RGD Reference Report - Three interacting genomic loci incorporating two novel mutations underlie the evolution of diet-induced diabetes. - Rat Genome Database

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Three interacting genomic loci incorporating two novel mutations underlie the evolution of diet-induced diabetes.

Authors: Yagil, Y  Markus, B  Kohen, R  Yagil, C 
Citation: Yagil Y, etal., Mol Med. 2016 Jul 26;22. doi: 10.2119/molmed.2016.00114.
RGD ID: 11528530
Pubmed: PMID:27463508   (View Abstract at PubMed)
PMCID: PMC5082302   (View Article at PubMed Central)
DOI: DOI:10.2119/molmed.2016.00114   (Journal Full-text)

We investigated the pathophysiology of diet-induced diabetes in the Cohen diabetic rat (CDs/y) from its induction to its chronic phase, using a multi-layered integrated genomic approach. We identified by linkage analysis two diabetes-related quantitative trait loci on RNO4 and RNO13. We determined their functional contribution to diabetes by chromosomal substitution, using congenic and consomic strains. To identify within these loci genes of relevance to diabetes, we sequenced the genome of CDs/y and compared it to 25 other rat strains. Within the RNO4 locus, we detected a novel high impact deletion in the Ndufa4 gene that was unique to CDs/y. Within the RNO13 locus, we found multiple SNPs and INDELs that were unique to CDs/y but were unable to prioritize any of the genes. Genome wide screening identified a novel third locus not detected by linkage analysis that consisted of a novel high impact deletion on RNO11 that was unique to CDs/y and that involved the Sdf2l1 gene. Using co-segregation analysis, we investigated in silico the relative contribution to the diabetic phenotype and the interaction between the three genomic loci on RNO4, RNO11 and RNO13. We found that the RNO4 locus plays a major role during the induction of diabetes, whereas the genomic loci on RNO13 and RNO11, while interacting with the RNO4 locus, contribute more significantly to the diabetic phenotype during the chronic phase of the disease. The mechanisms whereby the mutations on RNO4 and 11 and the RNO13 locus contribute to the development of diabetes are under continuing investigation.



RGD Manual Disease Annotations    Click to see Annotation Detail View

  
Object SymbolSpeciesTermQualifierEvidenceWithNotesSourceOriginal Reference(s)
CDS.CDR-(D4Rat9-D4Rat153)/YglRattype 2 diabetes mellitus onsetIAGP  RGD 
CDS.SBN-(D13Rat85-D13Mit4)/YglRattype 2 diabetes mellitus MODEL: disease progressionIAGP  RGD 
Niddm71Rattype 2 diabetes mellitus  IAGP  RGD 
Niddm72Rattype 2 diabetes mellitus  IAGP  RGD 
SDF2L1Humantype 2 diabetes mellitus susceptibilityISOSdf2l1 (Rattus norvegicus)DNA:deletion:exons and introns:g.3_910del (rat)RGD 
Sdf2l1Mousetype 2 diabetes mellitus susceptibilityISOSdf2l1 (Rattus norvegicus)DNA:deletion:exons and introns:g.3_910del (rat)RGD 
Sdf2l1Rattype 2 diabetes mellitus susceptibilityIAGP DNA:deletion:exons and introns:g.3_910del (rat)RGD 

Phenotype Annotations    Click to see Annotation Detail View

Mammalian Phenotype

Object SymbolSpeciesTermQualifierEvidenceWithNotesSourceOriginal Reference(s)
Niddm71Ratincreased circulating glucose level  IAGP  RGD 
Niddm72Ratincreased circulating glucose level  IAGP  RGD 
Objects Annotated

Genes (Rattus norvegicus)
Sdf2l1  (stromal cell-derived factor 2-like 1)

Genes (Mus musculus)
Sdf2l1  (stromal cell-derived factor 2-like 1)

Genes (Homo sapiens)
SDF2L1  (stromal cell derived factor 2 like 1)

QTLs
Niddm71  (Non-insulin dependent diabetes mellitus QTL 71)
Niddm72  (Non-insulin dependent diabetes mellitus QTL 72)

Strains
CDS.CDR-(D4Rat9-D4Rat153)/Ygl  (NA)
CDS.SBN-(D13Rat85-D13Mit4)/Ygl  (NA)
CDS/Ygl  (Cohen diabetic-sensitive rat)
SBN/Ygl  (Sabra hypertension resistant)


Additional Information