Integration of Genomic Selection into the University of Florida Strawberry Breeding Program
|
|
- Prosper O’Connor’
- 6 years ago
- Views:
Transcription
1 Integration of Genomic Selection into the University of Florida Strawberry Breeding Program Luis F. Osorio, Salvador Gezan, Vance Whitaker, Sujeet Verma 8 th International Rosaceae Genomics Conference June 22,2016
2 Genomic Selection Process Training Population Genotyping & Phenotyping Candidate Population Genotyping Calculate GEBV Make Selections (From Heffner et al., (2009)
3 Objectives Explore different GS models for some of the most important traits Use true validation for prediction Define a breeding strategy that incorporates GS
4 Breeding Cycle Cross Cross Cross Cross Seedlings T1 Adv. Sel.
5 Breeding Strategy Cross Cross Cross Cross Seedlings Seedlings Seedlings Seedlings T1 T1 T1 T1 Adv. Sel. Adv. Sel. Adv. Sel. Adv. Sel.
6 Experimental Design and Plant Material Two trials per season (T1, ) - RCBD Replicated seedling trials (T1) ~ 80 fam & ~ 580 genotypes 3 replicates/gen Replicated advanced selection trials () 300 genotypes 5 replicates/gen
7 Phenotyping Measurements (per trial/season) Traits No. Units Marketable Yield (TMY) 15 grams Average Fruit Wt (AWT) 15 grams Total Culls (TC) 15 % Brix (SSC) 5 %
8 Genotyping Marker Quality Control 17,479 markers were used in GS Markers with MAF < 5% were removed 90K IStraw90 Axiom SNP array Affimetrix & RosBREED (Bassil and Davis et al. 2015) Markers with missing values > 5% were removed Missing marker data was imputed by using the average allele frequency
9 Individual mixed models : Statistical Analyses and GS Models To estimate variance components for heritability estimates (ASReml Gilmour et al 2009) Phenotypic response to be used in the GS analyses G-BLUP: assumes marker effects have similar variances (Genomatrix -Nazarian and Gezan 2016 and ASReml-R) Bayes B and Bayes C: markers have different variance effects (BGLR - Perez and de los Campos, 2014) Reproducing kernel Hilbert spaces (RKHS): captures some non-additive effects (BGLR - Perez and de los Campos, 2014)
10 Comparison of GS Models - Criteria- Predictive Ability: Prediction Accuracy:,,, PBLUP: traditional pedigree-based estimates Efficiency of Parental Selection (5%, 10%): /
11 Comparison of GS Methods -True Validation Cross Cross Cross Cross Seedlings Seedlings Seedlings Seedlings T1 T1 T1 T1 Adv. Sel. Adv. Sel. Adv. Sel. Adv. Sel. GS
12 Heritabilities Trial Trait Parameter AVW h² H² SSC h² H² TMY h² H² TC h² H²
13 Predictive Ability Trait PBLUP GS Models GBLUP Bayes B Bayes C RKHS AWT SSC TMY TC
14 Prediction Accuracy Trait PBLUP GS Models GBLUP Bayes B Bayes C RKHS AWT SSC TMY TC
15 Parental Selection Efficiency 80.0% 70.0% 74.4% 71.1% 73.7% 70.4% Genetic Gain 60.0% 50.0% 40.0% 30.0% 20.0% 52.6% 51.7% 51.5% 48.4% 28.1% 38.8% 55.8% 52.9% 55.0% 49.9% 46.5% 45.8% 10.0% 0.0% AWT SCC TC TMY AWT SCC TC TMY GBLUP 5% 10% Bayes B
16 Conclusions Bayes B showed better predictive ability than other models Predictive ability is linearly related to the heritability of the trait Prediction accuracy was high (>0.60) for all models and traits except for TC The efficiency of parental selection was moderate to high (> 45%) for all traits
17 New Breeding Cycle Cross Cross Cross Cross Seedlings X Adv. Sel.
18 New Breeding Cycle Cross Cross Cross 2019 Cross GS Validation Population Seedlings Training Population Adv. Sel. GS Adv. Sel.
