Lauren Gerard Koch Functional Genomics Laboratory Medical College of Ohio Toledo, Ohio A Genome Scan for Aerobic Running Capacity QTLs in Rats.

Slides:



Advertisements
Similar presentations
Linkage and Genetic Mapping
Advertisements

The genetic dissection of complex traits
Planning breeding programs for impact
Why this paper Causal genetic variants at loci contributing to complex phenotypes unknown Rat/mice model organisms in physiology and diseases Relevant.
Frary et al. Advanced Backcross QTL analysis of a Lycopersicon esculentum x L. pennellii cross and identification of possible orthologs in the Solanaceae.
Pepper Mapping & Major Genes Mapping of chlorophyll retainer (cl) mutation in pepper The Pun1 gene for pungency QTL mapping for fruit size and shape.
1 QTL mapping in mice Lecture 10, Statistics 246 February 24, 2004.
Statistical association of genotype and phenotype.
A Study on Variations of HDL Levels in Female vs. Male Mice The Battle of the Sexes: Presented by: Sean Roney Teresa Leslie Courtney Deshayes.
Modeling Depression in Mice to Identify Genetic Mechanisms of Mood Disorder Cristina Santos 1, Brooke Miller 2, Matthew Pletcher 2, Andrew Su 4, Lisa Tarantino.
Piyaporn Phansak 1, Watcharin Soonsuwan 1, James E. Specht 1, George L. Graef 1, Perry B. Cregan 2, and David L. Hyten 2 1 Department of Agronomy and Horticulture,
Sessão Temática 2 Análise Bayesiana Utilizando a abordagem Bayesiana no mapeamento de QTL´s Roseli Aparecida Leandro ESALQ/USP 11 o SEAGRO / 50ª RBRAS.
Use of Quantitative Trait Loci (QTL) in Dairy Sire Selection Fabio Monteiro de Rezende Universidade Federal Rural de Pernambuco (UFRPE) - Brazil.
The role of parallel genetic changes in domestication: Fruit size in the plant family Solanaceae Matt Robinson.
Bull selection based on QTL for specific environments Fabio Monteiro de Rezende Universidade Federal Rural de Pernambuco (UFRPE) - Brazil.
Positional Cloning LOD Sib pairs Chromosome Region Association Study Genetics Genomics Physical Mapping/ Sequencing Candidate Gene Selection/ Polymorphism.
Obesity and Genes Recent Developments Pennington Biomedical Research Center.
Understanding Genetics of Schizophrenia
Chuanyu Sun Paul VanRaden National Association of Animal breeders, USA Animal Improvement Programs Laboratory, USA Increasing long term response by selecting.
Introduction to BST775: Statistical Methods for Genetic Analysis I Course master: Degui Zhi, Ph.D. Assistant professor Section on Statistical Genetics.
Natural Variation in Arabidopsis ecotypes. Using natural variation to understand diversity Correlation of phenotype with environment (selective pressure?)
Whole genome scans to localise QTL X. Likely positionQTL Chromosome with mapped markers BAC Contig Spanning QTL region New MarkersCandidate Genes Fine.
Advanced Aerobic Activities By: Brittani Ikemoto.
Multifactorial Traits
LXS RI PANEL: LARGEST EXTANT RI SERIES 78 STRAINS BETH BENNETT T.E. JOHNSON UNIV OF COLORADO BOULDER, CO.
Fine mapping QTLs using Recombinant-Inbred HS and In-Vitro HS William Valdar Jonathan Flint, Richard Mott Wellcome Trust Centre for Human Genetics.
Non-Mendelian Genetics
Steven L. Britton and Lauren Gerard Koch Functional Genomics Laboratory Medical College of Ohio Toledo, Ohio Genetic Models of Low and High Aerobic Capacity.
Fig. S1 The non-metric multi-dimensional scaling of 24 double haploid (DH) lines (colored in grey) in the background of 225 DH lines (colored in blue)
Experimental Design and Data Structure Supplement to Lecture 8 Fall
Quantitative Genetics. Continuous phenotypic variation within populations- not discrete characters Phenotypic variation due to both genetic and environmental.
Complex Traits Most neurobehavioral traits are complex Multifactorial
