Regulation of Chromatin Structure in the Cardiovascular System

Overview

Journal Circ J

Specialty Cardiology & Vascular Diseases

Date 2013 Apr 12

PMID 23575346

Citations 7

Authors

Manuel Rosa-Garrido

Elaheh Karbassi

Emma Monte

Thomas M Vondriska

Affiliations

Soon will be listed here.

Abstract

It has been appreciated for some time that cardiovascular disease involves large-scale transcriptional changes in various cell types. What has become increasingly clear only in the past few years, however, is the role of chromatin remodeling in cardiovascular phenotypes in normal physiology, as well as in development and disease. This review summarizes the state of the chromatin field in terms of distinct mechanisms to regulate chromatin structure in vivo, identifying when these modes of regulation have been demonstrated in cardiovascular tissues. We describe areas in which a better understanding of chromatin structure is leading to new insights into the fundamental biology of cardiovascular disease.

Citing Articles

Combinatorial chromatin dynamics foster accurate cardiopharyngeal fate choices.

Racioppi C, Wiechecki K, Christiaen L Elife. 2019; 8.

PMID: 31746740 PMC: 6952182. DOI: 10.7554/eLife.49921.

The epigenetic landscape related to reactive oxygen species formation in the cardiovascular system.

Kietzmann T, Petry A, Shvetsova A, Gerhold J, Gorlach A Br J Pharmacol. 2017; 174(12):1533-1554.

PMID: 28332701 PMC: 5446579. DOI: 10.1111/bph.13792.

Undiscovered Physiology of Transcript and Protein Networks.

Monte E, Rosa-Garrido M, Vondriska T, Wang J Compr Physiol. 2016; 6(4):1851-1872.

PMID: 27783861 PMC: 10751805. DOI: 10.1002/cphy.c160003.

Relationship of disease-associated gene expression to cardiac phenotype is buffered by genetic diversity and chromatin regulation.

Karbassi E, Monte E, Chapski D, Lopez R, Rosa Garrido M, Kim J Physiol Genomics. 2016; 48(8):601-15.

PMID: 27287924 PMC: 5005461. DOI: 10.1152/physiolgenomics.00035.2016.

Reciprocal Regulation of the Cardiac Epigenome by Chromatin Structural Proteins Hmgb and Ctcf: IMPLICATIONS FOR TRANSCRIPTIONAL REGULATION.

Monte E, Rosa-Garrido M, Karbassi E, Chen H, Lopez R, Rau C J Biol Chem. 2016; 291(30):15428-46.

PMID: 27226577 PMC: 4957031. DOI: 10.1074/jbc.M116.719633.

References

Mizuguchi G, Shen X, Landry J, Wu W, Sen S, Wu C . ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex. Science. 2003; 303(5656):343-8. DOI: 10.1126/science.1090701. View

Huang J, Hsu J, Laurent B . The RSC nucleosome-remodeling complex is required for Cohesin's association with chromosome arms. Mol Cell. 2004; 13(5):739-50. DOI: 10.1016/s1097-2765(04)00103-0. View

Shen Y, Yue F, McCleary D, Ye Z, Edsall L, Kuan S . A map of the cis-regulatory sequences in the mouse genome. Nature. 2012; 488(7409):116-20. PMC: 4041622. DOI: 10.1038/nature11243. View

Warren S, Terada R, Briggs L, Cole-Jeffrey C, Chien W, Seki T . Differential role of Nkx2-5 in activation of the atrial natriuretic factor gene in the developing versus failing heart. Mol Cell Biol. 2011; 31(22):4633-45. PMC: 3209251. DOI: 10.1128/MCB.05940-11. View

Haider S, Cordeddu L, Robinson E, Movassagh M, Siggens L, Vujic A . The landscape of DNA repeat elements in human heart failure. Genome Biol. 2012; 13(10):R90. PMC: 3491418. DOI: 10.1186/gb-2012-13-10-r90. View

