Inherited thrombocytopenia associated with mutation of UDP‐galactose‐4‐epimerase (GALE)

Abstract Severe thrombocytopenia, characterized by dysplastic megakaryocytes and intracranial bleeding, was diagnosed in six individuals from a consanguineous kindred. Three of the individuals were successfully treated by bone marrow transplant. Whole‐exome sequencing and homozygosity mapping of multiple family members, coupled with whole‐genome sequencing to reveal shared non‐coding variants, revealed one potentially functional variant segregating with thrombocytopenia under a recessive model: GALE p.R51W (c.C151T, NM_001127621). The mutation is extremely rare (allele frequency = 2.5 × 10−05), and the likelihood of the observed co‐segregation occurring by chance is 1.2 × 10−06. GALE encodes UDP‐galactose‐4‐epimerase, an enzyme of galactose metabolism and glycosylation responsible for two reversible reactions: interconversion of UDP‐galactose with UDP‐glucose and interconversion of UDP‐N‐acetylgalactosamine with UDP‐N‐acetylglucosamine. The mutation alters an amino acid residue that is conserved from yeast to humans. The variant protein has both significantly lower enzymatic activity for both interconversion reactions and highly significant thermal instability. Proper glycosylation is critical to normal hematopoiesis, in particular to megakaryocyte and platelet development, as reflected in the presence of thrombocytopenia in the context of congenital disorders of glycosylation. Mutations in GALE have not previously been associated with thrombocytopenia. Our results suggest that GALE p.R51W is inadequate for normal glycosylation and thereby may impair megakaryocyte and platelet development. If other mutations in GALE are shown to have similar consequences, this gene may be proven to play a critical role in hematopoiesis.

[1]  David J. Arenillas,et al.  JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework , 2017, Nucleic acids research.

[2]  P. Balogh,et al.  RUNX3 is required for megakaryocyte-erythroid specification in primary human progenitors , 2017 .

[3]  Melissa A. Kinney,et al.  Drug discovery for Diamond-Blackfan anemia using reprogrammed hematopoietic progenitors , 2017, Science Translational Medicine.

[4]  D. Timson,et al.  The molecular basis of galactosemia - Past, present and future. , 2016, Gene.

[5]  T. Walsh,et al.  FAM111B Mutation Is Associated With Inherited Exocrine Pancreatic Dysfunction , 2016, Pancreas.

[6]  Xiaoyu Chen,et al.  Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications , 2016, Bioinform..

[7]  Sarah J. Fletcher,et al.  Inherited thrombocytopenia: novel insights into megakaryocyte maturation, proplatelet formation and platelet lifespan , 2016, Platelets.

[8]  H. Falet,et al.  Regulating billions of blood platelets: glycans and beyond. , 2015, Blood.

[9]  H. Falet,et al.  Novel mechanisms of platelet clearance and thrombopoietin regulation , 2015, Current opinion in hematology.

[10]  C. Fauth,et al.  ALG8-CDG: novel patients and review of the literature , 2015, Orphanet Journal of Rare Diseases.

[11]  David A. Williams,et al.  Germline ETV6 mutations in familial thrombocytopenia and hematologic malignancy , 2015, Nature Genetics.

[12]  David A. Williams,et al.  Genomic analysis of bone marrow failure and myelodysplastic syndromes reveals phenotypic and diagnostic complexity , 2015, Haematologica.

[13]  K. Nakayama,et al.  GNE myopathy associated with congenital thrombocytopenia: A report of two siblings , 2014, Neuromuscular Disorders.

[14]  D. Timson,et al.  The metastability of human UDP-galactose 4'-epimerase (GALE) is increased by variants associated with type III galactosemia but decreased by substrate and cofactor binding. , 2014, Archives of biochemistry and biophysics.

[15]  J. M. Monje,et al.  Developmental Defects in a Caenorhabditis elegans Model for Type III Galactosemia , 2014, Genetics.

[16]  T. Tan,et al.  Disruption of Runx1 and Runx3 leads to bone marrow failure and leukemia predisposition due to transcriptional and DNA repair defects. , 2014, Cell reports.

[17]  P. Azadi,et al.  Remodeling of Marrow Hematopoietic Stem and Progenitor Cells by Non-self ST6Gal-1 Sialyltransferase* , 2014, The Journal of Biological Chemistry.

[18]  Zhaojun Zhang,et al.  Assessment of hematopoietic failure due to Rpl11 deficiency in a zebrafish model of Diamond-Blackfan anemia by deep sequencing , 2013, BMC Genomics.

