CRISPR technologies and the search for the PAM-free nuclease.


Journal

Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555

Informations de publication

Date de publication:
22 01 2021
Historique:
received: 15 09 2020
accepted: 03 12 2020
entrez: 23 1 2021
pubmed: 24 1 2021
medline: 9 2 2021
Statut: epublish

Résumé

The ever-expanding set of CRISPR technologies and their programmable RNA-guided nucleases exhibit remarkable flexibility in DNA targeting. However, this flexibility comes with an ever-present constraint: the requirement for a protospacer adjacent motif (PAM) flanking each target. While PAMs play an essential role in self/nonself discrimination by CRISPR-Cas immune systems, this constraint has launched a far-reaching expedition for nucleases with relaxed PAM requirements. Here, we review ongoing efforts toward realizing PAM-free nucleases through natural ortholog mining and protein engineering. We also address potential consequences of fully eliminating PAM recognition and instead propose an alternative nuclease repertoire covering all possible PAM sequences.

Identifiants

pubmed: 33483498
doi: 10.1038/s41467-020-20633-y
pii: 10.1038/s41467-020-20633-y
pmc: PMC7822910
doi:

Substances chimiques

RNA, Guide 0
CRISPR-Associated Protein 9 EC 3.1.-

Types de publication

Journal Article Research Support, N.I.H., Extramural Review

Langues

eng

Sous-ensembles de citation

IM

Pagination

555

Subventions

Organisme : NIGMS NIH HHS
ID : R35 GM119561
Pays : United States

Références

Mol Cell. 2016 Apr 7;62(1):137-47
pubmed: 27041224
Nat Rev Microbiol. 2020 Feb;18(2):67-83
pubmed: 31857715
ACS Synth Biol. 2018 Apr 20;7(4):1085-1094
pubmed: 29544049
Nucleic Acids Res. 2020 Jun 4;48(10):5624-5638
pubmed: 32329776
Nat Commun. 2019 Apr 23;10(1):1842
pubmed: 31015529
Nat Commun. 2019 Apr 29;10(1):1968
pubmed: 31036811
Nature. 2011 Apr 28;472(7344):499-503
pubmed: 21478873
Nat Biotechnol. 2016 Sep 08;34(9):933-941
pubmed: 27606440
Nat Biotechnol. 2017 Aug;35(8):789-792
pubmed: 28581492
Nucleic Acids Res. 2018 Feb 16;46(3):1375-1385
pubmed: 29267886
Nat Commun. 2019 Jan 22;10(1):212
pubmed: 30670702
Nat Rev Mol Cell Biol. 2019 Dec;20(12):753-765
pubmed: 31690888
Trends Biotechnol. 2019 Jul;37(7):730-743
pubmed: 30654914
Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15644-9
pubmed: 23940360
Genes Dev. 2016 Feb 15;30(4):447-59
pubmed: 26848045
Nature. 2016 Jan 28;529(7587):490-5
pubmed: 26735016
Nat Biotechnol. 2019 Mar;37(3):276-282
pubmed: 30742127
Cell. 2015 Aug 27;162(5):1113-26
pubmed: 26317473
Nature. 2015 Apr 9;520(7546):186-91
pubmed: 25830891
Trends Biotechnol. 1999 Apr;17(4):135-6
pubmed: 10203769
Science. 2019 Jan 4;363(6422):88-91
pubmed: 30523077
Microbiology (Reading). 2009 Mar;155(Pt 3):733-740
pubmed: 19246744
Science. 2018 Apr 27;360(6387):436-439
pubmed: 29449511
Nat Biotechnol. 2021 Apr;39(4):480-489
pubmed: 33230293
ACS Synth Biol. 2017 Jun 16;6(6):1103-1113
