Differences in RNA polymerase II complexes and their interactions with surrounding chromatin on human and cytomegalovirus genomes

Benjamin M Spector; Mrutyunjaya Parida; Ming Li; Christopher B Ball; Jeffery L Meier; Donal S Luse; David H Price

doi:10.1038/s41467-022-29739-x

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Differences in RNA polymerase II complexes and their interactions with surrounding chromatin on human and cytomegalovirus genomes

Journal article

Open access

Peer reviewed

Differences in RNA polymerase II complexes and their interactions with surrounding chromatin on human and cytomegalovirus genomes

Benjamin M Spector, Mrutyunjaya Parida, Ming Li, Christopher B Ball, Jeffery L Meier, Donal S Luse and David H Price

Nature communications, Vol.13(1), pp.2006-2006

04/14/2022

DOI: 10.1038/s41467-022-29739-x

PMCID: PMC9010409

PMID: 35422111

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https://doi.org/10.1038/s41467-022-29739-xView

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Abstract

Interactions of the RNA polymerase II (Pol II) preinitiation complex (PIC) and paused early elongation complexes with the first downstream (+1) nucleosome are thought to be functionally important. However, current methods are limited for investigating these relationships, both for cellular chromatin and the human cytomegalovirus (HCMV) genome. Digestion with human DNA fragmentation factor (DFF) before immunoprecipitation (DFF-ChIP) precisely revealed both similarities and major differences in PICs driven by TBP on the host genome in comparison with PICs driven by TBP or the viral-specific, late initiation factor UL87 on the viral genome. Host PICs and paused Pol II complexes are frequently found in contact with the +1 nucleosome and paused Pol II can also be found in a complex involved in the initial invasion of the +1 nucleosome. In contrast, viral transcription complexes have very limited nucleosomal interactions, reflecting a relative lack of chromatinization of transcriptionally active regions of HCMV genomes.

Chromatin - genetics

Cytomegalovirus - genetics

Cytomegalovirus - metabolism

Genome, Human

Humans

Nucleosomes - genetics

Promoter Regions, Genetic

RNA Polymerase II - genetics

RNA Polymerase II - metabolism

Transcription, Genetic

Details

Title: Subtitle: Differences in RNA polymerase II complexes and their interactions with surrounding chromatin on human and cytomegalovirus genomes
Creators: Benjamin M Spector - University of Iowa
Mrutyunjaya Parida - University of Iowa
Ming Li - Veterans Health Administration
Christopher B Ball - University of Iowa
Jeffery L Meier - University of Iowa
Donal S Luse - Cleveland Clinic
David H Price - University of Iowa
Resource Type: Journal article
Publication Details: Nature communications, Vol.13(1), pp.2006-2006
DOI: 10.1038/s41467-022-29739-x
PMID: 35422111
PMCID: PMC9010409
NLM abbreviation: Nat Commun
ISSN: 2041-1723
eISSN: 2041-1723
Grant note: R01 GM121428 / NIGMS NIH HHS R35 GM126908 / NIGMS NIH HHS I01 BX004434 / BLRD VA
Language: English
Date published: 04/14/2022
Academic Unit: Infectious Diseases; Epidemiology; Pathology; Biochemistry and Molecular Biology; Internal Medicine
Record Identifier: 9984288721102771

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