In 27 years, ?Genetic Linkage with Lupus? (AI024717) has contributed >300 publications to genetics and other phenomena of Systemic Lupus Erythematosus (SLE) and related disorders. There are 53 published SLE risk loci being intensively studied by a small community of dedicated scholars and another ~70 SLE risk loci to be published soon. SLE cannot be fully understood or therapies and preventions designed using these insights until the mechanisms are known explaining why these genetic associations exist. Since regulatory regions dominate as SLE risk loci, we reasoned that there could be shared relationships among SLE risk loci with individual gene regulatory proteins (GRPs) encoded not only by the human host but also by Epstein-Barr virus, the best candidate for SLE etiology. If so, then mechanistic studies would be compellingly important. We found a shared set of about 23 mostly known inflammatory process gene regulatory proteins (GRPs) binding to DNA sequences in transformed B cell lines at as many as half (26 of 53) of the SLE risk loci with effect magnitudes substantially larger than any individual genetic association (4
In Aim 1 we propose to concentrate AI24717- 28 to -32A1 on characterizing models of the shared set of GRPs by systems biology approaches and new technology applications including, the generation of credible sets at select SLE risk loci, the measurement of the ratio of allele specific DNA sequences bound by selected GRPs, GRP DNA binding motifs, addition of other regulatory molecules such as microRNAs and long-noncoding RNAs, and incorporation of newly discovered SLE risk loci in an effort to improve on the present model of GRP association with SLE loci.
In Aim 2 we will experimentally establish the structure of the regulatory complex and relate this to allelic differences in SLE risk gene expression at specific loci. We will apply standard methods of electrophoretic mobility shift assays (EMSAs), DNA affinity precipitation assays (DAPAs), Western blot, chromatin immunoprecipitation (ChIP-Seq & ChIP-qPCR), and mass spectrometry. We will generate chromatin manipulated cell lines to establish structure and allelic differences and the role of EBV. We will identify the molecular interactions required to form the postulated shared regulatory complex, thereby providing inviting targets for therapeutic innovation. If successful, this project will define a regulatory complex shared among multiple SLE risk loci and provide the molecular details and insights needed to alter this structure and its activity with therapeutic intervention.
There are more than 50 genes that convincingly contribute to the risk of systemic lupus erythematosus (SLE), most of which are located in regions of the human genome that control gene expression. We have found a set of inflammatory gene regulatory proteins that bind about half of the published SLE risk genes. This project will characterize the relationships between SLE disease risk genes and the binding of gene regulatory proteins; we will evaluate how the gene regulatory proteins interact with the specific DNA differences important in SLE to change gene expression in ways that alter disease risk for SLE.
|Harley, John B; Chen, Xiaoting; Pujato, Mario et al. (2018) Transcription factors operate across disease loci, with EBNA2 implicated in autoimmunity. Nat Genet 50:699-707|
|Patel, Zubin; Lu, Xiaoming; Miller, Daniel et al. (2018) A plausibly causal functional lupus-associated risk variant in the STAT1-STAT4 locus. Hum Mol Genet :|
|Kheir, Joseph M; Guthridge, Carla J; Johnston, Jonathon R et al. (2018) Unique clinical characteristics, autoantibodies and medication use in Native American patients with systemic lupus erythematosus. Lupus Sci Med 5:e000247|
|Young, K A; Munroe, M E; Harley, J B et al. (2018) Less than 7 hours of sleep per night is associated with transitioning to systemic lupus erythematosus. Lupus 27:1524-1531|
|Sherrill, Joseph D; Kc, Kiran; Wang, Xinjian et al. (2018) Whole-exome sequencing uncovers oxidoreductases DHTKD1 and OGDHL as linkers between mitochondrial dysfunction and eosinophilic esophagitis. JCI Insight 3:|
|Aberle, Teresa; Bourn, Rebecka L; Chen, Hua et al. (2017) Use of SLICC criteria in a large, diverse lupus registry enables SLE classification of a subset of ACR-designated subjects with incomplete lupus. Lupus Sci Med 4:e000176|
|Munroe, Melissa E; Young, Kendra A; Kamen, Diane L et al. (2017) Discerning Risk of Disease Transition in Relatives of Systemic Lupus Erythematosus Patients Utilizing Soluble Mediators and Clinical Features. Arthritis Rheumatol 69:630-642|
|Munroe, Melissa E; Pezant, Nathan; Brown, Michael A et al. (2017) Association of IFIH1 and pro-inflammatory mediators: Potential new clues in SLE-associated pathogenesis. PLoS One 12:e0171193|
|Zhao, Jian; Ma, Jianyang; Deng, Yun et al. (2017) A missense variant in NCF1 is associated with susceptibility to multiple autoimmune diseases. Nat Genet 49:433-437|
|Aberle, Teresa; Bourn, Rebecka L; Munroe, Melissa E et al. (2017) Clinical and Serologic Features in Patients With Incomplete Lupus Classification Versus Systemic Lupus Erythematosus Patients and Controls. Arthritis Care Res (Hoboken) 69:1780-1788|
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