19 New Breeding Strategy Cross Cross Cross Cross GS GS Seedlings Seedlings Seedlings Seedlings T1 Adv. Sel. Adv. Sel. Adv. Sel. Adv. Sel. GS GS
20 GS Advantages for the UF Strawberry Breeding Program Reducing time, labor and expenses by eliminating T1 tests Accelerating the evaluation of potential parents and their use in crossing Increasing genetic gains by using selected parents earlier in the breeding cycle Increasing genetic gains by improving the accuracy of prediction of genetic values
21 Acknowledgements Strawberry Group-GCREC Angelita Arredondo Kelsey Cearley Jin Hee Kim Jose Hernandez Jozer Mangandi David Moore Catalina Moyer Young Hee Noh Seonghee Lee Natalia Salinas Zhen Fan SFRC (UF) Alireza Nazarian RosBREED Project Quantitative Genetics team
22 Acknowledgements - RosBREED Project-
OBJECTIVES-ACTIVITIES 2-4
OBJECTIVES-ACTIVITIES 2-4 Germplasm Phenotyping Genomics PBA BIMS MAB Pipeline Implementation GOALS, ACTIVITIES, & DELIVERABLES Cameron Peace, project co-director & MAB Pipeline Team leader Outline of
More informationGenomic Selection in R
Genomic Selection in R Giovanny Covarrubias-Pazaran Department of Horticulture, University of Wisconsin, Madison, Wisconsin, Unites States of America E-mail: covarrubiasp@wisc.edu. Most traits of agronomic
More informationMolecular markers in plant breeding
Molecular markers in plant breeding Jumbo MacDonald et al., MAIZE BREEDERS COURSE Palace Hotel Arusha, Tanzania 4 Sep to 16 Sep 2016 Molecular Markers QTL Mapping Association mapping GWAS Genomic Selection
More informationImplementation of Genomic Selection in Pig Breeding Programs
Implementation of Genomic Selection in Pig Breeding Programs Jack Dekkers Animal Breeding & Genetics Department of Animal Science Iowa State University Dekkers, J.C.M. 2010. Use of high-density marker
More informationPractical integration of genomic selection in dairy cattle breeding schemes
64 th EAAP Meeting Nantes, 2013 Practical integration of genomic selection in dairy cattle breeding schemes A. BOUQUET & J. JUGA 1 Introduction Genomic selection : a revolution for animal breeders Big
More informationConifer Translational Genomics Network Coordinated Agricultural Project
Conifer Translational Genomics Network Coordinated Agricultural Project Genomics in Tree Breeding and Forest Ecosystem Management ----- Module 4 Quantitative Genetics Nicholas Wheeler & David Harry Oregon
More informationGenomic Selection: A Step Change in Plant Breeding. Mark E. Sorrells
Genomic Selection: A Step Change in Plant Breeding Mark E. Sorrells People who contributed to research in this presentation Jean-Luc Jannink USDA/ARS, Cornell University Elliot Heffner Pioneer Hi-Bred
More informationComputations with Markers
Computations with Markers Paulino Pérez 1 José Crossa 1 1 ColPos-México 2 CIMMyT-México September, 2014. SLU, Sweden Computations with Markers 1/20 Contents 1 Genomic relationship matrix 2 Examples 3 Big
More informationWhat could the pig sector learn from the cattle sector. Nordic breeding evaluation in dairy cattle
What could the pig sector learn from the cattle sector. Nordic breeding evaluation in dairy cattle Gert Pedersen Aamand Nordic Cattle Genetic Evaluation 25 February 2016 Seminar/Workshop on Genomic selection
More informationAccuracy of whole genome prediction using a genetic architecture enhanced variance-covariance matrix
G3: Genes Genomes Genetics Early Online, published on February 9, 2015 as doi:10.1534/g3.114.016261 1 2 Accuracy of whole genome prediction using a genetic architecture enhanced variance-covariance matrix
More informationGenomic selection in American chestnut backcross populations
Genomic selection in American chestnut backcross populations Jared Westbrook The American Chestnut Foundation TACF Annual Meeting Fall 2017 Portland, ME Selection against blight susceptibility in seed
More informationGenomic selection and its potential to change cattle breeding
ICAR keynote presentations Genomic selection and its potential to change cattle breeding Reinhard Reents - Chairman of the Steering Committee of Interbull - Secretary of ICAR - General Manager of vit,
More informationMAS refers to the use of DNA markers that are tightly-linked to target loci as a substitute for or to assist phenotypic screening.
