A randomized multiplex CRISPRi-Seq approach for the identification of critical combinations of genes.
Journal
bioRxiv : the preprint server for biology
Titre abrégé: bioRxiv
Pays: United States
ID NLM: 101680187
Informations de publication
Date de publication:
08 Nov 2023
08 Nov 2023
Historique:
pubmed:
23
3
2023
medline:
23
3
2023
entrez:
22
3
2023
Statut:
epublish
Résumé
Identifying virulence-critical genes from pathogens is often limited by functional redundancy. To rapidly interrogate the contributions of combinations of genes to a biological outcome, we have developed a multiplex, randomized CRISPR interference sequencing (MuRCiS) approach. At its center is a new method for the randomized self-assembly of CRISPR arrays from synthetic oligonucleotide pairs. When paired with PacBio long-read sequencing, MuRCiS allowed for near-comprehensive interrogation of all pairwise combinations of a group of 44
Identifiants
pubmed: 36945652
doi: 10.1101/2023.02.03.527066
pmc: PMC10028747
pii:
doi:
Types de publication
Preprint
Langues
eng
Subventions
Organisme : Intramural NIH HHS
ID : ZIA HD008893
Pays : United States
Références
Nat Genet. 2016 Feb;48(2):167-75
pubmed: 26752266
Proc Natl Acad Sci U S A. 2019 Feb 5;116(6):2265-2273
pubmed: 30659146
Curr Opin Microbiol. 2009 Feb;12(1):67-73
pubmed: 19157961
Front Cell Infect Microbiol. 2017 Nov 15;7:467
pubmed: 29188194
Nat Protoc. 2008;3(6):1101-8
pubmed: 18546601
J Clin Microbiol. 1979 Oct;10(4):437-41
pubmed: 393713
Nat Microbiol. 2020 Apr;5(4):599-609
pubmed: 31988381
Proc Natl Acad Sci U S A. 2017 Nov 28;114(48):E10446-E10454
pubmed: 29133401
Commun Biol. 2021 Feb 4;4(1):157
pubmed: 33542442
Proc Natl Acad Sci U S A. 2015 Sep 15;112(37):E5208-17
pubmed: 26330609
Cell. 2016 Jun 2;165(6):1493-1506
pubmed: 27238023
J Bacteriol. 2008 Apr;190(8):3026-35
pubmed: 18281405
Cell Mol Life Sci. 2016 Nov;73(22):4315-4325
pubmed: 27178736
J Mol Biol. 2018 Jul 20;430(15):2237-2243
pubmed: 29258817
Curr Res Microb Sci. 2022 Jan 08;3:100105
pubmed: 35059677
Cell Host Microbe. 2018 Sep 12;24(3):429-438.e6
pubmed: 30212651
Sci Rep. 2018 Nov 30;8(1):17499
pubmed: 30504793
Virulence. 2021 Dec;12(1):1122-1144
pubmed: 33843434
Infect Immun. 1992 Jan;60(1):296-301
pubmed: 1729191
mBio. 2011 Jan 11;2(1):e00316-10
pubmed: 21249170
Proc Natl Acad Sci U S A. 2012 Sep 25;109(39):E2579-86
pubmed: 22949671
Microbiol Mol Biol Rev. 2020 Apr 1;84(2):
pubmed: 32238445
Nat Ecol Evol. 2018 Jun;2(6):936-943
pubmed: 29662222
Mol Microbiol. 2000 Nov;38(4):719-36
pubmed: 11115108
Cell. 2018 Mar 8;172(6):1239-1259
pubmed: 29522745
Methods Mol Biol. 2022;2523:23-41
pubmed: 35759189
Nat Commun. 2018 May 15;9(1):1911
pubmed: 29765029
Cell. 2013 Feb 28;152(5):1173-83
pubmed: 23452860
Nat Commun. 2022 Aug 25;13(1):4984
pubmed: 36008396
Microbiol Mol Biol Rev. 2013 Mar;77(1):1-52
pubmed: 23471616
N Engl J Med. 1977 Dec 1;297(22):1189-97
pubmed: 335244
Methods Mol Biol. 2015;1311:349-62
pubmed: 25981485
ACS Synth Biol. 2019 Apr 19;8(4):906-910
pubmed: 30939239
Nat Microbiol. 2019 Feb;4(2):244-250
pubmed: 30617347
N Engl J Med. 1977 Dec 1;297(22):1197-203
pubmed: 335245
Nat Commun. 2019 Jul 3;10(1):2948
pubmed: 31270316
Proc Natl Acad Sci U S A. 2019 Sep 3;116(36):17775-17785
pubmed: 31431530
J Mol Biol. 2001 Jan 19;305(3):567-80
pubmed: 11152613
J Bacteriol. 2006 Dec;188(24):8327-34
pubmed: 17028282
FEMS Microbiol Lett. 2019 Apr 1;366(8):
pubmed: 31087001
Science. 2012 Aug 17;337(6096):816-21
pubmed: 22745249
Nat Commun. 2020 Mar 9;11(1):1281
pubmed: 32152313
Nature. 1997 Jul 10;388(6638):167-71
pubmed: 9217155
Biotechnol J. 2018 Sep;13(9):e1700582
pubmed: 29663663
Annu Rev Pathol. 2020 Jan 24;15:439-466
pubmed: 31657966
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
ACS Synth Biol. 2015 Sep 18;4(9):987-1000
pubmed: 25822415
Proc Natl Acad Sci U S A. 2011 Sep 6;108(36):14733-40
pubmed: 21873199