[19]  James J Collins,et al.  Induction of multipotential hematopoietic progenitors from human pluripotent stem cells via respecification of lineage-restricted precursors. , 2013, Cell stem cell.

[20]  Semyon Kruglyak,et al.  Isaac: ultra-fast whole-genome secondary analysis on Illumina sequencing platforms , 2013, Bioinform..

[21]  L. Siever,et al.  Spatial and Temporal Mapping of De Novo Mutations in Schizophrenia to a Fetal Prefrontal Cortical Network , 2013, Cell.

[22]  Heng Li Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM , 2013, 1303.3997.

[23]  Ryan M. Layer,et al.  LUMPY: a probabilistic framework for structural variant discovery , 2012, Genome Biology.

[24]  Y. Liu,et al.  Altered cofactor binding affects stability and activity of human UDP-galactose 4'-epimerase: implications for type III galactosemia. , 2012, Biochimica et biophysica acta.

[25]  R. Cummings,et al.  Platelet biogenesis and functions require correct protein O-glycosylation , 2012, Proceedings of the National Academy of Sciences.

[26]  J. Hartwig,et al.  The origin and function of platelet glycosyltransferases. , 2012, Blood.

[27]  J. Fridovich-Keil,et al.  UDP-Galactose 4′-Epimerase Activities toward UDP-Gal and UDP-GalNAc Play Different Roles in the Development of Drosophila melanogaster , 2012, PLoS genetics.

[28]  Aadel A. Chaudhuri,et al.  Oncomir miR-125b regulates hematopoiesis by targeting the gene Lin28A , 2012, Proceedings of the National Academy of Sciences.

[29]  Tatiana Popova,et al.  Supplementary Methods , 2012, Acta Neuropsychiatrica.

[30]  A. Zarbock,et al.  A novel type of macrothrombocytopenia associated with a defect in α2,3-sialylation. , 2011, The American journal of pathology.

[31]  Y. Liu,et al.  In vivo and in vitro function of human UDP-galactose 4′-epimerase variants , 2011, Biochimie.

[32]  M. DePristo,et al.  The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. , 2010, Genome research.

[33]  B. Alter,et al.  Pathophysiology and management of inherited bone marrow failure syndromes. , 2010, Blood reviews.

[34]  Alfredo Brusco,et al.  Diamond-Blackfan anemia: genotype-phenotype correlations in Italian patients with RPL5 and RPL11 mutations , 2010, Haematologica.

[35]  Bodo Grimbacher,et al.  A syndrome with congenital neutropenia and mutations in G6PC3. , 2009, The New England journal of medicine.

[36]  Lior Pachter,et al.  Sequence Analysis , 2020, Definitions.

[37]  S. Ellis,et al.  Diamond-Blackfan anemia: diagnosis, treatment, and molecular pathogenesis. , 2009, Hematology/oncology clinics of North America.

[38]  Jiri Petrak,et al.  Identification of mutations in the ribosomal protein L5 (RPL5) and ribosomal protein L11 (RPL11) genes in Czech patients with Diamond‐Blackfan anemia , 2009, Human mutation.

[39]  J. Ladenson,et al.  The role of human ribosomal proteins in the maturation of rRNA and ribosome production. , 2008, RNA.

[40]  D. Timson,et al.  Analysis of UDP-galactose 4′-epimerase mutations associated with the intermediate form of type III galactosaemia , 2008, Journal of Inherited Metabolic Disease.

[41]  Charles P. Lin,et al.  Ex vivo glycan engineering of CD44 programs human multipotent mesenchymal stromal cell trafficking to bone , 2008, Nature Medicine.

[42]  Manuel A. R. Ferreira,et al.  PLINK: a tool set for whole-genome association and population-based linkage analyses. , 2007, American journal of human genetics.

[43]  T. Jaatinen,et al.  N-glycan structures and associated gene expression reflect the characteristic N-glycosylation pattern of human hematopoietic stem and progenitor cells. , 2007, Experimental hematology.

[44]  J. Fridovich-Keil Galactosemia: The good, the bad, and the unknown , 2006, Journal of cellular physiology.

[45]  Hudson H. Freeze,et al.  Genetic defects in the human glycome , 2006, Nature Reviews Genetics.

[46]  D. Timson,et al.  Functional analysis of disease‐causing mutations in human UDP‐galactose 4‐epimerase , 2005, The FEBS journal.

