Unlocking the diversity of genebanks: whole-genome marker analysis of Swiss bread wheat and spelt

An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations

(2017) Bernardo J. Clavijo et al.   GENOME RESEARCH

vcfr: a package to manipulate and visualize variant call format data in R

(2016) Brian J. Knaus et al.   Molecular Ecology Resources

High-density molecular characterization and association mapping in Ethiopian durum wheat landraces reveals high diversity and potential for wheat breeding

(2016) Dejene Kassahun Mengistu et al.   PLANT BIOTECHNOLOGY JOURNAL

Evaluation of LD decay and various LD-decay estimators in simulated and SNP-array data of tetraploid potato

(2016) Peter G. Vos et al.   THEORETICAL AND APPLIED GENETICS

Landraces from mountainous regions of Switzerland are sources of important genes for stem rust resistance in barley

(2016) Brian J. Steffenson et al.   Alpine Botany

Ancestral QTL Alleles from Wild Emmer Wheat Improve Drought Resistance and Productivity in Modern Wheat Cultivars

(2016) Lianne Merchuk-Ovnat et al.   Frontiers in Plant Science

High-throughput genotyping for species identification and diversity assessment in germplasm collections

(2015) Annaliese S. Mason et al.   Molecular Ecology Resources

Using Hamming Distance as Information for SNP-Sets Clustering and Testing in Disease Association Studies

(2015) Charlotte Wang et al.   PLoS One

Characterization of polyploid wheat genomic diversity using a high-density 90 000 single nucleotide polymorphism array

(2014) Shichen Wang et al.   PLANT BIOTECHNOLOGY JOURNAL

TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline

(2014) Jeffrey C. Glaubitz et al.   PLoS One

Genome-wide association study for grain yield and related traits in an elite spring wheat population grown in temperate irrigated environments

(2014) Sivakumar Sukumaran et al.   THEORETICAL AND APPLIED GENETICS

Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction

(2014) Zhian N. Kamvar et al.   PeerJ

RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling

(2013) B. Arnold et al.   MOLECULAR ECOLOGY

Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars

(2013) C. R. Cavanagh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomics of gene banks: A case study in rice

(2012) Susan R. McCouch et al.   AMERICAN JOURNAL OF BOTANY

NGS technologies for analyzing germplasm diversity in genebanks*

(2012) B. Kilian et al.   Briefings in Functional Genomics

The Origin of Spelt and Free-Threshing Hexaploid Wheat

(2012) J. Dvorak et al.   JOURNAL OF HEREDITY

Characterization and mapping of Lr65 in spelt wheat ‘Altgold Rotkorn’

(2012) Volker Mohler et al.   PLANT BREEDING

Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two-Enzyme Genotyping-by-Sequencing Approach

(2012) Jesse A. Poland et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

(2011) Thibaut Jombart et al.   BIOINFORMATICS

Population- and genome-specific patterns of linkage disequilibrium and SNP variation in spring and winter wheat (Triticum aestivum L.)

(2011) Shiaoman Chao et al.   BMC GENOMICS

The NumPy Array: A Structure for Efficient Numerical Computation

(2011) Stéfan van der Walt et al.   COMPUTING IN SCIENCE & ENGINEERING

A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species

(2011) Robert J. Elshire et al.   PLoS One

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes

(2010) Yun Li et al.   GENETIC EPIDEMIOLOGY

Ascertainment Biases in SNP Chips Affect Measures of Population Divergence

(2010) A. Albrechtsen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Variance component model to account for sample structure in genome-wide association studies

(2010) Hyun Min Kang et al.   NATURE GENETICS

Use of synthetic hexaploid wheat to increase diversity for CIMMYT bread wheat improvement

(2008) S. Dreisigacker et al.  

Marker-assisted selection: an approach for precision plant breeding in the twenty-first century

(2007) B. C.Y Collard et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Cereal breeding takes a walk on the wild side

(2007) Catherine Feuillet et al.   TRENDS IN GENETICS