Marker assisted selection in rice Introduction The development of DNA (or molecular) markers has irreversibly changed the disciplines of plant genetics and plant breeding. While there are several applications
More informationGenomic Estimated Breeding Values Using Genomic Relationship Matrices in a Cloned. Population of Loblolly Pine. Fikret Isik*
G3: Genes Genomes Genetics Early Online, published on April 5, 2013 as doi:10.1534/g3.113.005975 Genomic Estimated Breeding Values Using Genomic Relationship Matrices in a Cloned Population of Loblolly
More informationGeneral aspects of genome-wide association studies
General aspects of genome-wide association studies Abstract number 20201 Session 04 Correctly reporting statistical genetics results in the genomic era Pekka Uimari University of Helsinki Dept. of Agricultural
More informationQuantitative Genetics
Quantitative Genetics Polygenic traits Quantitative Genetics 1. Controlled by several to many genes 2. Continuous variation more variation not as easily characterized into classes; individuals fall into
More informationBLUP and Genomic Selection
BLUP and Genomic Selection Alison Van Eenennaam Cooperative Extension Specialist Animal Biotechnology and Genomics University of California, Davis, USA alvaneenennaam@ucdavis.edu http://animalscience.ucdavis.edu/animalbiotech/
More informationGenome-wide prediction of maize single-cross performance, considering non-additive genetic effects
Genome-wide prediction of maize single-cross performance, considering non-additive genetic effects J.P.R. Santos 1, H.D. Pereira 2, R.G. Von Pinho 2, L.P.M. Pires 2, R.B. Camargos 2 and M. Balestre 3 1
More informationGenomic prediction. Kevin Byskov, Ulrik Sander Nielsen and Gert Pedersen Aamand. Nordisk Avlsværdi Vurdering. Nordic Cattle Genetic Evaluation
Genomic prediction Kevin Byskov, Ulrik Sander Nielsen and Gert Pedersen Aamand STØTTET AF mælkeafgiftsfonden Present 2-step method (HOL), RDC,JER SNP and deregressed proof (DRP) Direct genomic values (DGV)
More informationPoultryTechnical NEWS. GenomChicks Advanced layer genetics using genomic breeding values. For further information, please contact us:
PoultryTechnical LOHMANN TIERZUCHT LOHMANN TIERZUCHT GmbH will continue to conduct comprehensive performance testing and is continuously investing in extending the testing capacities as well as looking
More informationThe first and only fully-integrated microarray instrument for hands-free array processing
The first and only fully-integrated microarray instrument for hands-free array processing GeneTitan Instrument Transform your lab with a GeneTitan Instrument and experience the unparalleled power of streamlining
More informationManaging genetic groups in single-step genomic evaluations applied on female fertility traits in Nordic Red Dairy cattle
Abstract Managing genetic groups in single-step genomic evaluations applied on female fertility traits in Nordic Red Dairy cattle K. Matilainen 1, M. Koivula 1, I. Strandén 1, G.P. Aamand 2 and E.A. Mäntysaari
More informationH3A - Genome-Wide Association testing SOP
H3A - Genome-Wide Association testing SOP Introduction File format Strand errors Sample quality control Marker quality control Batch effects Population stratification Association testing Replication Meta
More informationSNPs - GWAS - eqtls. Sebastian Schmeier
SNPs - GWAS - eqtls s.schmeier@gmail.com http://sschmeier.github.io/bioinf-workshop/ 17.08.2015 Overview Single nucleotide polymorphism (refresh) SNPs effect on genes (refresh) Genome-wide association
More informationSequencing Millions of Animals for Genomic Selection 2.0
Proceedings, 10 th World Congress of Genetics Applied to Livestock Production Sequencing Millions of Animals for Genomic Selection 2.0 J.M. Hickey 1, G. Gorjanc 1, M.A. Cleveland 2, A. Kranis 1,3, J. Jenko
More informationGenomic Selection Using Low-Density Marker Panels
Copyright Ó 2009 by the Genetics Society of America DOI: 10.1534/genetics.108.100289 Genomic Selection Using Low-Density Marker Panels D. Habier,*,,1 R. L. Fernando and J. C. M. Dekkers *Institute of Animal
More informationAccuracy and Training Population Design for Genomic Selection on Quantitative Traits in Elite North American Oats
Agronomy Publications Agronomy 7-2011 Accuracy and Training Population Design for Genomic Selection on Quantitative Traits in Elite North American Oats Franco G. Asoro Iowa State University Mark A. Newell
More information2/22/2012. Impact of Genomics on Dairy Cattle Breeding. Basics of the DNA molecule. Genomic data revolutionize dairy cattle breeding