[47]  Dong Hwan Lee,et al.  The molecular basis of UDP-galactose-4-epimerase (GALE) deficiency galactosemia in Korean patients , 2005, Genetics in Medicine.

[48]  R. Cummings,et al.  Protein glycosylation: Chaperone mutation in Tn syndrome , 2005, Nature.

[49]  J. Fridovich-Keil,et al.  Determinants of Function and Substrate Specificity in Human UDP-galactose 4′-Epimerase* , 2004, Journal of Biological Chemistry.

[50]  T. Hennet,et al.  Clinical and molecular features of three patients with congenital disorders of glycosylation type Ih (CDG-Ih) (ALG8 deficiency) , 2004, Journal of Medical Genetics.

[51]  A. Cohen,et al.  A clinical and molecular study of a Bedouin family with dysmegakaryopoiesis, mild anemia, and neutropenia cured by bone marrow transplantation , 2003, European journal of haematology.

[52]  W M Miller,et al.  Higher pH Promotes Megakaryocytic Maturation and Apoptosis , 2002, Stem cells.

[53]  S. Cameron,et al.  The zinc-finger proto-oncogene Gfi-1b is essential for development of the erythroid and megakaryocytic lineages. , 2002, Genes & development.

[54]  R. Shivdasani Molecular and Transcriptional Regulation of Megakaryocyte Differentiation , 2001, Stem cells.

[55]  S. Rafii,et al.  Cd44 Is a Major E-Selectin Ligand on Human Hematopoietic Progenitor Cells , 2001, The Journal of cell biology.

[56]  J. Fridovich-Keil,et al.  Molecular Basis for Severe Epimerase Deficiency Galactosemia , 2001, The Journal of Biological Chemistry.

[57]  J. Fridovich-Keil,et al.  Studies of the V94M-substituted human UDPgalactose-4-epimerase enzyme associated with generalized epimerase-deficiency galactosaemia , 2000, Journal of Inherited Metabolic Disease.

[58]  D. Watson,et al.  Hemorrhage, Impaired Hematopoiesis, and Lethality in Mouse Embryos Carrying a Targeted Disruption of the Fli1Transcription Factor , 2000, Molecular and Cellular Biology.

[59]  S. Orkin,et al.  Familial dyserythropoietic anaemia and thrombocytopenia due to an inherited mutation in GATA1 , 2000, Nature Genetics.

[60]  R. Shivdasani,et al.  Pathophysiology of thrombocytopenia and anemia in mice lacking transcription factor NF-E2. , 1999, Blood.

[61]  J. Fridovich-Keil,et al.  Identification and characterization of a mutation, in the human UDP-galactose-4-epimerase gene, associated with generalized epimerase-deficiency galactosemia. , 1999, American journal of human genetics.

[62]  S. Almashanu,et al.  Molecular characterization of a unique patient with epimerase-deficiency galactosaemia , 1998, Journal of Inherited Metabolic Disease.

[63]  S. Almashanu,et al.  Characterization of two mutations associated with epimerase-deficiency galactosemia, by use of a yeast expression system for human UDP-galactose-4-epimerase. , 1997, American journal of human genetics.

[64]  P. Rosoff Myelodysplasia and deficiency of uridine diphosphate-galactose 4-epimerase. , 1995, The Journal of pediatrics.

[65]  D. Kingsley,et al.  Reversible defects in O-linked glycosylation and LDL receptor expression in a UDP-Gal UDP-GalNAc 4-epimerase deficient mutant , 1986, Cell.

[66]  C. Klein Congenital neutropenia. , 2009, Hematology. American Society of Hematology. Education Program.

[67]  M. Epstein,et al.  Epimerase-deficiency galactosemia is not a binary condition. , 2006, American journal of human genetics.

[68]  J. Fridovich-Keil,et al.  Functional characterization of the K257R and G319E-hGALE alleles found in patients with ostensibly peripheral epimerase deficiency galactosemia. , 2005, Molecular genetics and metabolism.

[69]  D. Linzer,et al.  Murine prolactin-like protein E synergizes with human thrombopoietin to stimulate expansion of human megakaryocytes and their precursors. , 2001, Experimental hematology.

[70]  B. Dallapiccola,et al.  Human UDP-galactose 4' epimerase (GALE) gene and identification of five missense mutations in patients with epimerase-deficiency galactosemia. , 1998, Molecular genetics and metabolism.