A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease.
Through high coverage whole-genome sequencing and imputation of the identified variants into a large fraction of the Icelandic population, we found four independent signals in the low density lipoprotein receptor gene (LDLR) that associate with levels of non-high density lipoprotein cholesterol (non...
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doaj-81b9ef6551104a6ab752c4a90d98d40b2020-11-24T21:41:59ZengPublic Library of Science (PLoS)PLoS Genetics1553-73901553-74042015-09-01119e100537910.1371/journal.pgen.1005379A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease.Solveig GretarsdottirHannes HelgasonAnna HelgadottirAsgeir SigurdssonGudmar ThorleifssonAudur MagnusdottirAsmundur OddssonValgerdur SteinthorsdottirThorunn RafnarJacqueline de GraafMaryam S DaneshpourMehdi HedayatiFereidoun AziziNiels GrarupTorben JørgensenHenrik VestergaardTorben HansenGudmundur EyjolfssonOlof SigurdardottirIsleifur OlafssonLambertus A KiemeneyOluf PedersenPatrick SulemGudmundur ThorgeirssonDaniel F GudbjartssonHilma HolmUnnur ThorsteinsdottirKari StefanssonThrough high coverage whole-genome sequencing and imputation of the identified variants into a large fraction of the Icelandic population, we found four independent signals in the low density lipoprotein receptor gene (LDLR) that associate with levels of non-high density lipoprotein cholesterol (non-HDL-C) and coronary artery disease (CAD). Two signals are novel with respect to association with non-HDL-C and are represented by non-coding low frequency variants (between 2-4% frequency), the splice region variant rs72658867-A in intron 14 and rs17248748-T in intron one. These two novel associations were replicated in three additional populations. Both variants lower non-HDL-C levels (rs72658867-A, non-HDL-C effect = -0.44 mmol/l, Padj = 1.1 × 10⁻⁸⁰ and rs17248748-T, non-HDL-C effect = -0.13 mmol/l, Padj = 1.3 × 10⁻¹²) and confer protection against CAD (rs72658867-A, OR = 0.76 and Padj = 2.7 × 10⁻⁸ and rs17248748-T, OR = 0.92 and Padj = 0.022). The LDLR splice region variant, rs72658867-A, located at position +5 in intron 14 (NM_000527:c.2140+5G>A), causes retention of intron 14 during transcription and is expected to produce a truncated LDL receptor lacking domains essential for function of the receptor. About half of the transcripts generated from chromosomes carrying rs72658867-A are characterized by this retention of the intron. The same variant also increases LDLR mRNA expression, however, the wild type transcripts do not exceed levels in non-carriers. This demonstrates that sequence variants that disrupt the LDL receptor can lower non-HDL-C and protect against CAD.http://europepmc.org/articles/PMC4556698?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Solveig Gretarsdottir Hannes Helgason Anna Helgadottir Asgeir Sigurdsson Gudmar Thorleifsson Audur Magnusdottir Asmundur Oddsson Valgerdur Steinthorsdottir Thorunn Rafnar Jacqueline de Graaf Maryam S Daneshpour Mehdi Hedayati Fereidoun Azizi Niels Grarup Torben Jørgensen Henrik Vestergaard Torben Hansen Gudmundur Eyjolfsson Olof Sigurdardottir Isleifur Olafsson Lambertus A Kiemeney Oluf Pedersen Patrick Sulem Gudmundur Thorgeirsson Daniel F Gudbjartsson Hilma Holm Unnur Thorsteinsdottir Kari Stefansson |
spellingShingle |
Solveig Gretarsdottir Hannes Helgason Anna Helgadottir Asgeir Sigurdsson Gudmar Thorleifsson Audur Magnusdottir Asmundur Oddsson Valgerdur Steinthorsdottir Thorunn Rafnar Jacqueline de Graaf Maryam S Daneshpour Mehdi Hedayati Fereidoun Azizi Niels Grarup Torben Jørgensen Henrik Vestergaard Torben Hansen Gudmundur Eyjolfsson Olof Sigurdardottir Isleifur Olafsson Lambertus A Kiemeney Oluf Pedersen Patrick Sulem Gudmundur Thorgeirsson Daniel F Gudbjartsson Hilma Holm Unnur Thorsteinsdottir Kari Stefansson A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease. PLoS Genetics |
author_facet |
Solveig Gretarsdottir Hannes Helgason Anna Helgadottir Asgeir Sigurdsson Gudmar Thorleifsson Audur Magnusdottir Asmundur Oddsson Valgerdur Steinthorsdottir Thorunn Rafnar Jacqueline de Graaf Maryam S Daneshpour Mehdi Hedayati Fereidoun Azizi Niels Grarup Torben Jørgensen Henrik Vestergaard Torben Hansen Gudmundur Eyjolfsson Olof Sigurdardottir Isleifur Olafsson Lambertus A Kiemeney Oluf Pedersen Patrick Sulem Gudmundur Thorgeirsson Daniel F Gudbjartsson Hilma Holm Unnur Thorsteinsdottir Kari Stefansson |
author_sort |
Solveig Gretarsdottir |
title |
A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease. |
title_short |
A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease. |
title_full |
A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease. |
title_fullStr |
A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease. |
title_full_unstemmed |
A Splice Region Variant in LDLR Lowers Non-high Density Lipoprotein Cholesterol and Protects against Coronary Artery Disease. |
title_sort |
splice region variant in ldlr lowers non-high density lipoprotein cholesterol and protects against coronary artery disease. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS Genetics |
issn |
1553-7390 1553-7404 |
publishDate |
2015-09-01 |
description |
Through high coverage whole-genome sequencing and imputation of the identified variants into a large fraction of the Icelandic population, we found four independent signals in the low density lipoprotein receptor gene (LDLR) that associate with levels of non-high density lipoprotein cholesterol (non-HDL-C) and coronary artery disease (CAD). Two signals are novel with respect to association with non-HDL-C and are represented by non-coding low frequency variants (between 2-4% frequency), the splice region variant rs72658867-A in intron 14 and rs17248748-T in intron one. These two novel associations were replicated in three additional populations. Both variants lower non-HDL-C levels (rs72658867-A, non-HDL-C effect = -0.44 mmol/l, Padj = 1.1 × 10⁻⁸⁰ and rs17248748-T, non-HDL-C effect = -0.13 mmol/l, Padj = 1.3 × 10⁻¹²) and confer protection against CAD (rs72658867-A, OR = 0.76 and Padj = 2.7 × 10⁻⁸ and rs17248748-T, OR = 0.92 and Padj = 0.022). The LDLR splice region variant, rs72658867-A, located at position +5 in intron 14 (NM_000527:c.2140+5G>A), causes retention of intron 14 during transcription and is expected to produce a truncated LDL receptor lacking domains essential for function of the receptor. About half of the transcripts generated from chromosomes carrying rs72658867-A are characterized by this retention of the intron. The same variant also increases LDLR mRNA expression, however, the wild type transcripts do not exceed levels in non-carriers. This demonstrates that sequence variants that disrupt the LDL receptor can lower non-HDL-C and protect against CAD. |
url |
http://europepmc.org/articles/PMC4556698?pdf=render |
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