The use of shared haplotype length information for pedigree reconstruction in asexually propagated outbreeding crops, demonstrated for apple and sweet cherry

Integration of Infinium and Axiom SNP array data in the outcrossing species Malus × domestica and causes for seemingly incompatible calls

(2021) Nicholas P. Howard et al.   BMC GENOMICS

Using whole-genome SNP data to reconstruct a large multi-generation pedigree in apple germplasm

(2020) Hélène Muranty et al.   BMC PLANT BIOLOGY

Genetic Status of the Swedish Central collection of heirloom apple cultivars

(2020) Jonas Skytte af Sätra et al.   SCIENTIA HORTICULTURAE

DNA-based genealogy reconstruction of Nebbiolo, Barbera and other ancient grapevine cultivars from northwestern Italy

(2020) Stefano Raimondi et al.   Scientific Reports

Elucidating the genetic background of the early-flowering transgenic genetic stock T1190 with a high-density SNP array

(2019) Feixiong Luo et al.   MOLECULAR BREEDING

High-quality, genome-wide SNP genotypic data for pedigreed germplasm of the diploid outbreeding species apple, peach, and sweet cherry through a common workflow

(2019) Stijn Vanderzande et al.   PLoS One

Forensic genealogy—A comparison of methods to infer distant relationships based on dense SNP data

(2019) Daniel Kling et al.   Forensic Science International-Genetics

Extended diversity analysis of cultivated grapevine Vitis vinifera with 10K genome-wide SNPs

(2018) Valérie Laucou et al.   PLoS One

Species identification, genetic diversity and population structure of sweet cherry commercial cultivars assessed by SSRs and the gametophytic self-incompatibility locus

(2018) Congli Liu et al.   SCIENTIA HORTICULTURAE

SNP Data Quality Control in a National Beef and Dairy Cattle System and Highly Accurate SNP Based Parentage Verification and Identification

(2018) Matthew C. McClure et al.   Frontiers in Genetics

An integrated approach for increasing breeding efficiency in apple and peach in Europe

(2018) Francois Laurens et al.   Horticulture Research

Population structure, relatedness and ploidy levels in an apple gene bank revealed through genotyping-by-sequencing

(2018) Bjarne Larsen et al.   PLoS One

The future of parentage analysis: from microsatellites to SNPs and beyond

(2018) Sarah P. Flanagan et al.   MOLECULAR ECOLOGY

Prediction of genetic value for sweet cherry fruit maturity among environments using a 6K SNP array

(2018) Craig M. Hardner et al.   Horticulture Research

On the use of dense sets of SNP markers and their potential in relationship inference

(2018) Daniel Kling   Forensic Science International-Genetics

Genetic structure of a QTL hotspot on chromosome 2 in sweet cherry indicates positive selection for favorable haplotypes

(2017) Lichun Cai et al.   MOLECULAR BREEDING

Pedigree reconstruction from SNP data: parentage assignment, sibship clustering and beyond

(2017) Jisca Huisman   Molecular Ecology Resources

Genetic diversity, population structure, and linkage disequilibrium of elite and local apple accessions from Belgium using the IRSC array

(2017) Stijn Vanderzande et al.   Tree Genetics & Genomes

The iSelect 9 K SNP analysis revealed polyploidization induced revolutionary changes and intense human selection causing strong haplotype blocks in wheat

(2017) Chenyang Hao et al.   Scientific Reports

Elucidation of the ‘Honeycrisp’ pedigree through haplotype analysis with a multi-family integrated SNP linkage map and a large apple (Malus×domestica) pedigree-connected SNP data set

(2017) Nicholas P Howard et al.   Horticulture Research

Exploration of genetic architecture through sib-ship reconstruction in advanced breeding population of Eucalyptus nitens

(2017) Jaroslav Klápště et al.   PLoS One

PADRE: Pedigree-Aware Distant-Relationship Estimation

(2016) Jeffrey Staples et al.   AMERICAN JOURNAL OF HUMAN GENETICS

High-throughput 18K SNP array to assess genetic variability of the main grapevine cultivars from Sicily

(2016) Francesco Mercati et al.   Tree Genetics & Genomes

A high-density, multi-parental SNP genetic map on apple validates a new mapping approach for outcrossing species

(2016) Erica A Di Pierro et al.   Horticulture Research

SNP development for genetic diversity analysis in apricot

(2015) Juan Alfonso Salazar et al.   Tree Genetics & Genomes

The Effects of Both Recent and Long-Term Selection and Genetic Drift Are Readily Evident in North American Barley Breeding Populations

(2015) Ana M. Poets et al.   G3-Genes Genomes Genetics

A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes

(2015) Katherine W Jordan et al.   GENOME BIOLOGY

PRIMUS: Rapid Reconstruction of Pedigrees from Genome-wide Estimates of Identity by Descent

(2014) Jeffrey Staples et al.   AMERICAN JOURNAL OF HUMAN GENETICS

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 QTL analyses using pedigreed families of an outcrossing species, with application to fruit firmness in apple

(2014) M. C. A. M. Bink et al.   THEORETICAL AND APPLIED GENETICS

Relationship Estimation from Whole-Genome Sequence Data

(2014) Hong Li et al.   PLoS Genetics

Confirmation and discovery of maternal grandsires and great-grandsires in dairy cattle

(2013) P.M. VanRaden et al.   JOURNAL OF DAIRY SCIENCE

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

‘Schmidt's Antonovka’ is identical to ‘Common Antonovka’, an apple cultivar widely used in Russia in breeding for biotic and abiotic stresses

(2013) Anna Pikunova et al.   Tree Genetics & Genomes

Identification of Pedigree Relationship from Genome Sharing

(2013) William G. Hill et al.   G3-Genes Genomes Genetics

Development and Evaluation of a Genome-Wide 6K SNP Array for Diploid Sweet Cherry and Tetraploid Sour Cherry

(2012) Cameron Peace et al.   PLoS One

Genetic structure and domestication history of the grape

(2011) Sean Myles et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Analysis of genetic variation in Ashkenazi Jews by high density SNP genotyping

(2008) Adam B Olshen et al.   BMC GENETICS

Detection of sharing by descent, long-range phasing and haplotype imputation

(2008) Augustine Kong et al.   NATURE GENETICS