Quantitative Genetics
QTL Mapping in Heterogeneous Stocks Talbot et al, Nature Genetics (1999) 21: Mott et at, PNAS (2000) 97:
Linkage Studies (1a) Linkage Studies (1b) Power of 595 independent sib pairs (Koller et al. 2000) and 53 pedigrees composed of 630 individuals (Deng.
QTL Associated with Maize Kernel Traits among Illinois High Oil × B73 Backcross-Derived Lines By J.J. Wassom, J.C. Wong, and T.R. Rocheford University.
Association between genotype and phenotype
An quick overview of human genetic linkage analysis
CARDIORESPIRATORY ENDURANCE HEART / LUNGS / BLOOD AND THE BODY.
MOLECULAR MAPPING OF LEAF CUTICULAR WAXES IN WHEAT S. MONDAL, R.E. MASON, F. BEECHER AND D.B.HAYS TEXAS A& M UNIVERSITY, DEPT. OF SOIL & CROP SCIENCES,
An quick overview of human genetic linkage analysis Terry Speed Genetics & Bioinformatics, WEHI Statistics, UCB NWO/IOP Genomics Winterschool Mathematics.
Genomics of Adaptation
Chapter 22 - Quantitative genetics: Traits with a continuous distribution of phenotypes are called continuous traits (e.g., height, weight, growth rate,
High resolution QTL mapping in genotypically selected samples from experimental crosses Selective mapping (Fig. 1) is an experimental design strategy for.
13 October 2004Statistics: Yandell © Inferring Genetic Architecture of Complex Biological Processes Brian S. Yandell 12, Christina Kendziorski 13,
Ping Wang, Mar Method Paper. Ping Wang, Mar Outline Methods –Multiple QTL model identification procedure –Adjacency Measurement –Clustering.
Genetics of Gene Expression BIOS Statistics for Systems Biology Spring 2008.
Systems Genetics Approach to the Study of Brain Iron Regulation Byron C. Jones Professor of Biobehavioral Health & Pharmacology The Pennsylvania State.
Cardiac Output April 28, 2017 Cardiac Output.
Genetic mapping and QTL analysis - JoinMap and QTLNetwork -
Association Mapping in Families Gonçalo Abecasis University of Oxford.
Salah F. Abou-Elwafa, Ke Xiao, Christian Jung Plant Breeding Institute Faculty of Agricultural and Nutritional Sciences Candidate Genes for Root Lesion.
Mapping variation in growth in response to glucose concentration
Linkage Studies (1a).
Relationship between quantitative trait inheritance and
BAC-Based Physical Map of the Rice Genome.
Genome-wide Association Studies
EpiQTL mapping of glucosinolate mean and CV
Genomewide Linkage Scan Identifies a Novel Susceptibility Locus for Restless Legs Syndrome on Chromosome 9p  Shenghan Chen, William G. Ondo, Shaoqi Rao,
Linkage analysis and genetic mapping
Volume 68, Issue 6, Pages (December 2005)
Volume 53, Issue 6, Pages (June 1998)
Evan G. Williams, Johan Auwerx  Cell 
Yaoyu Chen, Jarod Rollins, Beverly Paigen, Xiaosong Wang 
by Meru J. Sadhu, Joshua S. Bloom, Laura Day, and Leonid Kruglyak
Identifying Novel Genes for Atherosclerosis through Mouse-Human Comparative Genetics  Xiaosong Wang, Naoki Ishimori, Ron Korstanje, Jarod Rollins, Beverly.
Mean C-to-U editing ratios for most editing sites map to a region on chromosome 6 at 122 Mb. (A) Genome scan of mean C-to-U editing for 70 editing sites.
The first two principal components for the islet gene expression data for the 181 microarray probes that map to the chromosome 6 trans-eQTL hotspot with.
Flowering-time QTL in crosses of Lz-0 with Ler and Col.
Fig. 1. Summary of linkage analysis and congenic strain
Presentation transcript:

Lauren Gerard Koch Functional Genomics Laboratory Medical College of Ohio Toledo, Ohio A Genome Scan for Aerobic Running Capacity QTLs in Rats

Rat Genetic Models of Aerobic Running Capacity “A Parallel Strategy” Identify already-available inbred strains that widely differ in aerobic capacity to serve as genetic models.

