RGD Reference Report - Genomic determinants of triglyceride and cholesterol distribution into lipoprotein fractions in the rat. - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources

Genomic determinants of triglyceride and cholesterol distribution into lipoprotein fractions in the rat.

Authors: Hodulova, M  Sedova, L  Krenova, D  Liska, F  Krupkova, M  Kazdova, L  Tremblay, J  Hamet, P  Kren, V  Seda, O 
Citation: Hodulova M, etal., PLoS One. 2014 Oct 8;9(10):e109983. doi: 10.1371/journal.pone.0109983. eCollection 2014.
RGD ID: 10402111
Pubmed: PMID:25296178   (View Abstract at PubMed)
PMCID: PMC4190321   (View Article at PubMed Central)
DOI: DOI:10.1371/journal.pone.0109983   (Journal Full-text)

The plasma profile of major lipoprotein classes and its subdivision into particular fractions plays a crucial role in the pathogenesis of atherosclerosis and is a major predictor of coronary artery disease. Our aim was to identify genomic determinants of triglyceride and cholesterol distribution into lipoprotein fractions and lipoprotein particle sizes in the recombinant inbred rat set PXO, in which alleles of two rat models of the metabolic syndrome (SHR and PD inbred strains) segregate together with those from Brown Norway rat strain. Adult male rats of 15 PXO strains (n = 8-13/strain) and two progenitor strains SHR-Lx (n = 13) and BXH2/Cub (n = 18) were subjected to one-week of high-sucrose diet feeding. We performed association analyses of triglyceride (TG) and cholesterol (C) concentrations in 20 lipoprotein fractions and the size of major classes of lipoprotein particles utilizing 704 polymorphic microsatellite markers, the genome-wide significance was validated by 2,000 permutations per trait. Subsequent in silico focusing of the identified quantitative trait loci was completed using a map of over 20,000 single nucleotide polymorphisms. In most of the phenotypes we identified substantial gradient among the strains (e.g. VLDL-TG from 5.6 to 66.7 mg/dl). We have identified 14 loci (encompassing 1 to 65 genes) on rat chromosomes 3, 4, 7, 8, 11 and 12 showing suggestive or significant association to one or more of the studied traits. PXO strains carrying the SHR allele displayed significantly higher values of the linked traits except for LDL-TG and adiposity index. Cholesterol concentrations in large, medium and very small LDL particles were significantly associated to a haplotype block spanning part of a single gene, low density lipoprotein receptor-related protein 1B (Lrp1b). Using genome-wide association we have identified new genetic determinants of triglyceride and cholesterol distribution into lipoprotein fractions in the recombinant inbred panel of rat model strains.



Disease Annotations    

Gene Ontology Annotations    

Biological Process

Phenotype Annotations    

Phenotype Values via PhenoMiner     Click to see Annotation Detail View
Options:  View chart  |  Download data table  |  View expanded data table  |  Show All Strains Clinical Measurement

Strains with Phenominer Data Strains with phenominer data
PXO8-2/Cub PXO1/Cub PXO9/Cub
PXO6-1/Cub PXO3-2/Cub PXO4/Cub
PXO3-1/Cub PXO10/Cub PXO5-2/Cub
PXO2/Cub PXO7-1/Cub BXH2/Cub
PXO6-2/Cub SHR.BN-(D8Mit5-D8Mgh6)/Ipcv PXO6-3/Cub
PXO8-1/Cub PXO5-1/Cub

Objects Annotated

Genes (Rattus norvegicus)
Lrp1b  (LDL receptor related protein 1B)

QTLs
Bw175  (Body weight QTL 175)
Kidm55  (Kidney mass QTL 55)
Livw4  (Liver weight QTL 4)
Scl69  (Serum cholesterol level QTL 69)
Scl70  (Serum cholesterol level QTL 70)
Scl71  (Serum cholesterol level QTL 71)
Scl72  (Serum cholesterol level QTL 72)
Scl73  (Serum cholesterol level QTL 73)
Scl74  (Serum cholesterol level QTL 74)
Scl75  (Serum cholesterol level QTL 75)
Scl76  (Serum cholesterol level QTL 76)
Scl77  (Serum cholesterol level QTL 77)
Scl78  (Serum cholesterol level QTL 78)
Scl79  (Serum cholesterol level QTL 79)
Scl80  (Serum cholesterol level QTL 80)
Stl33  (Serum triglyceride level QTL 33)
Stl34  (Serum triglyceride level QTL 34)

Objects referenced in this article
Strain PXO1/Cub null Rattus norvegicus
Strain PXO10/Cub null Rattus norvegicus
Strain PXO2/Cub null Rattus norvegicus
Strain PXO3-1/Cub null Rattus norvegicus
Strain PXO3-2/Cub null Rattus norvegicus
Strain PXO4/Cub null Rattus norvegicus
Strain PXO5-1/Cub null Rattus norvegicus
Strain PXO5-2/Cub null Rattus norvegicus
Strain PXO6-1/Cub null Rattus norvegicus
Strain PXO6-2/Cub null Rattus norvegicus
Strain PXO6-3/Cub null Rattus norvegicus
Strain PXO7-1/Cub null Rattus norvegicus
Strain PXO8-1/Cub null Rattus norvegicus
Strain PXO8-2/Cub null Rattus norvegicus
Strain PXO9/Cub null Rattus norvegicus

Additional Information