Caution: These are Prototype Reports for Evaluation Purposes Only!

MGD Full QTL Report

J# 28399 Penha-Goncalves et al. 1995

Phenotype Class: Resistance/Susceptibility
Phenotype Mode: Induced
- Induced by: intraperitoneal injection with 0.2mg dexamethazone (Dxm)
Phenotype Name: Thymocyte apoptosis resistance
- Phenotype Trait 1: Dxm-induced apoptosis resistance, criterion I
- Phenotype Assessment: qualitative
- Phenotype Trait 2: Dxm-induced apoptosis resistance, criterion II
- Phenotype Assessment: qualitative
Alternative Keywords: autoimmune diabetes, IDDM
Strain/Progenitor Information:
- Strain 1: NOD
- Strain 1 Comment: apoptosis resistant
- Strain 2: C57BL/6J
- Strain 2 Comment: apoptosis susceptible
Phenotype Comments:
- 1) Thymocyte resistance recorded as a ratio of CD4+8+/CD4-8- cells after Dxm treatment
- 2) Criterion I: CD4+8+/CD4-8- log normalized ratio >0.01 scored as NOD-like; CD4+8+/CD4-8- log normalized ratio <=0.01 scored as B6-like
- 3) Criterion II (extreme phenotypes): CD4+8+/CD4-8- log normalized ratio >0.3 scored as NOD-like; CD4+8+/CD4-8- log normalized ratio <= -0.23 scored as B6-like

Progeny Generation Used for QTL Experiment: F2
Progeny Population Symbol: NULL
# Animals Evaluated: 110
Female Parent: (C57BL/6J X NOD)F1
Male Parent: (C57BL/6J X NOD)F1
Cross type: intercross
Another Mapping Cross for this Progeny: No
Comments:
- 1) 110 animals evaluated for Criterion I; 91 evaluated for Criterion II
- 2) Only females used in trait evaluation

Chromosomes Included in Marker Map Coverage: 1,6,7,9,11,14,17
Marker Map Methods:
- PCR-simple sequence tandem repeats (SSTR)
- PCR of bcl2, plau markers
Number of Markers in Analysis: 32
Intermarker Distance: NULL
Comments on Marker Map:
- 1) Markers chosen because of their proximity to previously described Idd loci
QTL Detection Method: Chi-square Contingency tests
Significance Threshold for QTL Detection: P <= 0.001
- Significance Threshold Comment: some linkages reported as significant that did not meet the significance threshold.
QTL Estimation Method: interval mapping
Comments on QTL Estimation Model Used:
- 1) LOD scores for recessive, dominant, additive effects compared to LOD scores for unconstrained model.
QTL Mapping Software 1: MapMaker/EXP
QTL Mapping Software 2: MapMaker/QTL

Table of Linked Markers:

QTL Symbol	Linked Marker Symbol	Association Score	P Value	Chromosome
Unnamed	D6Mit218	7.0	< 0.03	6
Unnamed	D6Mit194	9.5	< 0.009	6
Unnamed	D6Mit198	14.3	< 0.0008	6
Unnamed	D6Mit57	10.9	< 0.005	6
Unnamed	D6Mit14	10.3	< 0.006	6
Unamed	D6Mit15	8.9	< 0.02	6
Unamed	D3Mit40	9.1	NULL	3

QTL Estimation: Chromosome 6
- Chromosome: 6
- Location: Peak LOD score of 3.46 near D6Mit15
- % Phenotypic Variation Accounted For: 14%
- Confidence Interval for QTL Estimation: NULL
QTL Estimation: Chromosome 3
- Chromosome: 3
- Location: NULL
- % Phenotypic Variation Accounted For:NULL
- Confidence Interval for QTL Estimation: NULL
Comments:NULL

Table of Linked Markers:

QTL Symbol	Linked Marker Symbol	Association Score	P Value	Chromosome
Unnamed	D6Mit194	6.7	< 0.04	6
Unnamed	D6Mit198	10.4	< 0.006	6
Unnamed	D6Mit57	10.1	< 0.007	6
Unnamed	D6Mit14	10.3	< 0.007	6
Unamed	D6Mit15	10.0	< 0.007	6
Unamed	D3Mit40	9.6	NULL	3

QTL Estimation: Chromosome 6
- Chromosome: 6
- Location: Peak LOD score of 3.46 near D6Mit15
- % Phenotypic Variation Accounted For: 14%
- Confidence Interval for QTL Estimation: NULL
QTL Estimation: Chromosome 3
- Chromosome: 3
- Location: NULL
- % Phenotypic Variation Accounted For:NULL
- Confidence Interval for QTL Estimation: NULL
Comments:NULL

QTL Symbol(s)	Candidate Gene Symbol	Chromosome	Gene Name
Unnamed	Idd6	6	insulin dependent diabetes susceptibility 6
Unnamed	Idd10	3	insulin dependent diabetes susceptibility 10
Unnamed	Idd3	3	insulin dependent diabetes susceptibility 3

1) Peak LOD scores for the QTL on chromosome 6 do not vary significantly with model assumptions.
2) The NOD allele at the peak LOD score on chromosome 6 appears to confer thymocyte apoptosis resistance.
3) The B6 allele at D3Mit40 appears to mediate an increase in thymocyte resistance.