Impact of Genomics on Dairy Cattle Breeding Bennet Cassell Virginia Tech 2012 VSFA/VA Tech Nutrition Cow College Genomic data revolutionize dairy cattle breeding Accuracy of selection prior to progeny
More informationThe Dimensionality of Genomic Information and Its Effect on Genomic Prediction
GENOMIC SELECTION The Dimensionality of Genomic Information and Its Effect on Genomic Prediction Ivan Pocrnic,*,1 Daniela A. L. Lourenco,* Yutaka Masuda,* Andres Legarra, and Ignacy Misztal* *Department
More informationOPTIMIZATION OF BREEDING SCHEMES USING GENOMIC PREDICTIONS AND SIMULATIONS
OPTIMIZATION OF BREEDING SCHEMES USING GENOMIC PREDICTIONS AND SIMULATIONS Sophie Bouchet, Stéphane Lemarie, Aline Fugeray-Scarbel, Jérôme Auzanneau, Gilles Charmet INRA GDEC unit : Genetic, Diversity
More informationStrategy for applying genome-wide selection in dairy cattle
J. Anim. Breed. Genet. ISSN 0931-2668 ORIGINAL ARTICLE Strategy for applying genome-wide selection in dairy cattle L.R. Schaeffer Department of Animal and Poultry Science, Centre for Genetic Improvement
More informationFundamentals of Genomic Selection
Fundamentals of Genomic Selection Jack Dekkers Animal Breeding & Genetics Department of Animal Science Iowa State University Past and Current Selection Strategies selection Black box of Genes Quantitative
More informationOptimal population value selection: A populationbased selection strategy for genomic selection
Graduate Theses and Dissertations Iowa State University Capstones, Theses and Dissertations 2016 Optimal population value selection: A populationbased selection strategy for genomic selection Matthew Daniel
More informationFruit and Nut Trees Genomics and Quantitative Genetics
Fruit and Nut Trees Genomics and Quantitative Genetics Jasper Rees Department of Biotechnology University of the Western Cape South Africa jrees@uwc.ac.za The Challenges of Tree Breeding Long breeding
More informationGenomic Selection using low-density marker panels
Genetics: Published Articles Ahead of Print, published on March 18, 2009 as 10.1534/genetics.108.100289 Genomic Selection using low-density marker panels D. Habier 1,2, R. L. Fernando 2 and J. C. M. Dekkers
More informationMarine Biotechnology and Aquaculture
Marine Biotechnology and Aquaculture The salmon aquaculture sector and new breeding technologies Ashie Norris. ERA-NET Marine biotechnology Oceans of opportunity! Seafood becoming more important in food
More informationBull Selection Strategies Using Genomic Estimated Breeding Values
R R Bull Selection Strategies Using Genomic Estimated Breeding Values Larry Schaeffer CGIL, University of Guelph ICAR-Interbull Meeting Niagara Falls, NY June 8, 2008 Understanding Cancer and Related Topics
More informationRoadmap: genotyping studies in the post-1kgp era. Alex Helm Product Manager Genotyping Applications
Illumina s GWAS Roadmap: next-generation genotyping studies in the post-1kgp era Alex Helm Product Manager Genotyping Applications 2010 Illumina, Inc. All rights reserved. Illumina, illuminadx, Solexa,
More informationBe-Breeder an application for analysis of genomic data in plant breeding
NOTE Be-Breeder an application for analysis of genomic data in plant breeding Filipe Inácio Matias 1*, Italo Stefanine Correa Granato 1, Gabriel Dequigiovanni 1 and Roberto Fritsche-Neto 1 Crop Breeding
More informationTSB Collaborative Research: Utilising i sequence data and genomics to improve novel carcass traits in beef cattle
TSB Collaborative Research: Utilising i sequence data and genomics to improve novel carcass traits in beef cattle Dr Mike Coffey SAC Animal Breeding Team 1 Why are we doing this project? 1 BRITISH LIMOUSIN
More informationImpact of Genotype Imputation on the Performance of GBLUP and Bayesian Methods for Genomic Prediction
Impact of Genotype Imputation on the Performance of GBLUP and Bayesian Methods for Genomic Prediction Liuhong Chen 1 *, Changxi Li 1,2, Mehdi Sargolzaei 3, Flavio Schenkel 4 * 1 Department of Agricultural,
More informationSupplementary material
Supplementary material Journal Name: Theoretical and Applied Genetics Evaluation of the utility of gene expression and metabolic information for genomic prediction in maize Zhigang Guo* 1, Michael M. Magwire*,
More informationGenetic evaluation using single-step genomic best linear unbiased predictor in American Angus 1
Published June 25, 2015 Genetic evaluation using single-step genomic best linear unbiased predictor in American Angus 1 D. A. L. Lourenco,* 2 S. Tsuruta,* B. O. Fragomeni,* Y. Masuda,* I. Aguilar, A. Legarra,
More informationAnswers to additional linkage problems.
