Dimeric G-quadruplex motifs-induced NFRs determine strong replication origins in vertebrates.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
10 08 2023
10 08 2023
Historique:
received:
27
03
2023
accepted:
28
07
2023
medline:
14
8
2023
pubmed:
11
8
2023
entrez:
10
8
2023
Statut:
epublish
Résumé
Replication of vertebrate genomes is tightly regulated to ensure accurate duplication, but our understanding of the interplay between genetic and epigenetic factors in this regulation remains incomplete. Here, we investigated the involvement of three elements enriched at gene promoters and replication origins: guanine-rich motifs potentially forming G-quadruplexes (pG4s), nucleosome-free regions (NFRs), and the histone variant H2A.Z, in the firing of origins of replication in vertebrates. We show that two pG4s on the same DNA strand (dimeric pG4s) are sufficient to induce the assembly of an efficient minimal replication origin without inducing transcription in avian DT40 cells. Dimeric pG4s in replication origins are associated with formation of an NFR next to precisely-positioned nucleosomes enriched in H2A.Z on this minimal origin and genome-wide. Thus, our data suggest that dimeric pG4s are important for the organization and duplication of vertebrate genomes. It supports the hypothesis that a nucleosome close to an NFR is a shared signal for the formation of replication origins in eukaryotes.
Identifiants
pubmed: 37563125
doi: 10.1038/s41467-023-40441-4
pii: 10.1038/s41467-023-40441-4
pmc: PMC10415359
doi:
Substances chimiques
Nucleosomes
0
Histones
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
4843Informations de copyright
© 2023. Springer Nature Limited.
Références
Genome Res. 2015 Dec;25(12):1873-85
pubmed: 26560631
EMBO J. 2013 Oct 2;32(19):2631-44
pubmed: 23995398
Nat Rev Mol Cell Biol. 2019 Dec;20(12):721-737
pubmed: 31477886
Nat Struct Mol Biol. 2012 Aug;19(8):837-44
pubmed: 22751019
Nucleic Acids Res. 2017 Jan 4;45(D1):D51-D55
pubmed: 27899657
PLoS Biol. 2008 Oct 7;6(10):e245
pubmed: 18842067
Proc Natl Acad Sci U S A. 2008 Oct 14;105(41):15837-42
pubmed: 18838675
Genome Res. 2015 Nov;25(11):1757-70
pubmed: 26314830
Nat Genet. 2016 Oct;48(10):1267-72
pubmed: 27618450
PLoS Genet. 2009 Apr;5(4):e1000446
pubmed: 19360092
Nucleic Acids Res. 2019 Jun 4;47(10):5114-5125
pubmed: 30916335
Nucleic Acids Res. 2019 Jun 4;47(10):5155-5169
pubmed: 30926993
Cell Rep. 2020 Sep 22;32(12):108178
pubmed: 32966791
Nucleic Acids Res. 2022 Jul 22;50(13):7436-7450
pubmed: 35801867
Nucleic Acids Res. 2022 Jan 7;50(D1):D988-D995
pubmed: 34791404
J Biol Chem. 2013 Oct 18;288(42):30161-30171
pubmed: 24003239
PLoS Genet. 2014 May 01;10(5):e1004282
pubmed: 24785686
Nat Commun. 2022 May 3;13(1):2402
pubmed: 35504890
EMBO J. 2014 Apr 1;33(7):732-46
pubmed: 24521668
J Cell Biol. 2015 Jan 19;208(2):147-60
pubmed: 25601401
Genes Dev. 2010 Apr 15;24(8):748-53
pubmed: 20351051
Nat Methods. 2013 Dec;10(12):1213-8
pubmed: 24097267
Genome Res. 2002 Jun;12(6):996-1006
pubmed: 12045153
J Mol Biol. 2021 Mar 19;433(6):166659
pubmed: 33010306
Mol Biol Cell. 2017 Nov 1;28(22):2998-3012
pubmed: 28877985
EMBO J. 2020 Nov 2;39(21):e99520
pubmed: 32935369
Nat Commun. 2020 Sep 21;11(1):4826
pubmed: 32958757
Nat Commun. 2019 Jul 22;10(1):3274
pubmed: 31332171
Cell Cycle. 2012 Feb 15;11(4):658-67
pubmed: 22373526
Nat Commun. 2022 Aug 23;13(1):4947
pubmed: 35999198
Nucleic Acids Res. 2020 Nov 18;48(20):11706-11720
pubmed: 33045726
Nat Commun. 2021 Jan 4;12(1):33
pubmed: 33397927
BMC Biotechnol. 2001;1:7
pubmed: 11591226
Bioinformatics. 2010 Mar 15;26(6):841-2
pubmed: 20110278
PLoS Biol. 2012;10(3):e1001277
pubmed: 22412349
Nat Commun. 2019 Jan 24;10(1):416
pubmed: 30679435
Nature. 2020 Jan;577(7791):576-581
pubmed: 31875854