Genome-wide meta-analysis and omics integration identifies novel genes associated with diabetic kidney disease.


Journal

Diabetologia
ISSN: 1432-0428
Titre abrégé: Diabetologia
Pays: Germany
ID NLM: 0006777

Informations de publication

Date de publication:
09 2022
Historique:
received: 13 12 2021
accepted: 30 03 2022
pubmed: 29 6 2022
medline: 5 8 2022
entrez: 28 6 2022
Statut: ppublish

Résumé

Diabetic kidney disease (DKD) is the leading cause of kidney failure and has a substantial genetic component. Our aim was to identify novel genetic factors and genes contributing to DKD by performing meta-analysis of previous genome-wide association studies (GWAS) on DKD and by integrating the results with renal transcriptomics datasets. We performed GWAS meta-analyses using ten phenotypic definitions of DKD, including nearly 27,000 individuals with diabetes. Meta-analysis results were integrated with estimated quantitative trait locus data from human glomerular (N=119) and tubular (N=121) samples to perform transcriptome-wide association study. We also performed gene aggregate tests to jointly test all available common genetic markers within a gene, and combined the results with various kidney omics datasets. The meta-analysis identified a novel intronic variant (rs72831309) in the TENM2 gene associated with a lower risk of the combined chronic kidney disease (eGFR<60 ml/min per 1.73 m Altogether, the results point to novel genes contributing to the pathogenesis of DKD. The GWAS meta-analysis results can be accessed via the type 1 and type 2 diabetes (T1D and T2D, respectively) and Common Metabolic Diseases (CMD) Knowledge Portals, and downloaded on their respective download pages ( https://t1d.hugeamp.org/downloads.html ; https://t2d.hugeamp.org/downloads.html ; https://hugeamp.org/downloads.html ).

Identifiants

pubmed: 35763030
doi: 10.1007/s00125-022-05735-0
pii: 10.1007/s00125-022-05735-0
pmc: PMC9345823
doi:

Substances chimiques

Intracellular Signaling Peptides and Proteins 0
DCLK1 protein, human EC 2.7.1.11
Doublecortin-Like Kinases EC 2.7.1.11
Protein Serine-Threonine Kinases EC 2.7.11.1

Types de publication

Journal Article Meta-Analysis Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

1495-1509

Subventions

Organisme : NIDDK NIH HHS
ID : K99 DK127196
Pays : United States
Organisme : NIDDK NIH HHS
ID : R01 DK132299
Pays : United States
Organisme : Medical Research Council
ID : MC_PC_22005
Pays : United Kingdom
Organisme : NIDDK NIH HHS
ID : P30 DK020572
Pays : United States
Organisme : Medical Research Council
ID : MC_PC_15025
Pays : United Kingdom
Organisme : NIDDK NIH HHS
ID : R01 DK105154
Pays : United States

Informations de copyright

© 2022. The Author(s).

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Auteurs

Niina Sandholm (N)

Folkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.
Department of Nephrology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.
Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.

Joanne B Cole (JB)

Programs in Metabolism and Medical & Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Division of Endocrinology, Boston Children's Hospital, Boston, MA, USA.
Diabetes Unit and Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA.

Viji Nair (V)

Michigan Medicine, Ann Arbor, MI, USA.

Xin Sheng (X)

Renal, Electrolyte, and Hypertension Division, Department of Medicine, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.
Institute for Diabetes, Obesity, and Metabolism, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.
Department of Genetics, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.

Hongbo Liu (H)

Renal, Electrolyte, and Hypertension Division, Department of Medicine, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.
Institute for Diabetes, Obesity, and Metabolism, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.
Department of Genetics, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.

Emma Ahlqvist (E)

Department of Clinical Sciences, Lund University Diabetes Centre, Lund University and Skåne University Hospital, Malmö, Sweden.

