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X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription.

Publication ,  Journal Article
Yildirim, E; Sadreyev, RI; Pinter, SF; Lee, JT
Published in: Nat Struct Mol Biol
December 4, 2011

Dosage compensation in mammals occurs at two levels. In addition to balancing X-chromosome dosage between males and females via X inactivation, mammals also balance dosage of Xs and autosomes. It has been proposed that X-autosome equalization occurs by upregulation of Xa (active X). To investigate mechanism, we perform allele-specific ChIP-seq for chromatin epitopes and analyze RNA-seq data. The hypertranscribed Xa demonstrates enrichment of active chromatin marks relative to autosomes. We derive predictive models for relationships among Pol II occupancy, active mark densities and gene expression, and we suggest that Xa upregulation involves increased transcription initiation and elongation. Enrichment of active marks on Xa does not scale proportionally with transcription output, a disparity explained by nonlinear quantitative dependencies among active histone marks, Pol II occupancy and transcription. Notably, the trend of nonlinear upregulation also occurs on autosomes. Thus, Xa upregulation involves combined increases of active histone marks and Pol II occupancy, without invoking X-specific dependencies between chromatin states and transcription.

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Published In

Nat Struct Mol Biol

DOI

EISSN

1545-9985

Publication Date

December 4, 2011

Volume

19

Issue

1

Start / End Page

56 / 61

Location

United States

Related Subject Headings

  • X Chromosome
  • Transcription, Genetic
  • Transcription Initiation Site
  • Promoter Regions, Genetic
  • Oligonucleotide Array Sequence Analysis
  • Models, Genetic
  • Mice, 129 Strain
  • Mice
  • Methylation
  • Male
 

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Yildirim, E., Sadreyev, R. I., Pinter, S. F., & Lee, J. T. (2011). X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription. Nat Struct Mol Biol, 19(1), 56–61. https://doi.org/10.1038/nsmb.2195
Yildirim, Eda, Ruslan I. Sadreyev, Stefan F. Pinter, and Jeannie T. Lee. “X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription.Nat Struct Mol Biol 19, no. 1 (December 4, 2011): 56–61. https://doi.org/10.1038/nsmb.2195.
Yildirim E, Sadreyev RI, Pinter SF, Lee JT. X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription. Nat Struct Mol Biol. 2011 Dec 4;19(1):56–61.
Yildirim, Eda, et al. “X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription.Nat Struct Mol Biol, vol. 19, no. 1, Dec. 2011, pp. 56–61. Pubmed, doi:10.1038/nsmb.2195.
Yildirim E, Sadreyev RI, Pinter SF, Lee JT. X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription. Nat Struct Mol Biol. 2011 Dec 4;19(1):56–61.

Published In

Nat Struct Mol Biol

DOI

EISSN

1545-9985

Publication Date

December 4, 2011

Volume

19

Issue

1

Start / End Page

56 / 61

Location

United States

Related Subject Headings

  • X Chromosome
  • Transcription, Genetic
  • Transcription Initiation Site
  • Promoter Regions, Genetic
  • Oligonucleotide Array Sequence Analysis
  • Models, Genetic
  • Mice, 129 Strain
  • Mice
  • Methylation
  • Male