Spring 2013 Biology 321 Answers to Assignment Set 8 Chapter 4 http://fire.biol.wwu.edu/trent/trent/iga_10e_sm_chapter_04.pdf Answers to additional linkage problems. Problem -1 In this cell, there two copies
More informationA journey: opportunities & challenges of melding genomics into U.S. sheep breeding programs
A journey: opportunities & challenges of melding genomics into U.S. sheep breeding programs Presenter: Dr. Ron Lewis, Department of Animal Science, University of Nebraska-Lincoln Host/Moderator: Dr. Jay
More informationMMAP Genomic Matrix Calculations
Last Update: 9/28/2014 MMAP Genomic Matrix Calculations MMAP has options to compute relationship matrices using genetic markers. The markers may be genotypes or dosages. Additive and dominant covariance
More informationGenome-wide association mapping using single-step GBLUP!!!!
Genome-wide association mapping using single-step GBLUP!!!! Ignacy'Misztal,'Joy'Wang'University!of!Georgia Ignacio'Aguilar,'INIA,!Uruguay! Andres'Legarra,!INRA,!France! Bill'Muir,!Purdue!University! Rohan'Fernando,!Iowa!State!!!'
More informationA strategy for multiple linkage disequilibrium mapping methods to validate additive QTL. Abstracts
Proceedings 59th ISI World Statistics Congress, 5-30 August 013, Hong Kong (Session CPS03) p.3947 A strategy for multiple linkage disequilibrium mapping methods to validate additive QTL Li Yi 1,4, Jong-Joo
More informationPackage xbreed. April 3, 2017
Package xbreed April 3, 2017 Title Genomic Simulation of Purebred and Crossbred Populations Version 1.0.1 Description Simulation of purebred and crossbred genomic data as well as pedigree and phenotypes
More informationConifer Translational Genomics Network Coordinated Agricultural Project
Conifer Translational Genomics Network Coordinated Agricultural Project Genomics in Tree Breeding and Forest Ecosystem Management ----- Module 11 Association Genetics Nicholas Wheeler & David Harry Oregon
More informationGenetics of dairy production
Genetics of dairy production E-learning course from ESA Charlotte DEZETTER ZBO101R11550 Table of contents I - Genetics of dairy production 3 1. Learning objectives... 3 2. Review of Mendelian genetics...
More informationRECOLAD. Introduction to the «atelier 1» Genetic approaches to improve adaptation to climate change in livestock
RECOLAD. Introduction to the «atelier 1» Genetic approaches to improve adaptation to climate change in livestock Ahmed El Beltagy (ahmed_elbeltagi@yahoo.com and D. Laloë (denis.laloe@jouy.inra.fr) Introduction
More informationUser s Guide Version 1.10 (Last update: July 12, 2013)
User s Guide Version 1.10 (Last update: July 12, 2013) Centre for Genetic Improvement of Livestock Department of Animal and Poultry Science University of Guelph Guelph, Canada Mehdi Sargolzaei and Flavio
More informationMapping and Mapping Populations
Mapping and Mapping Populations Types of mapping populations F 2 o Two F 1 individuals are intermated Backcross o Cross of a recurrent parent to a F 1 Recombinant Inbred Lines (RILs; F 2 -derived lines)
More informationValidation and utilization of genetic tests in dog breeding
Validation and utilization of genetic tests in dog breeding Validation and Utilization of Genetic Tests in Dog Breeding Jerold S Bell, DVM Tufts Cummings School of Veterinary Medicine, USA LOOK AT YOUR
More informationOptimum Hybrid Maize Breeding Strategies Using Doubled Haploids
Optimum Hybrid Maize Breeding Strategies Using Doubled Haploids Andrés Gordillo 1,2 and Hartwig H. Geiger 1 1 University of Hohenheim Institute of Plant Breeding, Seed Science, and Population Genetics
More informationGenomic prediction for Nordic Red Cattle using one-step and selection index blending
J. Dairy Sci. 95 :909 917 doi: 10.3168/jds.011-4804 American Dairy Science Association, 01. Open access under CC BY-NC-ND license. Genomic prediction for Nordic Red Cattle using one-step and selection
More informationGenome-Wide Association Studies (GWAS): Computational Them
Genome-Wide Association Studies (GWAS): Computational Themes and Caveats October 14, 2014 Many issues in Genomewide Association Studies We show that even for the simplest analysis, there is little consensus
More informationRelatedness and Genotype-by-environment Interaction Affect Prediction Accuracies in
Relatedness and Genotype-by-environment Interaction Affect Prediction Accuracies in Genomic Selection: a Study in Cassava Delphine Ly, Martha Hamblin,* Ismail Rabbi, Gedil Melaku, Moshood Bakare, Hugh