Natalie van Zuydam (N)

Pat Macpherson Centre for Pharmacogenetics & Pharmacogenomics, Cardiovascular & Diabetes Medicine, School of Medicine, University of Dundee, Dundee, UK.
Oxford Centre for Diabetes, Endocrinology & Metabolism, Radcliffe Department of Medicine, University of Oxford, Oxford, UK.
Wellcome Centre for Human Genetics, Nuffield Department of Medicine, University of Oxford, Oxford, UK.

Emma H Dahlström (EH)

Folkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.
Department of Nephrology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.
Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.

Damian Fermin (D)

Michigan Medicine, Ann Arbor, MI, USA.

Laura J Smyth (LJ)

Molecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.

Rany M Salem (RM)

Herbert Wertheim School of Public Health and Human Longevity Science, University of California San Diego, La Jolla, CA, USA.

Carol Forsblom (C)

Folkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.
Department of Nephrology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.
Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.

Erkka Valo (E)

Folkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.
Department of Nephrology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.
Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.

Valma Harjutsalo (V)

Folkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.
Department of Nephrology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.
Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.
Finnish Institute for Health and Welfare, Helsinki, Finland.

Eoin P Brennan (EP)

Diabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.

Gareth J McKay (GJ)

Molecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.

Darrell Andrews (D)

Diabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.

Ross Doyle (R)

Diabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.

Helen C Looker (HC)

Chronic Kidney Disease Section, National Institute of Diabetes and Digestive and Kidney Diseases, Phoenix, AZ, USA.

Robert G Nelson (RG)

Chronic Kidney Disease Section, National Institute of Diabetes and Digestive and Kidney Diseases, Phoenix, AZ, USA.

Colin Palmer (C)

Pat Macpherson Centre for Pharmacogenetics & Pharmacogenomics, Cardiovascular & Diabetes Medicine, School of Medicine, University of Dundee, Dundee, UK.

Amy Jayne McKnight (AJ)

Molecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.

Catherine Godson (C)

Diabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.

Alexander P Maxwell (AP)

Molecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.
Regional Nephrology Unit, Belfast City Hospital, Belfast, Northern Ireland, UK.

Leif Groop (L)

Department of Clinical Sciences, Lund University Diabetes Centre, Lund University and Skåne University Hospital, Malmö, Sweden.
Institute for Molecular Medicine Finland FIMM, University of Helsinki, Helsinki, Finland.

Mark I McCarthy (MI)

Oxford Centre for Diabetes, Endocrinology & Metabolism, Radcliffe Department of Medicine, University of Oxford, Oxford, UK.
Wellcome Centre for Human Genetics, Nuffield Department of Medicine, University of Oxford, Oxford, UK.

Matthias Kretzler (M)

Michigan Medicine, Ann Arbor, MI, USA.

Katalin Susztak (K)

Renal, Electrolyte, and Hypertension Division, Department of Medicine, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.
Institute for Diabetes, Obesity, and Metabolism, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.
Department of Genetics, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.

Joel N Hirschhorn (JN)

Programs in Metabolism and Medical & Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA. Joel.Hirschhorn@childrens.harvard.edu.
Division of Endocrinology, Boston Children's Hospital, Boston, MA, USA. Joel.Hirschhorn@childrens.harvard.edu.
Departments of Pediatrics and Genetics, Harvard Medical School, Boston, MA, USA. Joel.Hirschhorn@childrens.harvard.edu.

Jose C Florez (JC)

Programs in Metabolism and Medical & Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Diabetes Unit and Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA.
Department of Medicine, Harvard Medical School, Boston, MA, USA.

Per-Henrik Groop (PH)

Folkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland. per-henrik.groop@helsinki.fi.
Department of Nephrology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland. per-henrik.groop@helsinki.fi.
Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland. per-henrik.groop@helsinki.fi.
Department of Diabetes, Central Clinical School, Monash University, Melbourne, Victoria, Australia. per-henrik.groop@helsinki.fi.

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