The challenge that we intend to address in this proposal is the extent to which epigenetic mechanisms contribute to the etiology of asthma in humans. Several lines of evidence support a role for epigenetics in asthma. Asthma, like epigenetic mechanisms, has a non-Mendelian and parent-of-origin pattern of inheritance, is influenced by the environment, and is modified by in utero exposures. Furthermore, the transcription factors that are involved in the development of mature T cells (Th1, Th2, and Tregs), that are critical to the Th2 immune phenotype in asthma, are regulated by epigenetic mechanisms. Although the difference in asthma incidence in developed versus developing countries has previously been attributed to infectious exposures, the mechanisms accounting for these differences have never been fully explained. We have recently demonstrated that in utero dietary supplementation with methyl donors regulates locus-specific DNA methylation and predisposes mice to allergic airway disease by skewing towards a Th2 phenotype. Based on these observations, we hypothesize that epigenetic mechanisms play a fundamental role in the etiology of asthma by modulating the methylation state and transcriptional activity of critical genes that affect immune maturation and lead to the development of asthma. In the proposed project, we intend to use a novel approach to determine the extent to which epigenetic mechanisms contribute to the etiology of asthma in humans (see Figure). We will measure global methylation patterns in a panel of human sibling pairs discordant for asthma (Aim 1), and in airway epithelia and peripheral blood mononuclear cells (PBMCs) obtained from patients with asthma and controls (Aim 2). We will combine these global methylation marks with our knowledge of global methylation patterns in mouse lungs with allergic airway disease, and then confirm these methylation patterns with direct sequencing (Aim 3). We then propose to validate and further characterize these findings in two independent study populations. Using the original discordant sibling pair sample and their parents, we will test whether these targets are imprinted (Aim 4). Using a large, independent sample of asthmatic cases and controls for which extensive environmental and genetic data are available, we will test whether these targets replicate and whether they are influenced by either environmental or genetic factors (Aim 5). Identifying unique epigenetic marks and linking them to other etiologic factors, such as environmental exposures and genetic variants, will transform our understanding of the etiology and pathogenesis of asthma, and lead to more effective approaches to disease prevention and treatment. Derivation Confirmation Validation Aim 1: Discordant Sibling Pairs Aim 2: Airway Epithelia and PBMCs Murine Lung DNA Methylation Aim 3: Confirm Epigenetic Targets Aim 4: Imprinting Aim 5: Case Control

Public Health Relevance

Asthma is a complex, heritable disease affecting more than 11.2% of the U.S. population;~9 million children and ~23 million adults. Despite major investments that have been made in asthma research over the past two decades, the disease remains a major public health problem that paradoxically is increasing in prevalence, incidence, and severity. At present, both environmental exposures and genetic variants fall far short in explaining the etiology of asthma. Moreover, although many environmental and genetic factors place individuals at increased risk of developing disease, we currently lack a biological explanation for how these etiological factors interact. While epigenetic mechanisms appear to serve as a critical biological switch between genetic vulnerability and environmental stress, these mechanisms have not yet been studied in humans with asthma. The overarching goal of this proposal is the extent to which epigenetic mechanisms contribute to the etiology of asthma in humans. We believe a better understanding of the etiology and pathogenesis of asthma will transform our conceptual understanding of this disease, and lead to more effective strategies for disease prevention and treatment.

Agency
National Institute of Health (NIH)
Institute
National Heart, Lung, and Blood Institute (NHLBI)
Type
Research Project (R01)
Project #
7R01HL101251-03
Application #
8097493
Study Section
Special Emphasis Panel (ZRG1-GGG-M (53))
Program Officer
Gan, Weiniu
Project Start
2009-09-01
Project End
2014-06-30
Budget Start
2011-07-01
Budget End
2012-06-30
Support Year
3
Fiscal Year
2011
Total Cost
$628,967
Indirect Cost
Name
University of Colorado Denver
Department
Internal Medicine/Medicine
Type
Schools of Medicine
DUNS #
041096314
City
Aurora
State
CO
Country
United States
Zip Code
80045
Yang, Ivana V; Richards, Adam; Davidson, Elizabeth J et al. (2017) The Nasal Methylome: A Key to Understanding Allergic Asthma. Am J Respir Crit Care Med 195:829-831
Yang, Ivana V; Lozupone, Catherine A; Schwartz, David A (2017) The environment, epigenome, and asthma. J Allergy Clin Immunol 140:14-23
Breton, Carrie V; Marsit, Carmen J; Faustman, Elaine et al. (2017) Small-Magnitude Effect Sizes in Epigenetic End Points are Important in Children's Environmental Health Studies: The Children's Environmental Health and Disease Prevention Research Center's Epigenetics Working Group. Environ Health Perspect 125:511-526
Liang, Liming; Willis-Owen, Saffron A G; Laprise, Catherine et al. (2015) An epigenome-wide association study of total serum immunoglobulin E concentration. Nature 520:670-674
Yang, Ivana V; Pedersen, Brent S; Liu, Andrew et al. (2015) DNA methylation and childhood asthma in the inner city. J Allergy Clin Immunol 136:69-80
Eyring, Kenneth R; Pedersen, Brent S; Yang, Ivana V et al. (2015) In Utero Cigarette Smoke Affects Allergic Airway Disease But Does Not Alter the Lung Methylome. PLoS One 10:e0144087
Liang, Liming; Cookson, William O C (2014) Grasping nettles: cellular heterogeneity and other confounders in epigenome-wide association studies. Hum Mol Genet 23:R83-8
Jing, Jian; Yang, Ivana V; Hui, Lucy et al. (2013) Role of macrophage receptor with collagenous structure in innate immune tolerance. J Immunol 190:6360-7
Pedersen, Brent S; Schwartz, David A; Yang, Ivana V et al. (2012) Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values. Bioinformatics 28:2986-8
Yang, Ivana V; Schwartz, David A (2012) Epigenetic mechanisms and the development of asthma. J Allergy Clin Immunol 130:1243-55

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