The specific activation (and repression) of the erythroid transcriptome is the critical feature of erythropoiesis. While a great deal is known about the genetic and epigenetic control of the globin loci, much less is known about the regulation of other erythroid genes. The goal of this project is to integrate our knowledge about epigenetic changes with RNA analysis to test the hypothesis that epigenetic changes are responsible for changes in gene expression in differentiating hematopoietic cells. Our previous studies focused on point mutations that identified critical regulatory elements in specific genes (Laflamme K, Owen AN, Devlin EE, Yang MQ, Wong C, Steiner LA, Garrett LJ, Elnitski L, Gallagher PG, Bodine DM. Functional analysis of a novel cis-acting regulatory region within the human ankyrin gene (ANK-1) promoter. Mol Cell Biol. 30: 3493-502, 2010;Yang MQ, Laflamme K, Gotea V, Joiner CH, Seidel NE, Wong C, Petrykowska HM, Lichtenberg J, Lee S, Welch L, Gallagher PG, Bodine DM, Elnitski L. Genome-wide detection of a TFIID localization element from an initial human disease mutation. Nucleic Acids Res. 39 (6): 2175-87, 2011;and Gallagher PG, Steiner LA, Liem RI, Owen AN, Cline AP, Seidel NE, Garrett LJ, Bodine DM. Mutation of a barrier insulator in the human ankyrin-1 gene is associated with hereditary spherocytosis. J Clin Invest. 120 (12): 4453-65, 2010). We recently demonstrated that a concert of local epigenetic changes coupled with long range interactions were responsible for activation of the ANK1 gene in erythroid cells (Yocum AO, Steiner LA, Seidel NE, Cline AP, Rout ED, Lin JY, Wong C, Garrett LJ, Gallagher PG, Bodine DM. A Tissue Specific Chromatin Loop Activates the Erythroid Ankyrin-1 Promoter. Blood. 120:3586-93, 2012). We are now moving on to genome-wide analyses. We have completed RNA-Seq analyses of erythroblasts, megakaryocytes and MEP. Our findings include the identification of over 600 novel long non-coding RNAs, many of which are expressed specifically in one of the three cell types. We plan to extend these analyses by correlating the changes in gene expression we observe with the changes in the epigenetic profile of the genome that we are developing in a different project. This will allow for the first time direct comparisons of gene expression and epigenetic signatures in primary cells.

Project Start
Project End
Budget Start
Budget End
Support Year
7
Fiscal Year
2013
Total Cost
$763,887
Indirect Cost
Name
National Human Genome Research Institute
Department
Type
DUNS #
City
State
Country
Zip Code
Vlachos, Adrianna; Osorio, Diana S; Atsidaftos, Evangelia et al. (2018) Increased Prevalence of Congenital Heart Disease in Children With Diamond Blackfan Anemia Suggests Unrecognized Diamond Blackfan Anemia as a Cause of Congenital Heart Disease in the General Population: A Report of the Diamond Blackfan Anemia Registry. Circ Genom Precis Med 11:e002044
Farrar, Jason E; Neuberg, Donna; Triche Jr, Timothy et al. (2017) Response: Making ""perfect"" the enemy of good. Blood 130:1168-1169
O'Brien, Kelly A; Farrar, Jason E; Vlachos, Adrianna et al. (2017) Molecular convergence in ex vivo models of Diamond-Blackfan anemia. Blood 129:3111-3120
Lichtenberg, Jens; Heuston, Elisabeth F; Mishra, Tejaswini et al. (2016) SBR-Blood: systems biology repository for hematopoietic cells. Nucleic Acids Res 44:D925-31
Chu, Haiyan; McKenna, Mary M; Krump, Nathan A et al. (2016) Reversible binding of hemoglobin to band 3 constitutes the molecular switch that mediates O2 regulation of erythrocyte properties. Blood 128:2708-2716
Psaila, Bethan; Barkas, Nikolaos; Iskander, Deena et al. (2016) Single-cell profiling of human megakaryocyte-erythroid progenitors identifies distinct megakaryocyte and erythroid differentiation pathways. Genome Biol 17:83
Lee, Minnkyong; Beggs, Sarah M; Gildea, Derek et al. (2015) Necdin is a breast cancer metastasis suppressor that regulates the transcription of c-Myc. Oncotarget 6:31557-68
Glait-Santar, Chen; Desmond, Ronan; Feng, Xingmin et al. (2015) Functional Niche Competition Between Normal Hematopoietic Stem and Progenitor Cells and Myeloid Leukemia Cells. Stem Cells 33:3635-42
Meir, Michal; Galanty, Yaron; Kashani, Lior et al. (2015) The COP9 signalosome is vital for timely repair of DNA double-strand breaks. Nucleic Acids Res 43:4517-30
Blobel, Gerd A; Bodine, David; Brand, Marjorie et al. (2015) An international effort to cure a global health problem: A report on the 19th Hemoglobin Switching Conference. Exp Hematol 43:821-37

Showing the most recent 10 out of 24 publications