pubmed: 28277645
Cell. 2015 Oct 22;163(3):759-71
pubmed: 26422227
Nat Commun. 2019 Dec 4;10(1):5524
pubmed: 31797930
Nature. 2014 Sep 25;513(7519):569-73
pubmed: 25079318
Proc Natl Acad Sci U S A. 2019 Nov 12;116(46):23100-23105
pubmed: 31659048
Science. 2016 Aug 5;353(6299):aaf5573
pubmed: 27256883
Nat Biotechnol. 2013 Mar;31(3):233-9
pubmed: 23360965
Nat Biotechnol. 2016 Feb;34(2):184-191
pubmed: 26780180
Proc Natl Acad Sci U S A. 2012 Sep 25;109(39):E2579-86
pubmed: 22949671
Nucleic Acids Res. 2013 Aug;41(15):7429-37
pubmed: 23761437
Nat Biotechnol. 2015 Dec;33(12):1293-1298
pubmed: 26524662
Microbiol Mol Biol Rev. 2020 Apr 1;84(2):
pubmed: 32238445
J Bacteriol. 2008 Feb;190(4):1401-12
pubmed: 18065539
Nucleic Acids Res. 2020 May 21;48(9):5016-5023
pubmed: 32246713
Bioinformatics. 2014 May 15;30(10):1473-5
pubmed: 24463181
PLoS Genet. 2013 Apr;9(4):e1003454
pubmed: 23637624
Nucleic Acids Res. 2020 Apr 17;48(7):3722-3733
pubmed: 32107556
Genome Biol. 2015 Nov 19;16:253
pubmed: 26585795
Cell Res. 2019 Mar;29(3):183-192
pubmed: 30664728
Science. 2019 Jul 5;365(6448):48-53
pubmed: 31171706
Biochem Soc Trans. 2020 Feb 28;48(1):15-23
pubmed: 31922192
PLoS Pathog. 2020 Mar 9;16(3):e1008344
pubmed: 32150575
Genome Biol. 2018 Dec 5;19(1):214
pubmed: 30518407
Science. 2020 Apr 17;368(6488):290-296
pubmed: 32217751
Nature. 2014 Mar 6;507(7490):62-7
pubmed: 24476820
Mol Cell. 2020 Aug 6;79(3):416-424.e5
pubmed: 32645367
Science. 2018 Sep 21;361(6408):1259-1262
pubmed: 30166441
Cell. 2016 Feb 25;164(5):950-61
pubmed: 26875867
Annu Rev Biophys. 2017 May 22;46:505-529
pubmed: 28375731
Mol Ther Nucleic Acids. 2014 Dec 02;3:e214
pubmed: 25462530
Nat Biotechnol. 2020 Apr;38(4):471-481
pubmed: 32042170
Mol Ther. 2016 Mar;24(3):475-87
pubmed: 26750397
Nature. 2015 Jul 23;523(7561):481-5
pubmed: 26098369
J Am Chem Soc. 2019 Apr 24;141(16):6545-6552
pubmed: 30924644
Nucleic Acids Res. 2020 Feb 28;48(4):2026-2034
pubmed: 31943070
Wiley Interdiscip Rev RNA. 2018 Sep;9(5):e1481
pubmed: 29790280
Nat Struct Biol. 2002 Jul;9(7):553-8
pubmed: 12042875
Keio J Med. 2020 Sep 25;69(3):59-65
pubmed: 31723075
Mol Cell. 2019 Dec 19;76(6):938-952.e5
pubmed: 31668930
Mol Cell. 2017 Mar 16;65(6):1109-1121.e3
pubmed: 28306506
Nat Commun. 2019 Feb 4;10(1):560
pubmed: 30718489
Int J Biol Macromol. 2020 Mar 15;147:376-384
pubmed: 31926228
Nature. 2018 Apr 5;556(7699):57-63
pubmed: 29512652
Mol Cell. 2018 Jan 4;69(1):146-157.e3
pubmed: 29304331
Nature. 2019 Dec;576(7785):149-157
pubmed: 31634902
Mol Cell. 2019 Feb 21;73(4):699-713.e6
pubmed: 30554945
Biotechnol Bioeng. 2019 Jun;116(6):1463-1474
pubmed: 30730047
Science. 2020 Jul 17;369(6501):333-337
pubmed: 32675376
Nature. 2017 Oct 12;550(7675):280-284
pubmed: 28976959
Mol Ther. 2016 Mar;24(3):645-54
pubmed: 26782639
Nature. 2017 Feb 9;542(7640):237-241
pubmed: 28005056
Cell. 2016 May 5;165(4):949-62
pubmed: 27114038
Cell. 2014 Feb 27;156(5):935-49