Kusch T, Florens L, MacDonald W, Swanson S, Glaser R, Yates 3rd J . Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions. Science. 2004; 306(5704):2084-7. DOI: 10.1126/science.1103455. View

Metes-Kosik N, Luptak I, DiBello P, Handy D, Tang S, Zhi H . Both selenium deficiency and modest selenium supplementation lead to myocardial fibrosis in mice via effects on redox-methylation balance. Mol Nutr Food Res. 2012; 56(12):1812-24. PMC: 3546539. DOI: 10.1002/mnfr.201200386. View

Song H, Hong S, Kim T, Kim D . Deep RNA sequencing reveals novel cardiac transcriptomic signatures for physiological and pathological hypertrophy. PLoS One. 2012; 7(4):e35552. PMC: 3327670. DOI: 10.1371/journal.pone.0035552. View

Xiao R, Moore D . DamIP: using mutant DNA adenine methyltransferase to study DNA-protein interactions in vivo. Curr Protoc Mol Biol. 2011; Chapter 21:Unit21.21. PMC: 3085922. DOI: 10.1002/0471142727.mb2121s94. View

10.

Movassagh M, Choy M, Goddard M, Bennett M, Down T, Foo R . Differential DNA methylation correlates with differential expression of angiogenic factors in human heart failure. PLoS One. 2010; 5(1):e8564. PMC: 2797324. DOI: 10.1371/journal.pone.0008564. View

11.

Boeger H, Griesenbeck J, Strattan J, Kornberg R . Removal of promoter nucleosomes by disassembly rather than sliding in vivo. Mol Cell. 2004; 14(5):667-73. DOI: 10.1016/j.molcel.2004.05.013. View

12.

van Steensel B, Dekker J . Genomics tools for unraveling chromosome architecture. Nat Biotechnol. 2010; 28(10):1089-95. PMC: 3023824. DOI: 10.1038/nbt.1680. View

13.

Kaneda R, Takada S, Yamashita Y, Choi Y, Nonaka-Sarukawa M, Soda M . Genome-wide histone methylation profile for heart failure. Genes Cells. 2008; 14(1):69-77. DOI: 10.1111/j.1365-2443.2008.01252.x. View

14.

Wade P, Gegonne A, Jones P, Ballestar E, Aubry F, Wolffe A . Mi-2 complex couples DNA methylation to chromatin remodelling and histone deacetylation. Nat Genet. 1999; 23(1):62-6. DOI: 10.1038/12664. View

15.

Cabili M, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A . Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev. 2011; 25(18):1915-27. PMC: 3185964. DOI: 10.1101/gad.17446611. View

16.

de Wit E, Greil F, van Steensel B . Genome-wide HP1 binding in Drosophila: developmental plasticity and genomic targeting signals. Genome Res. 2005; 15(9):1265-73. PMC: 1199541. DOI: 10.1101/gr.3198905. View

17.

Koch C, Andrews R, Flicek P, Dillon S, Karaoz U, Clelland G . The landscape of histone modifications across 1% of the human genome in five human cell lines. Genome Res. 2007; 17(6):691-707. PMC: 1891331. DOI: 10.1101/gr.5704207. View

18.

Van Rooij E, Olson E . MicroRNA therapeutics for cardiovascular disease: opportunities and obstacles. Nat Rev Drug Discov. 2012; 11(11):860-72. PMC: 6813819. DOI: 10.1038/nrd3864. View

19.

Paige S, Thomas S, Stoick-Cooper C, Wang H, Maves L, Sandstrom R . A temporal chromatin signature in human embryonic stem cells identifies regulators of cardiac development. Cell. 2012; 151(1):221-32. PMC: 3462257. DOI: 10.1016/j.cell.2012.08.027. View

20.

Johnson R, Richter N, Bogu G, Bhinge A, Teng S, Choo S . A genome-wide screen for genetic variants that modify the recruitment of REST to its target genes. PLoS Genet. 2012; 8(4):e1002624. PMC: 3320604. DOI: 10.1371/journal.pgen.1002624. View