More informationTraining population selection for (breeding value) prediction
Akdemir RESEARCH arxiv:1401.7953v2 [stat.me] 21 May 2014 Training population selection for (breeding value) prediction Deniz Akdemir Correspondence: da346@cornell.edu Department of Plant Breeding & Genetics,
More informationMelding genomics and quantitative genetics in sheep breeding programs: opportunities and limits
Melding genomics and quantitative genetics in sheep breeding programs: opportunities and limits Ron Lewis Genetics Stakeholders Committee ASI Convention, Scottsdale, AZ Jan. 28, 2016 My talk Genomics road
More informationExperimental Design and Sample Size Requirement for QTL Mapping
Experimental Design and Sample Size Requirement for QTL Mapping Zhao-Bang Zeng Bioinformatics Research Center Departments of Statistics and Genetics North Carolina State University zeng@stat.ncsu.edu 1
More informationAssociation Mapping in Plants PLSC 731 Plant Molecular Genetics Phil McClean April, 2010
Association Mapping in Plants PLSC 731 Plant Molecular Genetics Phil McClean April, 2010 Traditional QTL approach Uses standard bi-parental mapping populations o F2 or RI These have a limited number of
More informationExploiting genomic information on purebred and crossbred pigs
Exploiting genomic information on purebred and crossbred pigs ISSN: 1652-6880 ISBN (print version): 978-91-576-8438-7 ISBN (electronic version): 978-91-576-8439-4 ISBN: 678-94-6257-601-8 Thesis committee
More informationPrediction of clinical mastitis outcomes within and between environments using whole-genome markers
J. Dairy Sci. 96 :3986 3993 http://dx.doi.org/ 10.3168/jds.2012-6133 American Dairy Science Association, 2013. Prediction of clinical mastitis outcomes within and between environments using whole-genome
More informationComparison of genomic predictions using genomic relationship matrices built with different weighting factors to account for locus-specific variances
J. Dairy Sci. 97 :6547 6559 http://dx.doi.org/ 0.368/jds.04-80 American Dairy Science Association, 04. Open access under CC BY-NC-ND license. Comparison of genomic predictions using genomic relationship
More informationIllumina s GWAS Roadmap: next-generation genotyping studies in the post-1kgp era
Illumina s GWAS Roadmap: next-generation genotyping studies in the post-1kgp era Anthony Green Sr. Genotyping Sales Specialist North America 2010 Illumina, Inc. All rights reserved. Illumina, illuminadx,
More informationThe powerful new genomic selection tool. Built By Angus Genetics Inc.
The powerful new genomic selection tool Built By Angus Genetics Inc. For Angus. by angus. Angus GS sets the standard for genetic testing in Angus cattle. More power More accuracy More value As a new genomic
More informationEdinburgh Research Explorer
Edinburgh Research Explorer Genetic prediction of complex traits: integrating infinitesimal and marked genetic effects Citation for published version: Carré, C, Gamboa, F, Cros, D, Hickey, JM, Gorjanc,
More informationAssociation Mapping in Wheat: Issues and Trends
Association Mapping in Wheat: Issues and Trends Dr. Pawan L. Kulwal Mahatma Phule Agricultural University, Rahuri-413 722 (MS), India Contents Status of AM studies in wheat Comparison with other important
More informationCompression distance can discriminate animals by genetic profile, build relationship matrices and estimate breeding values
Compression distance can discriminate animals by genetic profile, build relationship matrices and estimate breeding values Nicholas J. Hudson, Laercio Porto-Neto, James W. Kijas, Antonio Reverter To cite
More informationGenome-wide association studies (GWAS) Part 1
Genome-wide association studies (GWAS) Part 1 Matti Pirinen FIMM, University of Helsinki 03.12.2013, Kumpula Campus FIMM - Institiute for Molecular Medicine Finland www.fimm.fi Published Genome-Wide Associations
More informationS G. Design and Analysis of Genetic Association Studies. ection. tatistical. enetics
S G ection ON tatistical enetics Design and Analysis of Genetic Association Studies Hemant K Tiwari, Ph.D. Professor & Head Section on Statistical Genetics Department of Biostatistics School of Public
More informationPathway approach for candidate gene identification and introduction to metabolic pathway databases.
