Cited by 37Genetic Associations and EpidemiologyLipoproteins and Cardiovascular HealthParaoxonase enzyme and polymorphisms

Population-Based Resequencing of APOA1 in 10,330 Individuals: Spectrum of Genetic Variation, Phenotype, and Comparison with Extreme Phenotype Approach

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Haase, Christiane L., Frikke-Schmidt, Ruth, Nordestgaard, Børge G., Tybjærg-Hansen, Anne·2012·PLoS Genetics

Abstract

Rare genetic variants, identified by in-detail resequencing of loci, may contribute to complex traits. We used the apolipoprotein A-I gene (APOA1), a major high-density lipoprotein (HDL) gene, and population-based resequencing to determine the spectrum of genetic variants, the phenotypic characteristics of these variants, and how these results compared with results based on resequencing only the extremes of the apolipoprotein A-I (apoA-I) distribution. First, we resequenced APOA1 in 10,330 population-based participants in the Copenhagen City Heart Study. The spectrum and distribution of genetic variants was determined as a function of the number of individuals resequenced. Second, apoA-I and HDL cholesterol phenotypes were determined for nonsynonymous (NS) and synonymous (S) variants and were validated in the Copenhagen General Population Study (n = 45,239). Third, observed phenotypes were compared with those predicted using an extreme phenotype approach based on the apoA-I distribution. Our results are as follows: First, population-based resequencing of APOA1 identified 40 variants of which only 7 (18%) had minor allele frequencies >1%, and most were exceedingly rare. Second, 0.27% of individuals in the general population were heterozygous for NS variants which were associated with substantial reductions in apoA-I (up to 39 mg/dL) and/or HDL cholesterol (up to 0.9 mmol/L) and, surprisingly, 0.41% were heterozygous for variants predisposing to amyloidosis. NS variants associated with a hazard ratio of 1.72 (1.09-2.70) for myocardial infarction (MI), largely driven by A164S, a variant not associated with apoA-I or HDL cholesterol levels. Third, using the extreme apoA-I phenotype approach, NS variants correctly predicted the apoA-I phenotype observed in the population-based resequencing. However, using the extreme approach, between 79% (screening 0-1(st) percentile) and 21% (screening 0-20(th) percentile) of all variants were not identified; among these were variants previously associated with amyloidosis. Population-based resequencing of APOA1 identified a majority of rare NS variants associated with reduced apoA-1 and HDL cholesterol levels and/or predisposing to amyloidosis. In addition, NS variants associated with increased risk of MI.

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  • Italian studies found no evidence for an increased risk of atherosclerosis in heterozygous carriers of LCAT mutations.

    “Italian studies found no evidence for an increased risk of atherosclerosis in heterozygous carriers of LCAT mutations [32–34].”

    From HDL cholesterol: reappraisal of its clinical relevance (2017) · cites this paper as [34]

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Authors
Haase, C. L., Frikke-Schmidt, R., Nordestgaard, B. G., & Tybjærg-Hansen, A.
Affiliations
University of Copenhagen (DK)
Venue
PLoS Genetics
Published
2012-11-29
Volume
8
Issue
11
Pages
e1003063
ISSN
  • 1553-7390 (ISSN-L)
  • 1553-7404
OpenAlex
W2015544793
Cited by
37
References
44
Citations by year
2023: 1 · 2022: 3 · 2021: 5 · 2020: 3 · 2019: 2 · 2018: 5 · 2017: 2 · 2016: 5 · 2015: 5 · 2014: 2 · 2013: 4
FWCI
2.11
Type
journal article
Language
en
Open access
Locations
  • PLoS Genetics (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
  • Figshare (submittedVersion, cc-by)
  • Research at the University of Copenhagen (University of Copenhagen) (submittedVersion)
Funders
  • Sundhed og Sygdom, Det Frie Forskningsråd
  • European Commission (037631)
  • Gentofte Hospital
  • Rigshospitalet
  • Medical Research Council
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
  • Health Sciences › Medicine › Surgery › Lipoproteins and Cardiovascular Health
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Clinical Biochemistry › Paraoxonase enzyme and polymorphisms
Keywords
apolipoprotein A-I, HDL cholesterol, rare variants, non-synonymous mutations, amyloidosis, myocardial infarction, cardiovascular risk, Copenhagen City Heart Study, Copenhagen General Population Study
MeSH terms
Amyloidosis, Gene Frequency, Heterozygote, Humans, Cholesterol, HDL, Myocardial Infarction, Phenotype, Population, Risk Factors, Apolipoprotein A-I, Sequence Analysis, DNA, Genetic Predisposition to Disease, Polymorphism, Single Nucleotide

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