List of works - Hendrik-Jan Megens

A SNP based linkage map of the turkey genome reveals multiple intrachromosomal rearrangements between the turkey and chicken genomes

scientific article

A high density recombination map of the pig reveals a correlation between sex-specific recombination and GC content.

scientific article

A high-density SNP-based linkage map of the chicken genome reveals sequence features correlated with recombination rate

scientific article published on 16 December 2008

A tree of geese: A phylogenomic perspective on the evolutionary history of True Geese

scientific article

Accuracy of genomic prediction using imputed whole-genome sequence data in white layers.

scientific article

Adaptive Evolution of Toll-Like Receptors (TLRs) in the Family Suidae

scientific article published on 20 April 2015

Analyses of pig genomes provide insight into porcine demography and evolution

scientific article

Application of massive parallel sequencing to whole genome SNP discovery in the porcine genome.

scientific article published on 12 August 2009

Artificial selection on introduced Asian haplotypes shaped the genetic architecture in European commercial pigs

article

Atlantic salmon eggs favour sperm in competition that have similar major histocompatibility alleles

scientific article

Balancing selection on a recessive lethal deletion with pleiotropic effects on two neighboring genes in the porcine genome

article

Biodiversity of pig breeds from China and Europe estimated from pooled DNA samples: differences in microsatellite variation between two areas of domestication

scientific article

Comparison of linkage disequilibrium and haplotype diversity on macro- and microchromosomes in chicken

scientific article

Conservation genomic analysis of domestic and wild pig populations from the Iberian Peninsula

scientific article

Copy number variation in the speciation of pigs: a possible prominent role for olfactory receptors

scientific article published on 22 April 2015

Correction to: Genome-wide SNP data unveils the globalization of domesticated pigs

scientific article published on 04 June 2020

Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology

scientific article

Development of a genetic tool for product regulation in the diverse British pig breed market

scientific article

Dissecting structural and nucleotide genome-wide variation in inbred Iberian pigs

scientific article

Domesticated species form a treasure-trove for molecular characterization of Mendelian traits by exploiting the specific genetic structure of these species in across-breed genome wide association studies.

scientific article published on 7 March 2012

East Asian contributions to Dutch traditional and western commercial chickens inferred from mtDNA analysis.

scientific article published on 10 December 2010

Evidence for adaptation of porcine Toll-like receptors.

scientific article published on 23 December 2015

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes

scientific article

Evolution of Tibetan wild boars

scientific article

Evolutionary dynamics of copy number variation in pig genomes in the context of adaptation and domestication

scientific article

Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae.

scientific article published on 9 February 2016

Evolutionary signals of selection on cognition from the great tit genome and methylome.

scientific article published on 25 January 2016

Extent of linkage disequilibrium in chicken

scientific article published on 01 January 2007

Farm-by-farm analysis of microsatellite, mtDNA and SNP genotype data reveals inbreeding and crossbreeding as threats to the survival of a native Spanish pig breed

scientific article

Gene expression in chicken reveals correlation with structural genomic features and conserved patterns of transcription in the terrestrial vertebrates

scientific article

Genome sequencing reveals fine scale diversification and reticulation history during speciation in Sus

scientific article (publication date: 2013)

Genome-wide SNP data unveils the globalization of domesticated pigs. ⬇️

scientific article published on 21 September 2017

Genome-wide assessment of worldwide chicken SNP genetic diversity indicates significant absence of rare alleles in commercial breeds.

scientific article

Genome-wide candidate regions for selective sweeps revealed through massive parallel sequencing of DNA across ten turkey populations

scientific article

Genome-wide footprints of pig domestication and selection revealed through massive parallel sequencing of pooled DNA.

scientific article

Genome-wide single nucleotide polymorphism analysis reveals recent genetic introgression from domestic pigs into Northwest European wild boar populations

scientific article

Genomic analysis reveals selection for Asian genes in European pigs following human-mediated introgression

scientific article

Genomic diversity and differentiation of a managed island wild boar population

scientific article

Global lack of flyway structure in a cosmopolitan bird revealed by a genome wide survey of single nucleotide polymorphisms

scientific article

Hybrid origin of European commercial pigs examined by an in-depth haplotype analysis on chromosome 1.

