Genome-wide association studies of hematologic phenotypes: a window into human hematopoiesis.

The study of human hematopoiesis is often limited by the inability to manipulate this process in vivo and differences that exist between humans and commonly employed model organisms. However, human genetics provides a way to gain insight into natural variation in a variety of hematologic phenotypes and creates an opportunity to better understand hematopoiesis. In this review, we discuss how genome-wide association studies are revealing common genetic variation that is associated with hematologic traits and diseases. We discuss how the resulting insight from these studies promises to increase our understanding of human hematopoiesis and outline the challenges that lay ahead in this field.

[1]  P. Gregersen,et al.  GWAS implicates a role for quantitative immune traits and threshold effects in risk for human autoimmune disorders. , 2012, Current opinion in immunology.

[2]  V. Sankaran,et al.  Reversing the hemoglobin switch. , 2010, The New England journal of medicine.

[3]  A. F. Cunha,et al.  An inherited mutation leading to production of only the short isoform of GATA-1 is associated with impaired erythropoiesis , 2006, Nature Genetics.

[4]  E. Campo,et al.  Common variants at 2q37.3, 8q24.21, 15q21.3, and 16q24.1 influence chronic lymphocytic leukemia risk , 2010, Nature Genetics.

[5]  Boris Lenhard,et al.  Dynamic long‐range chromatin interactions control Myb proto‐oncogene transcription during erythroid development , 2012, The EMBO journal.

[6]  Y. Kamatani,et al.  Common variations in PSMD3-CSF3 and PLCB4 are associated with neutrophil count. , 2010, Human molecular genetics.

[7]  Y. Kamatani,et al.  Common genetic factors for hematological traits in Humans , 2012, Journal of Human Genetics.

[8]  N. Fox,et al.  Blocking the alpha 4 integrin-paxillin interaction selectively impairs mononuclear leukocyte recruitment to an inflammatory site. , 2006, The Journal of clinical investigation.

[9]  Rehan Qayyum,et al.  A Meta-Analysis and Genome-Wide Association Study of Platelet Count and Mean Platelet Volume in African Americans , 2012, PLoS genetics.

[10]  Christopher G. Chute,et al.  A Genome-Wide Association Study of Red Blood Cell Traits Using the Electronic Medical Record , 2010, PloS one.

[11]  S. Raychaudhuri Mapping Rare and Common Causal Alleles for Complex Human Diseases , 2011, Cell.

[12]  SV Subramanian,et al.  Anaemia in low-income and middle-income countries , 2011, The Lancet.

[13]  Nicole Soranzo,et al.  Quantitative trait loci for CD4:CD8 lymphocyte ratio are associated with risk of type 1 diabetes and HIV-1 immune control. , 2010, American journal of human genetics.

[14]  Serena Sanna,et al.  Amelioration of Sardinian beta0 thalassemia by genetic modifiers. , 2009, Blood.

[15]  Chris Fisher,et al.  A functional element necessary for fetal hemoglobin silencing. , 2011, The New England journal of medicine.

[16]  Yusuke Nakamura,et al.  Identification of Nine Novel Loci Associated with White Blood Cell Subtypes in a Japanese Population , 2011, PLoS genetics.

[17]  E. Papaemmanuil,et al.  Loci on 7p12.2, 10q21.2 and 14q11.2 are associated with risk of childhood acute lymphoblastic leukemia , 2009, Nature Genetics.

[18]  D. Postma,et al.  Sequence variants affecting eosinophil numbers associate with asthma and myocardial infarction , 2009, Nature Genetics.

[19]  Yusuke Nakamura,et al.  Genome-Wide Association Study of White Blood Cell Count in 16,388 African Americans: the Continental Origins and Genetic Epidemiology Network (COGENT) , 2011, PLoS genetics.

[20]  Christian Gieger,et al.  A genome-wide association study identifies three loci associated with mean platelet volume. , 2009, American journal of human genetics.

[21]  James Allan,et al.  Variation in CDKN2A at 9p21.3 influences childhood acute lymphoblastic leukemia risk , 2010, Nature Genetics.

[22]  Joel N Hirschhorn,et al.  Fine-mapping at three loci known to affect fetal hemoglobin levels explains additional genetic variation , 2010, Nature Genetics.

[23]  Guy Pratt,et al.  A genome-wide association study identifies six susceptibility loci for chronic lymphocytic leukemia , 2008, Nature Genetics.

[24]  C. Chute,et al.  Genetic Loci implicated in erythroid differentiation and cell cycle regulation are associated with red blood cell traits. , 2012, Mayo Clinic proceedings.

[25]  M. Daly,et al.  Genetic Mapping in Human Disease , 2008, Science.

[26]  S. Orkin,et al.  A Critical Role for Eosinophils in Allergic Airways Remodeling , 2004, Science.

[27]  Simon C. Potter,et al.  A novel variant on chromosome 7q22.3 associated with mean platelet volume, counts, and function. , 2009, Blood.

[28]  Yusuke Nakamura,et al.  A genome-wide association identified the common genetic variants influence disease severity in β0-thalassemia/hemoglobin E , 2009, Human Genetics.

[29]  Matthew Hardy,et al.  Cell-specific protein phenotypes for the autoimmune locus IL2RA using a genotype-selectable human bioresource , 2009, Nature Genetics.