Marker Assisted Selection in Tomato Pathway approach for candidate gene identification and introduction to metabolic pathway databases. Identification of polymorphisms in data-based sequences MAS forward
More informationSupplementary figures, tables and note for Genome-based establishment of. a high-yielding heterotic pattern for hybrid wheat breeding
Supplementary figures, tables and note for Genome-based establishment of a high-yielding heterotic pattern for hybrid wheat breeding Yusheng Zhao a, Zuo Li a, Guozheng Liu a, Yong Jiang a, Hans P. Maurer
More informationGenomic Selection in Tomato Breeding
Genomic Selection in Tomato Breeding SolCAP Workshop, Tomato Breeders Round-Table, Ithaca, NY David M. Francis, S.C. Sim, Heather Merk The Ohio State University Allen Van Deynze, U.C. Davis C. Robin Buell,
More informationSingle-step genomic evaluation for fertility in Nordic Red dairy cattle
Single-step genomic evaluation for fertility in Nordic Red dairy cattle Kaarina Matilainen, Minna Koivula, Ismo Strandén, ert P. Aamand and Esa A. Mäntysaari Background Female fertility genetic evaluations
More informationPlant Breeding with Genomic Selection: Gain per Unit Time and Cost
RESEARCH Plant Breeding with Genomic Selection: Gain per Unit Time and Cost Elliot L. Heffner, Aaron J. Lorenz, Jean-Luc Jannink, and Mark E. Sorrells* ABSTRACT Advancements in genotyping are rapidly decreasing
More informationUF Station Report S
UF Station Report S-1064 2015-2016 M. A. Elzo 1, D. D. Johnson 1, R. Mateescu 1, D. O. Rae 2, T. Scheffler 1, J. Scheffler 1, K. C. Jeong 1, C. D. Nelson 1, J. M. Gonzalez 3, J. G. Wasdin 1, M. D. Driver
More informationPersonal Genomics Platform White Paper Last Updated November 15, Executive Summary
Executive Summary Helix is a personal genomics platform company with a simple but powerful mission: to empower every person to improve their life through DNA. Our platform includes saliva sample collection,
More informationStatistical analyses of milk traits in the New Zealand dairy cattle population
Graduate Theses and Dissertations Graduate College 2014 Statistical analyses of milk traits in the New Zealand dairy cattle population Melanie Kate Hayr Iowa State University Follow this and additional
More informationBy the end of this lecture you should be able to explain: Some of the principles underlying the statistical analysis of QTLs
(3) QTL and GWAS methods By the end of this lecture you should be able to explain: Some of the principles underlying the statistical analysis of QTLs Under what conditions particular methods are suitable
More informationApplying Genotyping by Sequencing (GBS) to Corn Genetics and Breeding. Peter Bradbury USDA/Cornell University
Applying Genotyping by Sequencing (GBS) to Corn Genetics and Breeding Peter Bradbury USDA/Cornell University Genotyping by sequencing (GBS) makes use of high through-put, short-read sequencing to provide
More informationThe 150+ Tomato Genome (re-)sequence Project; Lessons Learned and Potential
The 150+ Tomato Genome (re-)sequence Project; Lessons Learned and Potential Applications Richard Finkers Researcher Plant Breeding, Wageningen UR Plant Breeding, P.O. Box 16, 6700 AA, Wageningen, The Netherlands,
More informationGenomic selection +Sexed semen +Precision farming = New deal for dairy farmers?
Genomic selection +Sexed semen +Precision farming = New deal for dairy farmers? Laurent Journaux General secretary of France Génétique Elevage SIA souvenir Introduction After a long period of stability
More informationWhat do I need to know about Genomically Enhanced EPD Values? Lisa A. Kriese Anderson Extension Animal Scientist Auburn University.
