SNP and Haplotype-Based Genomic Selection of Quantitative Traits in Eucalyptus globulus

Bayesian Mapping Reveals Large-Effect Pleiotropic QTLs for Wood Density and Slenderness Index in 17-Year-Old Trees of Eucalyptus cladocalyx

(2019) Camilo Valenzuela et al.   Forests

Genome-wide haplotype-based association analysis of key traits of plant lodging and architecture of maize identifies major determinants for leaf angle: hapLA4

(2019) Carlos Maldonado et al.   PLoS One

Multi-trait multi-environment models in the genetic selection of segregating soybean progeny

(2019) Leonardo Volpato et al.   PLoS One

Bayesian analysis of growth, stem straightness and branching quality in full-sib families of Eucalyptus globulus

(2019) Freddy Mora et al.   BRAGANTIA

Genetic Variation and Trait Correlations for Fruit Weight, Firmness and Color Parameters in Wild Accessions of Fragaria chiloensis

(2019) Freddy Mora et al.   Agronomy-Basel

Thirteen years under arid conditions: exploring marker-trait associations in Eucalyptus cladocalyx for complex traits related to flowering, stem form and growth

(2018) Osvin Arriagada et al.   BREEDING SCIENCE

Efficiency of genomic prediction across two Eucalyptus nitens seed orchards with different selection histories

(2018) Mari Suontama et al.   HEREDITY

Multi-trait multi-environment Bayesian model reveals G x E interaction for nitrogen use efficiency components in tropical maize

(2018) Lívia Gomes Torres et al.   PLoS One

Molecular marker assisted breeding and genome composition analysis of Zhengmai 7698, an elite winter wheat cultivar

(2018) Chun-xin Li et al.   Scientific Reports

Breeding-assisted genomics: Applying meta-GWAS for milling and baking quality in CIMMYT wheat breeding program

(2018) Sarah D. Battenfield et al.   PLoS One

Genomic Prediction of Growth and Stem Quality Traits in Eucalyptus globulus Labill. at Its Southernmost Distribution Limit in Chile

(2018) Paulina Ballesta et al.   Forests

Genotype Imputation in Winter Wheat Using First-Generation Haplotype Map SNPs Improves Genome-Wide Association Mapping and Genomic Prediction of Traits

(2018) Moses Nyine et al.   G3-Genes Genomes Genetics

Assessing the expected response to genomic selection of individuals and families in Eucalyptus breeding with an additive-dominant model

(2017) R T Resende et al.   HEREDITY

Short communication: The combined use of linkage disequilibrium–based haploblocks and allele frequency–based haplotype selection methods enhances genomic evaluation accuracy in dairy cattle

(2017) Dávid Jónás et al.   JOURNAL OF DAIRY SCIENCE

Crop Breeding Chips and Genotyping Platforms: Progress, Challenges, and Perspectives

(2017) Awais Rasheed et al.   Molecular Plant

Genomic predictions of breeding values in a cloned Eucalyptus globulus population in Chile

(2017) Ricardo Durán et al.   Tree Genetics & Genomes

Prospects for Genomic Selection in Cassava Breeding

(2017) Marnin D. Wolfe et al.   Plant Genome

Development and Evaluation of a Barley 50k iSelect SNP Array

(2017) Micha M. Bayer et al.   Frontiers in Plant Science

A Genome-Wide Association Study for Agronomic Traits in Soybean Using SNP Markers and SNP-Based Haplotype Analysis

(2017) Rodrigo Iván Contreras-Soto et al.   PLoS One

Linkage and Association Mapping for Two Major Traits Used in the Maritime Pine Breeding Program: Height Growth and Stem Straightness

(2016) Jérôme Bartholomé et al.   PLoS One

X-ray computed tomography to decipher the genetic architecture of tree branching traits: oak as a case study

(2016) Jialin Song et al.   Tree Genetics & Genomes

Genome-Wide Association Study Provides Insight into the Genetic Control of Plant Height in Rapeseed (Brassica napus L.)

(2016) Chengming Sun et al.   Frontiers in Plant Science

SNP-Based QTL Mapping of 15 Complex Traits in Barley under Rain-Fed and Well-Watered Conditions by a Mixed Modeling Approach

(2016) Freddy Mora et al.   Frontiers in Plant Science

Genome-wide Diversity and Association Mapping for Capsaicinoids and Fruit Weight in Capsicum annuum L

(2016) Padma Nimmakayala et al.   Scientific Reports

LDlink: a web-based application for exploring population-specific haplotype structure and linking correlated alleles of possible functional variants: Fig. 1.