scientific article

Identification of high utility SNPs for population assignment and traceability purposes in the pig using high-throughput sequencing

scientific article published on 25 April 2011

Increased Mycoplasma hyopneumoniae Disease Prevalence in Domestic Hybrids Among Free-Living Wild Boar

scientific article published on 21 September 2015

Linkage disequilibrium decay and haplotype block structure in the pig.

scientific article published on May 2008

Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis

scientific article published in 2010

Natural selection acts on Atlantic salmon major histocompatibility (MH) variability in the wild.

scientific article

On the relationship between an Asian haplotype on chromosome 6 that reduces androstenone levels in boars and the differential expression of SULT2A1 in the testis.

scientific article published on 09 January 2014

Patterns of variability at the major histocompatibility class II alpha locus in Atlantic salmon contrast with those at the class I locus.

scientific article

Pig domestication and human-mediated dispersal in western Eurasia revealed through ancient DNA and geometric morphometrics

scientific article (publication date: April 2013)

Porcine colonization of the Americas: a 60k SNP story.

scientific article published on 19 December 2012

Preliminary insight into the age and origin of the Labeobarbus fish species flock from Lake Tana (Ethiopia) using the mtDNA cytochrome b gene

scientific article

Prioritizing sequence variants in conserved non-coding elements in the chicken genome using chCADD

scientific article published on 23 September 2020

Prospects and challenges for the conservation of farm animal genomic resources, 2015-2025

scientific article

Regional regulation of transcription in the chicken genome

scientific article

Regions of homozygosity in the porcine genome: consequence of demography and the recombination landscape

scientific article

Reintroductions and genetic introgression from domestic pigs have shaped the genetic population structure of Northwest European wild boar

scientific article

Segregation distortion in chicken and the evolutionary consequences of female meiotic drive in birds

scientific article published on 27 January 2010

Shallow genetic divergence and species delineations in the endemic Labeobarbus species flock of Lake Tana, Ethiopia.

scientific article published on 19 September 2015

Signatures of diversifying selection in European pig breeds.

scientific article

Signatures of selection in the genomes of commercial and non-commercial chicken breeds

scientific article (publication date: 2012)

Strong signatures of selection in the domestic pig genome

scientific article

Systematic differences in the response of genetic variation to pedigree and genome-based selection methods.

scientific article published on 30 July 2014

TRES: Identification of Discriminatory and Informative SNPs from Population Genomic Data

scientific article

Tempo of speciation in a butterfly genus from the Southeast Asian tropics, inferred from mitochondrial and nuclear DNA sequence data

scientific article

Testing models of speciation from genome sequences: divergence and asymmetric admixture in Island South-East Asian Sus species during the Plio-Pleistocene climatic fluctuations

scientific article

The Genome of Winter Moth (Operophtera brumata) Provides a Genomic Perspective on Sexual Dimorphism and Phenology.

scientific article

The Use of Genomics in Conservation Management of the Endangered Visayan Warty Pig (Sus cebifrons).

scientific article published on 16 March 2016

The development and characterization of a 60K SNP chip for chicken.

scientific article

Untangling the hybrid nature of modern pig genomes: a mosaic derived from biogeographically distinct and highly divergent Sus scrofa populations

scientific article

Using genome-wide measures of coancestry to maintain diversity and fitness in endangered and domestic pig populations

scientific article published on 10 June 2015

Varying disease-mediated selection at different life-history stages of Atlantic salmon in fresh water

scientific article published on 4 July 2011

Whole-genome sequence analysis reveals differences in population management and selection of European low-input pig breeds

scientific article

Widespread horizontal genomic exchange does not erode species barriers among sympatric ducks

scientific article

List of works by Hendrik-Jan Megens

A SNP based linkage map of the turkey genome reveals multiple intrachromosomal rearrangements between the turkey and chicken genomes

A high density recombination map of the pig reveals a correlation between sex-specific recombination and GC content.

A high-density SNP-based linkage map of the chicken genome reveals sequence features correlated with recombination rate

A tree of geese: A phylogenomic perspective on the evolutionary history of True Geese

Accuracy of genomic prediction using imputed whole-genome sequence data in white layers.

Adaptive Evolution of Toll-Like Receptors (TLRs) in the Family Suidae

Analyses of pig genomes provide insight into porcine demography and evolution

Application of massive parallel sequencing to whole genome SNP discovery in the porcine genome.