What do I need to know about Genomically Enhanced EPD Values? Lisa A. Kriese Anderson Extension Animal Scientist Auburn University Take Home Message Genomically enhanced EPD values are used exactly like
More informationCassava Cultivars for Gari Production
www.iita.org I www.cgiar.org Cassava Cultivars for Gari Production Peter Kulakow, Ismail Rabbi, Elizabeth Parkes, Chiedozie Egesi, Tahirou Abdoulaye GCP21 Gari Revolution Workshop 4 October 2016 Contact:
More informationMapping and selection of bacterial spot resistance in complex populations. David Francis, Sung-Chur Sim, Hui Wang, Matt Robbins, Wencai Yang.
Mapping and selection of bacterial spot resistance in complex populations. David Francis, Sung-Chur Sim, Hui Wang, Matt Robbins, Wencai Yang. Mapping and selection of bacterial spot resistance in complex
More informationExperiences in the use of genomics in ruminants in Uruguay
Experiences in the use of genomics in ruminants in Uruguay Ignacio Aguilar Instituto Nacional de Investigación Agropecuaria Uruguay ICAR 2016, Puerto Varas, Chile INIA Research Team Olga Ravagnolo Elly
More informationQTL ANALYSIS OF EMAMECTIN BENZOATE SUSCEPTIBILITY IN THE SALMON LOUSE Lepeophtheirus salmonis
QTL ANALYSIS OF EMAMECTIN BENZOATE SUSCEPTIBILITY IN THE SALMON LOUSE Lepeophtheirus salmonis Dr Greta Carmona-Antoñanzas 1 mm Pest Control Globally, the control of invertebrate disease vectors, crop-infesting
More informationNing Yang 1., Yanli Lu 1,2., Xiaohong Yang 3, Juan Huang 1, Yang Zhou 1, Farhan Ali 1, Weiwei Wen 1, Jie Liu 1, Jiansheng Li 3, Jianbing Yan 1 *
Genome Wide Association Studies Using a New Nonparametric Model Reveal the Genetic Architecture of 17 Agronomic Traits in an Enlarged Maize Association Panel Ning Yang 1., Yanli Lu 1,2., Xiaohong Yang
More information1/21/ Exploring Mendelian Genetics. What is the principle of independent assortment? Independent Assortment. Biology.
Biology 1 of 31 11-3 Exploring Mendelian Exploring Genetics Mendelian Genetics 2 of 31 What is the principle of independent assortment? 3 of 31 1 The principle of independent assortment states that genes
More informationWhole-Genome Genetic Data Simulation Based on Mutation-Drift Equilibrium Model
2012 4th International Conference on Computer Modeling and Simulation (ICCMS 2012) IPCSIT vol.22 (2012) (2012) IACSIT Press, Singapore Whole-Genome Genetic Data Simulation Based on Mutation-Drift Equilibrium
More informationPlant Science 446/546. Final Examination May 16, 2002
Plant Science 446/546 Final Examination May 16, 2002 Ag.Sci. Room 339 10:00am to 12:00 noon Name : Answer all 16 questions A total of 200 points are available A bonus question is available for an extra
More informationSupplementary Note: Detecting population structure in rare variant data
Supplementary Note: Detecting population structure in rare variant data Inferring ancestry from genetic data is a common problem in both population and medical genetic studies, and many methods exist to
More informationEdinburgh Research Explorer
Edinburgh Research Explorer Predictive performance of genomic selection methods for carcass traits in Hanwoo beef cattle Citation for published version: Mehrban, H, Lee, DH, Moradi, MH, IlCho, C, Naserkheil,
More informationBiology Genetics Practice Quiz
Biology Genetics Practice Quiz Multiple Choice Identify the choice that best completes the statement or answers the question. 1. The table above shows information related to blood types. What genotype(s)
More informationZahirul Talukder 1, Yunming Long 1, Thomas Gulya 2, Charles Block 3, Gerald Seiler 2, Lili Qi 2. Department of Plant Sciences, NDSU
Sclerotinia stalk rot resistance in sunflower: Introgression of resistance from wild annual species and QTL mapping of resistance in cultivated sunflower Zahirul Talukder 1, Yunming Long 1, Thomas Gulya
More informationEvaluation of genomic selection for replacement strategies using selection index theory
J. Dairy Sci. 98:6499 6509 http://dx.doi.org/10.3168/jds.2014-9192 American Dairy Science Association, 2015. Evaluation of genomic selection for replacement strategies using selection index theory M. P.
More information