Construct design for CRISPR/Cas-based genome editing in plants

被引：84

作者：

Hassan, Md Mahmudul ^{[1
,2
,3
]}

Zhang, Yingxiao ^{[4
]}

Yuan, Guoliang ^{[1
,2
]}

De, Kuntal ^{[1
]}

Chen, Jin-Gui ^{[1
,2
]}

Muchero, Wellington ^{[1
,2
]}

Tuskan, Gerald A. ^{[1
,2
]}

Qi, Yiping ^{[4
,5
]}

Yang, Xiaohan ^{[1
,2
]}

机构：

[1] Oak Ridge Natl Lab, Biosci Div, Oak Ridge, TN 37831 USA

[2] Oak Ridge Natl Lab, Ctr Bioenergy Innovat, Oak Ridge, TN 37831 USA

[3] Patuakhali Sci & Technol Univ, Dept Genet & Plant Breeding, Dumki 8602, Patuakhali, Bangladesh

[4] Univ Maryland, Dept Plant Sci & Landscape Architecture, College Pk, MD 20742 USA

[5] Univ Maryland, Inst Biosci & Biotechnol Res, Rockville, MD 20850 USA

来源：

TRENDS IN PLANT SCIENCE | 2021年 / 26卷 / 11期

基金：

美国国家科学基金会;

关键词：

HIGHLY EFFICIENT; GUIDE RNA; MULTIPLEX; DNA; MUTAGENESIS; RICE; ENDONUCLEASE; ARABIDOPSIS; EXPRESSION; INDUCTION;

D O I：

10.1016/j.tplants.2021.06.015

中图分类号：

Q94 [植物学];

学科分类号：

071001 ;

摘要：

CRISPR construct design is a key step in the practice of genome editing, which includes identification of appropriate Cas proteins, design and selection of guide RNAs (gRNAs), and selection of regulatory elements to express gRNAs and Cas proteins. Here, we review the choices of CRISPR-based genome editors suited for different needs in plant genome editing applications. We consider the technical aspects of gRNA design and the associated computational tools. We also discuss strategies for the design of multiplex CRISPR constructs for highthroughput manipulation of complex biological processes or polygenic traits. We provide recommendations for different elements of CRISPR constructs and discuss the remaining challenges of CRISPR construct optimization in plant genome editing.

引用

页码：1133 / 1152

页数：20

共 169 条

[1] Efficient Virus-Mediated Genome Editing in Plants Using the CRISPR/Cas9 System [J].

Ali, Zahir ;

Abul-faraj, Aala ;

Li, Lixin ;

Ghosh, Neha ;

Piatek, Marek ;

Mahjoub, Ali ;

Aouida, Mustapha ;

Piatek, Agnieszka ;

Baltes, Nicholas J. ;

Voytas, Daniel F. ;

Dinesh-Kumar, Savithramma ;

Mahfouz, Magdy M. .

MOLECULAR PLANT, 2015, 8 (08) :1288-1291

[2] Search-and-replace genome editing without double-strand breaks or donor DNA [J].

Anzalone, Andrew V. ;

Randolph, Peyton B. ;

Davis, Jessie R. ;

Sousa, Alexander A. ;

Koblan, Luke W. ;

Levy, Jonathan M. ;

Chen, Peter J. ;

Wilson, Christopher ;

Newby, Gregory A. ;

Raguram, Aditya ;

Liu, David R. .

NATURE, 2019, 576 (7785) :149-+

[3] Comparison of CRISPR-Cas9/Cas12a Ribonucleoprotein Complexes for Genome Editing Efficiency in the Rice Phytoene Desaturase (OsPDS) Gene [J].

Banakar, Raviraj ;

Schubert, Mollie ;

Collingwood, Michael ;

Vakulskas, Christopher ;

Eggenberger, Alan L. ;

Wang, Kan .

RICE, 2020, 13 (01)

[4] Base editing in plants: Current status and challenges [J].

Bharat, Sutar Suhas ;

Li, Shaoya ;

Li, Jingying ;

Yan, Lei ;

Xia, Lanqin .

CROP JOURNAL, 2020, 8 (03) :384-395

[5]

Bibikova M, 2002, GENETICS, V161, P1169

[6] CRISPy-web: An online resource to design sgRNAs for CRISPR applications [J].

Blin, Kai ;

Pedersen, Lasse Ebdrup ;

Weber, Tilmann ;

Lee, Sang Yup .

SYNTHETIC AND SYSTEMS BIOTECHNOLOGY, 2016, 1 (02) :118-121

[7] Engineering altered protein-DNA recognition specificity [J].

Bogdanove, Adam J. ;

Bohm, Andrew ;

Miller, Jeffrey C. ;

Morgan, Richard D. ;

Stoddard, Barry L. .

NUCLEIC ACIDS RESEARCH, 2018, 46 (10) :4845-4871

[8] A benchmark of computational CRISPR-Cas9 guide design methods [J].

Bradford, Jacob ;

Perrin, Dimitri .

PLOS COMPUTATIONAL BIOLOGY, 2019, 15 (08)

[9] Evaluating the Efficiency of gRNAs in CRISPR/Cas9 Mediated Genome Editing in Poplars [J].

Bruegmann, Tobias ;

Deecke, Khira ;

Fladung, Matthias .

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 2019, 20 (15)

[10] Engineering herbicide resistance via prime editing in rice [J].

Butt, Haroon ;

Rao, Gundra Sivakrishna ;

Sedeek, Khalid ;

Aman, Rashid ;

Kamel, Radwa ;

Mahfouz, Magdy .

PLANT BIOTECHNOLOGY JOURNAL, 2020, 18 (12) :2370-2372

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