[30]  Christian Gieger,et al.  Multiple Loci Are Associated with White Blood Cell Phenotypes , 2011, PLoS genetics.

[31]  E. Grove,et al.  The causal role of megakaryocyte–platelet hyperactivity in acute coronary syndromes , 2012, Nature Reviews Cardiology.

[32]  J. Hirschhorn,et al.  DNA polymorphisms at the BCL11A, HBS1L-MYB, and β-globin loci associate with fetal hemoglobin levels and pain crises in sickle cell disease , 2008, Proceedings of the National Academy of Sciences.

[33]  Gonçalo R. Abecasis,et al.  Genome-wide association study shows BCL11A associated with persistent fetal hemoglobin and amelioration of the phenotype of β-thalassemia , 2008, Proceedings of the National Academy of Sciences.

[34]  Christian Gieger,et al.  New gene functions in megakaryopoiesis and platelet formation , 2011, Nature.

[35]  Walter Palmas,et al.  Genetic association analysis highlights new loci that modulate hematological trait variation in Caucasians and African Americans , 2011, Human Genetics.

[36]  Ian H. Frazer,et al.  Common variants in TMPRSS6 are associated with iron status and erythrocyte volume , 2009, Nature Genetics.

[37]  M. Daly,et al.  Proteins Encoded in Genomic Regions Associated with Immune-Mediated Disease Physically Interact and Suggest Underlying Biology , 2011, PLoS genetics.

[38]  P. Kingsley,et al.  A transient definitive erythroid lineage with unique regulation of the β-globin locus in the mammalian embryo. , 2011, Blood.

[39]  Xiao-Wei Chen,et al.  SEC23B is required for the maintenance of murine professional secretory tissues , 2012, Proceedings of the National Academy of Sciences.

[40]  Benjamin A. Logsdon,et al.  Imputation of exome sequence variants into population- based samples and blood-cell-trait-associated loci in African Americans: NHLBI GO Exome Sequencing Project. , 2012, American journal of human genetics.

[41]  E. Lander Initial impact of the sequencing of the human genome , 2011, Nature.

[42]  M. Sadelain,et al.  The potential of stem cells as an in vitro source of red blood cells for transfusion. , 2012, Cell stem cell.

[43]  J. Hirschhorn,et al.  Supporting Online Material Materials and Methods Figs. S1 to S10 Tables S1 to S7 References Human Fetal Hemoglobin Expression Is Regulated by the Developmental Stage-specific Repressor Bcl11a , 2022 .

[44]  Christian Gieger,et al.  A genome-wide meta-analysis identifies 22 loci associated with eight hematological parameters in the HaemGen consortium , 2009, Nature Genetics.

[45]  Steve Best,et al.  cMYB is involved in the regulation of fetal hemoglobin production in adults. , 2006, Blood.

[46]  N. Andrews,et al.  Mutations in TMPRSS6 cause iron-refractory iron deficiency anemia (IRIDA) , 2008, Nature Genetics.

[47]  E. Lander,et al.  MicroRNA-15a and -16-1 act via MYB to elevate fetal hemoglobin expression in human trisomy 13 , 2011, Proceedings of the National Academy of Sciences.

[48]  Yusuke Nakamura,et al.  Genome-wide association study of hematological and biochemical traits in a Japanese population , 2010, Nature Genetics.

[49]  Simon Heath,et al.  A QTL influencing F cell production maps to a gene encoding a zinc-finger protein on chromosome 2p15 , 2007, Nature Genetics.

[50]  Christian Gieger,et al.  Multiple loci influence erythrocyte phenotypes in the CHARGE Consortium , 2009, Nature Genetics.

[51]  Berthold Göttgens,et al.  Maps of Open Chromatin Guide the Functional Follow-Up of Genome-Wide Association Signals: Application to Hematological Traits , 2011, PLoS genetics.

[52]  R. Houlston,et al.  What are genome-wide association studies telling us about B-cell tumor development? , 2010, Oncotarget.

[53]  E. Lander,et al.  Exome sequencing identifies GATA1 mutations resulting in Diamond-Blackfan anemia. , 2012, The Journal of clinical investigation.

[54]  Sarah E Medland,et al.  Sequence variants in three loci influence monocyte counts and erythrocyte volume. , 2009, American journal of human genetics.

[55]  Gonçalo Abecasis,et al.  Genome-wide association study identifies variants in TMPRSS6 associated with hemoglobin levels , 2009, Nature Genetics.

[56]  Cong Peng,et al.  Correction of Sickle Cell Disease in Adult Mice by Interference with Fetal Hemoglobin Silencing , 2011, Science.

[57]  Stuart H. Orkin,et al.  Developmental and species-divergent globin switching are driven by BCL11A , 2009, Nature.

[58]  P. Visscher,et al.  LPAR1 and ITGA4 regulate peripheral blood monocyte counts , 2011, Human mutation.

[59]  R. Champlin,et al.  Biologic and molecular effects of granulocyte colony-stimulating factor in healthy individuals: recent findings and current challenges. , 2008, Blood.

[60]  E. Lander,et al.  regulate erythrocyte size and number Cyclin D 3 coordinates the cell cycle during differentiation to Material , 2012 .

[61]  L. Zon,et al.  Hematopoiesis: An Evolving Paradigm for Stem Cell Biology , 2008, Cell.