Aerobic Capacity was Assessed By Treadmill Running To Exhaustion In 11 Inbred Rat Strains DA and COP showed the widest divergence [Barbato et al, J. Appl. Physiol., 1998] DISTANCE RUN (meters)

70 mm Hg Langendorff-Neely Working Heart Preparation Cardiac Performance as a Likely Determinant Phenotype for Differences in Aerobic Capacity PRE-LOAD 15 mm Hg AFTER- LOAD 70 mm Hg

Cardiac Output Versus Distance Run y = 19.03X r = ISOLATED CARDIAC OUTPUT (ml/min/g Heart Weight) DISTANCE RUN (METERS) PVG DA AUG SR F344 ACI LEW WKY BUF MNS COP [Barbato et al, J. Appl. Physiol., 1998]

Based on these data, we propose that COP and DA strains could serve as parentals for developing a segregating population for the evaluation of the genetic basis of low and high exercise capacity.

COP DA

COPF1F1 DA

COP F2F2 F1F1 DA

Genome-Wide Scan for Aerobic Capacity QTLs. Phase I: Selective Genotyping of F 2 (COP X DA) Population

LOD Plot for Chromosome 16 Phase II: Entire F 2 (COP X DA) Population Significant QTL

LOD Plot for Chromosome 3 Phase II: Entire F 2 (COP X DA) Population

Interaction Effect Between Markers D16Rat55 and D3Rat56 on Distance Run

Additional interval mapping was done to determine whether heart weight and body weight QTLs co-localize to aerobic capacity regions.

Relative Heart Weight QTL Chromosome 7 Aerobic Capacity- Phase I

Total Heart Weight QTL Chromosome 8

Body Weight QTL Chromosome 8 Aerobic Capacity- Phase I

QTL Regions contain genes related to Lipid Metabolism and Energy Homeostasis Chromosome 16 Lipoprotein Lipase (Lpl) Neuropeptide Y5 (Npy5r) Adrenergic Beta 3 (Adrb3) Carboxypeptidase E (Cpe) Chromosome 7 Peroxisome Proliferator- Activated Receptors (Ppara) Chromosome 3 Carboxyl Ester Lipase (Cel) Retinoid X Receptor (Rxra) Chromosome 8 Apolipoprotein (Apoc3, Apoa1, APoa4) Hepatic Lipase (Lipc) 5´Nucleotidase (Nt5)

There are at least two aerobic capacity QTLs present on rat chromosome 16. A QTL near D16Rat17 had effects on running capacity independent of other putative QTLs whereas the aerobic capacity QTL located near D16Rat55 interacted with a QTL located near D3Rat56. Possible associated relative heart weight, total heart weight, and average body weight QTLs were found on chromosomes 7 (D7Rat74) and 8 (D8Rat23) respectively. Candidate genes within the identified QTL regions include enzymes and transcription factors involved in energy balance and lipid metabolism. Summary

Significance These findings represent the first known identification of aerobic capacity QTLs in animal genetic models. This work will be appear as the cover article in the June issue of Genomics.

END

Putative Aerobic Capacity QTLs for F 2 (COP x DA) Population

We found other Likely Determinant Phenotypes where DA is Significantly Greater than COP: 1.Maximal developed tension in isolated papillary muscles (38%) (Chen et al., J. Physiol., 2001). 2.Fractional Shortening (50%) and amplitude of calcium transients (78%) in ventricular myocytes (Chen et al., J. Physiol., 2001). 3.Wider range for sympathetic and parasympathetic control of heart rate and blood pressure (Koch et al., Physiol. Genomics, 1999). 4.Heart weight to body weight ratio (27%) (Koch et al., Physiol. Genomics, 1999). 5.Cardiac adenosine production (46%) (Walker et al., Am J. Physiol., 2002).

Phenotype Data for Aerobic Treadmill Running Capacity in Development of an F 2 (COP x DA) Population X

Biesiadecki et al., Am J. Physiol.,1999