Extended Archaeal Histone-Based Chromatin Structure Regulates Global Gene Expression in
RNA-seq
Thermococcus
archaea
chromatin
histone
transcriptome
Journal
Frontiers in microbiology
ISSN: 1664-302X
Titre abrégé: Front Microbiol
Pays: Switzerland
ID NLM: 101548977
Informations de publication
Date de publication:
2021
2021
Historique:
received:
16
03
2021
accepted:
12
04
2021
entrez:
31
5
2021
pubmed:
1
6
2021
medline:
1
6
2021
Statut:
epublish
Résumé
Histone proteins compact and organize DNA resulting in a dynamic chromatin architecture impacting DNA accessibility and ultimately gene expression. Eukaryotic chromatin landscapes are structured through histone protein variants, epigenetic marks, the activities of chromatin-remodeling complexes, and post-translational modification of histone proteins. In most Archaea, histone-based chromatin structure is dominated by the helical polymerization of histone proteins wrapping DNA into a repetitive and closely gyred configuration. The formation of the archaeal-histone chromatin-superhelix is a regulatory force of adaptive gene expression and is likely critical for regulation of gene expression in all histone-encoding Archaea. Single amino acid substitutions in archaeal histones that block formation of tightly packed chromatin structures have profound effects on cellular fitness, but the underlying gene expression changes resultant from an altered chromatin landscape have not been resolved. Using the model organism
Identifiants
pubmed: 34054788
doi: 10.3389/fmicb.2021.681150
pmc: PMC8155482
doi:
Types de publication
Journal Article
Langues
eng
Pagination
681150Informations de copyright
Copyright © 2021 Sanders, Ullah, Gehring, Burkhart, Vickerman, Fernando, Gardner, Ben-Hur and Santangelo.
Déclaration de conflit d'intérêts
AGe and AGa are employed and funded by New England Biolabs, Inc. New England Biolabs is a manufacturer and vendor of molecular biology reagents, including DNA replication and repair enzymes. This affiliation does not affect the authors’ impartiality, objectivity of data generation or its interpretation, adherence to journal standards and policies or availability of data. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Références
Curr Protoc Bioinformatics. 2010 Dec;Chapter 11:Unit 11.7
pubmed: 21154709
PLoS One. 2013;8(1):e49044
pubmed: 23326305
Biochimie. 2015 Nov;118:313-21
pubmed: 26166067
Bioinformatics. 2010 Jan 1;26(1):139-40
pubmed: 19910308
Res Microbiol. 2008 Jun;159(5):390-9
pubmed: 18625304
Nature. 1997 Sep 18;389(6648):251-60
pubmed: 9305837
Annu Rev Genet. 2013;47:539-61
pubmed: 24050175
Environ Microbiol. 2012 Feb;14(2):503-16
pubmed: 22151304
mBio. 2015 Sep 08;6(5):e00649-15
pubmed: 26350964
Nature. 2020 Jul;583(7817):638-643
pubmed: 32555463
Curr Opin Microbiol. 2006 Oct;9(5):520-5
pubmed: 16920388
BMC Genomics. 2014 Aug 16;15:684
pubmed: 25127548
Res Microbiol. 2011 Feb-Mar;162(2):132-43
pubmed: 21144896
J Bacteriol. 2007 Jun;189(12):4510-9
pubmed: 17449623
BMC Genomics. 2013 Jun 10;14:391
pubmed: 23758892
J Mol Biol. 2000 Mar 17;297(1):39-47
pubmed: 10704305
J Mol Biol. 2021 Mar 19;433(6):166791
pubmed: 33383035
J Mol Biol. 2019 Sep 20;431(20):4103-4115
pubmed: 31082442
J Bacteriol. 2009 Nov;191(22):7102-8
pubmed: 19749050
Nature. 2013 Nov 28;503(7477):544-547
pubmed: 24185008
Nat Rev Microbiol. 2015 Jun;13(6):333-41
pubmed: 25944489
Elife. 2019 Nov 06;8:
pubmed: 31692448
FEBS J. 2018 Sep;285(17):3168-3174
pubmed: 29729078
Nat Biotechnol. 2015 Mar;33(3):290-5
pubmed: 25690850
Genome Biol. 2012 Jan 31;13(1):R4
pubmed: 22293517
Genome Res. 2009 Sep;19(9):1639-45
pubmed: 19541911
Nat Microbiol. 2020 Apr;5(4):545-553
pubmed: 32094586
Extremophiles. 2013 May;17(3):453-61
pubmed: 23525944
Adv Appl Microbiol. 2001;50:75-99
pubmed: 11677690
Science. 2017 Aug 11;357(6351):609-612
pubmed: 28798133
Elife. 2021 Mar 02;10:
pubmed: 33650488
Genome Res. 2005 Mar;15(3):352-63
pubmed: 15710748
Proc Natl Acad Sci U S A. 2010 Apr 13;107(15):6777-81
pubmed: 20351259
Nat Methods. 2012 Mar 04;9(4):357-9
pubmed: 22388286
Proc Natl Acad Sci U S A. 2020 Dec 29;117(52):33384-33395
pubmed: 33288720
J Gen Appl Microbiol. 2017 Mar 17;63(1):28-35
pubmed: 27990001
Mol Microbiol. 2019 Mar;111(3):784-797
pubmed: 30592095
Arch Microbiol. 2000 Mar;173(3):165-9
pubmed: 10763747
Microbiology (Reading). 2019 Nov;165(11):1166-1168
pubmed: 31436525
J Bacteriol. 2012 Dec;194(24):6864-74
pubmed: 23065975
PLoS Genet. 2018 Sep 13;14(9):e1007582
pubmed: 30212449
J Virol. 2008 May;82(10):4874-83
pubmed: 18337566
J Proteomics. 2021 Feb 10;232:104044
pubmed: 33161166
Nucleic Acids Res. 2021 May 7;49(8):4338-4349
pubmed: 33341892
PLoS Genet. 2017 Jun 19;13(6):e1006847
pubmed: 28628615
J Bacteriol. 2011 Oct;193(19):5412-9
pubmed: 21784945
Extremophiles. 2013 Jan;17(1):153-60
pubmed: 23224520
J Mol Biol. 2000 Oct 13;303(1):35-47
pubmed: 11021968
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
Nature. 2017 Jan 19;541(7637):353-358
pubmed: 28077874
Bio Protoc. 2017 Nov 20;7(22):
pubmed: 29276725