(2015) Mitchell J. Machiela et al.   BIOINFORMATICS

Ridge, Lasso and Bayesian additive-dominance genomic models

(2015) Camila Ferreira Azevedo et al.   BMC GENETICS

A flexible multi-species genome-wide 60K SNP chip developed from pooled resequencing of 240Eucalyptustree genomes across 12 species

(2015) Orzenil B. Silva-Junior et al.   NEW PHYTOLOGIST

QTL detection for growth and form traits in three full-sib pedigrees of Pinus elliottii var. elliottii × P. caribaea var. hondurensis hybrids

(2015) Huixiao Yang et al.   Tree Genetics & Genomes

Genomic prediction of genetic merit using LD-based haplotypes in the Nordic Holstein population

(2015) Beatriz CD Cuyabano et al.   BMC GENOMICS

MCMC Methods for Multi-Response Generalized Linear Mixed Models: TheMCMCglmmRPackage

(2015) Jarrod D. Hadfield   Journal of Statistical Software

Genotyping by sequencing for genomic prediction in a soybean breeding population

(2014) Diego Jarquín et al.   BMC GENOMICS

Genome-Wide Regression and Prediction with the BGLR Statistical Package

(2014) P. Perez et al.   GENETICS

Accuracy of genomic selection models in a large population of open-pollinated families in white spruce

(2014) J Beaulieu et al.   HEREDITY

Supervised independent component analysis as an alternative method for genomic selection in pigs

(2014) C.F. Azevedo et al.   JOURNAL OF ANIMAL BREEDING AND GENETICS

Ultra-dense genetic map of durum wheat × wild emmer wheat developed using the 90K iSelect SNP genotyping assay

(2014) Raz Avni et al.   MOLECULAR BREEDING

The genome of Eucalyptus grandis

(2014) Alexander A. Myburg et al.   NATURE

Development and Validation of a 20K Single Nucleotide Polymorphism (SNP) Whole Genome Genotyping Array for Apple (Malus × domestica Borkh)

(2014) Luca Bianco et al.   PLoS One

Bayesian estimation of genetic parameters for growth, stem straightness, and survival in Eucalyptus globulus on an Andean Foothill site

(2014) Freddy Mora et al.   Tree Genetics & Genomes

Association mapping for wood quality and growth traits in Eucalyptus globulus ssp. globulus Labill identifies nine stable marker-trait associations for seven traits

(2014) Saravanan Thavamanikumar et al.   Tree Genetics & Genomes

Assessing genetic variation to improve stem straightness in Eucalyptus globulus

(2013) David P. Blackburn et al.   ANNALS OF FOREST SCIENCE

The significance of single nucleotide polymorphisms (SNPs) in Eucalyptus globulus breeding programs

(2013) Saravanan Thavamanikumar et al.   AUSTRALIAN FORESTRY

Priors in Whole-Genome Regression: The Bayesian Alphabet Returns

(2013) D. Gianola   GENETICS

A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding

(2013) Haodong Chen et al.   Molecular Plant

Development and Evaluation of SoySNP50K, a High-Density Genotyping Array for Soybean

(2013) Qijian Song et al.   PLoS One

Impacts of Population Structure and Analytical Models in Genome-Wide Association Studies of Complex Traits in Forest Trees: A Case Study in Eucalyptus globulus

(2013) Eduardo P. Cappa et al.   PLoS One

Integrating genome annotation and QTL position to identify candidate genes for productivity, architecture and water-use efficiency in Populus spp

(2012) Romain Monclus et al.   BMC PLANT BIOLOGY

Genomic selection for growth and wood quality in Eucalyptus: capturing the missing heritability and accelerating breeding for complex traits in forest trees

(2012) Marcos D. V. Resende et al.   NEW PHYTOLOGIST

Correction: Development and Evaluation of a 9K SNP Array for Peach by Internationally Coordinated SNP Detection and Validation in Breeding Germplasm

(2012) Ignazio Verde et al.   PLoS One

Genomic selection in French dairy cattle

(2012) D. Boichard et al.   Animal Production Science

Comparison Between Linear and Non-parametric Regression Models for Genome-Enabled Prediction in Wheat

(2012) Paulino Pérez-Rodríguez et al.   G3-Genes Genomes Genetics

Extension of the bayesian alphabet for genomic selection

(2011) David Habier et al.   BMC BIOINFORMATICS

Genetic analysis of Eucalyptus globulus diameter, straightness, branch size, and forking in Western Australia

(2011) A.N. Callister et al.   CANADIAN JOURNAL OF FOREST RESEARCH

Genomic breeding value estimation using genetic markers, inferred ancestral haplotypes, and the genomic relationship matrix

(2011) A.P.W. de Roos et al.   JOURNAL OF DAIRY SCIENCE

Beyond Missing Heritability: Prediction of Complex Traits

(2011) Robert Makowsky et al.   PLoS Genetics

Genetic variation and parental performance under inbreeding for growth in Eucalyptus globulus

(2010) João Costa e Silva et al.   ANNALS OF FOREST SCIENCE

Improved Lasso for genomic selection

(2010) ANDRÉS LEGARRA et al.   Genetics Research

Nucleotide diversity and linkage disequilibrium of nine genes with putative effects on flowering time in perennial ryegrass (Lolium perenne L.)

(2010) Alice Fiil et al.   PLANT SCIENCE

Genomic-Enabled Prediction Based on Molecular Markers and Pedigree Using the Bayesian Linear Regression Package in R

(2010) Paulino Pérez et al.   Plant Genome

Accuracy of Genomic Selection Using Different Methods to Define Haplotypes

(2008) M. P. L. Calus et al.   GENETICS

Efficient Methods to Compute Genomic Predictions

(2008) P.M. VanRaden   JOURNAL OF DAIRY SCIENCE