, Eira ;

Thakur, Preeti ;

Pareek, Madhu ;

Agarwal, Nisheeth .

NATURE COMMUNICATIONS, 2015, 6

[9] Sequence-specific antimicrobials using efficiently delivered RNA-guided nucleases [J].

Citorik, Robert J. ;

Mimee, Mark ;

Lu, Timothy K. .

NATURE BIOTECHNOLOGY, 2014, 32 (11) :1141-1145

[10] High-Efficiency Multiplex Genome Editing of Streptomyces Species Using an Engineered CRISPR/Cas System [J].

Cobb, Ryan E. ;

Wang, Yajie ;

Zhao, Huimin .

ACS SYNTHETIC BIOLOGY, 2015, 4 (06) :723-728

← 1 2 3 4 5 6 7 8 9 10 →