pubmed: 24529477
FEMS Microbiol Lett. 2019 Apr 1;366(8):
pubmed: 31004485
Cell. 2013 Feb 28;152(5):1173-83
pubmed: 23452860
Nat Commun. 2017 Nov 21;8(1):1647
pubmed: 29162801
Mol Cell. 2019 Feb 21;73(4):714-726.e4
pubmed: 30581144
Nat Biotechnol. 2021 Jan;39(1):84-93
pubmed: 32895548
Nat Commun. 2017 Nov 10;8(1):1424
pubmed: 29127284
Mol Cell. 2019 Jun 6;74(5):936-950.e5
pubmed: 30975459
Nucleic Acids Res. 2014 Feb;42(4):2577-90
pubmed: 24270795
BMC Genomics. 2020 Apr 29;21(1):328
pubmed: 32349666
Nucleic Acids Res. 2011 Nov;39(21):9275-82
pubmed: 21813460
RNA Biol. 2019 Apr;16(4):504-517
pubmed: 30109815
Nat Biotechnol. 2017 Apr;35(4):371-376
pubmed: 28191901
Nat Biotechnol. 2007 Sep;25(9):1051-6
pubmed: 17721510
Mol Cell. 2016 Mar 17;61(6):895-902
pubmed: 26990992
Nat Methods. 2013 Nov;10(11):1116-21
pubmed: 24076762
Nat Biomed Eng. 2020 Jan;4(1):111-124
pubmed: 31937939
Nature. 2017 Oct 19;550(7676):407-410
pubmed: 28931002
Trends Biotechnol. 2021 Mar;39(3):262-273
pubmed: 32828556
Genome Biol. 2015 Nov 24;16:257
pubmed: 26596280
Cell. 2014 Oct 23;159(3):647-61
pubmed: 25307932
J Mol Biol. 2017 Jan 20;429(2):177-191
pubmed: 27916599
Science. 2013 Feb 15;339(6121):823-6
pubmed: 23287722
Nat Commun. 2017 Feb 21;8:14500
pubmed: 28220790
Nat Commun. 2020 May 18;11(1):2474
pubmed: 32424114
mSphere. 2020 Jun 24;5(3):
pubmed: 32581075
Nature. 2019 Jul;571(7764):219-225
pubmed: 31189177
Nat Biotechnol. 2020 Oct;38(10):1154-1158
pubmed: 32393822
Mol Cell. 2015 Nov 5;60(3):385-97
pubmed: 26593719
Nat Commun. 2020 Nov 2;11(1):5512
pubmed: 33139742
Nature. 2016 May 11;533(7603):397-401
pubmed: 27193686
Nat Med. 2019 Feb;25(2):249-254
pubmed: 30692695
Science. 2013 Feb 15;339(6121):819-23
pubmed: 23287718
Sci Adv. 2018 Oct 24;4(10):eaau0766
pubmed: 30397647
Sci Adv. 2020 Jul 15;6(29):eabb4054
pubmed: 32832642
Genome Biol. 2019 Feb 5;20(1):15
pubmed: 30717767
Cell. 2013 Sep 12;154(6):1380-9
pubmed: 23992846

Auteurs

Daphne Collias (D)

Department of Chemical & Biomolecular Engineering, North Carolina State University, Raleigh, NC, 27695-7905, USA.

Chase L Beisel (CL)

Department of Chemical & Biomolecular Engineering, North Carolina State University, Raleigh, NC, 27695-7905, USA. chase.beisel@helmholtz-hiri.de.
Helmholtz Institute for RNA-based Infection Research (HIRI)/Helmholtz Centre for Infection Research (HZI), 97080, Würzburg, Germany. chase.beisel@helmholtz-hiri.de.
Medical Faculty, University of Würzburg, 97080, Würzburg, Germany. chase.beisel@helmholtz-hiri.de.

Articles similaires

Genome, Chloroplast Phylogeny Genetic Markers Base Composition High-Throughput Nucleotide Sequencing
Animals Hemiptera Insect Proteins Phylogeny Insecticides
Amaryllidaceae Alkaloids Lycoris NADPH-Ferrihemoprotein Reductase Gene Expression Regulation, Plant Plant Proteins
Drought Resistance Gene Expression Profiling Gene Expression Regulation, Plant Gossypium Multigene Family

Classifications MeSH