Artificial selection on introduced Asian haplotypes shaped the genetic architecture in European commercial pigs

Atlantic salmon eggs favour sperm in competition that have similar major histocompatibility alleles

Balancing selection on a recessive lethal deletion with pleiotropic effects on two neighboring genes in the porcine genome

Biodiversity of pig breeds from China and Europe estimated from pooled DNA samples: differences in microsatellite variation between two areas of domestication

Comparison of linkage disequilibrium and haplotype diversity on macro- and microchromosomes in chicken

Conservation genomic analysis of domestic and wild pig populations from the Iberian Peninsula

Copy number variation in the speciation of pigs: a possible prominent role for olfactory receptors

Correction to: Genome-wide SNP data unveils the globalization of domesticated pigs

Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology

Development of a genetic tool for product regulation in the diverse British pig breed market

Dissecting structural and nucleotide genome-wide variation in inbred Iberian pigs

Domesticated species form a treasure-trove for molecular characterization of Mendelian traits by exploiting the specific genetic structure of these species in across-breed genome wide association studies.

East Asian contributions to Dutch traditional and western commercial chickens inferred from mtDNA analysis.

Evidence for adaptation of porcine Toll-like receptors.

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes

Evolution of Tibetan wild boars

Evolutionary dynamics of copy number variation in pig genomes in the context of adaptation and domestication

Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae.

Evolutionary signals of selection on cognition from the great tit genome and methylome.

Extent of linkage disequilibrium in chicken

Farm-by-farm analysis of microsatellite, mtDNA and SNP genotype data reveals inbreeding and crossbreeding as threats to the survival of a native Spanish pig breed

Gene expression in chicken reveals correlation with structural genomic features and conserved patterns of transcription in the terrestrial vertebrates

Genome sequencing reveals fine scale diversification and reticulation history during speciation in Sus

Genome-wide SNP data unveils the globalization of domesticated pigs. ⬇️

Genome-wide assessment of worldwide chicken SNP genetic diversity indicates significant absence of rare alleles in commercial breeds.

Genome-wide candidate regions for selective sweeps revealed through massive parallel sequencing of DNA across ten turkey populations

Genome-wide footprints of pig domestication and selection revealed through massive parallel sequencing of pooled DNA.

Genome-wide single nucleotide polymorphism analysis reveals recent genetic introgression from domestic pigs into Northwest European wild boar populations

Genomic analysis reveals selection for Asian genes in European pigs following human-mediated introgression

Genomic diversity and differentiation of a managed island wild boar population

Global lack of flyway structure in a cosmopolitan bird revealed by a genome wide survey of single nucleotide polymorphisms

Hybrid origin of European commercial pigs examined by an in-depth haplotype analysis on chromosome 1.

Identification of high utility SNPs for population assignment and traceability purposes in the pig using high-throughput sequencing

Increased Mycoplasma hyopneumoniae Disease Prevalence in Domestic Hybrids Among Free-Living Wild Boar

Linkage disequilibrium decay and haplotype block structure in the pig.

Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis

Natural selection acts on Atlantic salmon major histocompatibility (MH) variability in the wild.

On the relationship between an Asian haplotype on chromosome 6 that reduces androstenone levels in boars and the differential expression of SULT2A1 in the testis.

Patterns of variability at the major histocompatibility class II alpha locus in Atlantic salmon contrast with those at the class I locus.

Pig domestication and human-mediated dispersal in western Eurasia revealed through ancient DNA and geometric morphometrics

Porcine colonization of the Americas: a 60k SNP story.

Preliminary insight into the age and origin of the Labeobarbus fish species flock from Lake Tana (Ethiopia) using the mtDNA cytochrome b gene

Prioritizing sequence variants in conserved non-coding elements in the chicken genome using chCADD

Prospects and challenges for the conservation of farm animal genomic resources, 2015-2025

Regional regulation of transcription in the chicken genome

Regions of homozygosity in the porcine genome: consequence of demography and the recombination landscape

Reintroductions and genetic introgression from domestic pigs have shaped the genetic population structure of Northwest European wild boar

Segregation distortion in chicken and the evolutionary consequences of female meiotic drive in birds

Shallow genetic divergence and species delineations in the endemic Labeobarbus species flock of Lake Tana, Ethiopia.

Signatures of diversifying selection in European pig breeds.

Signatures of selection in the genomes of commercial and non-commercial chicken breeds

Strong signatures of selection in the domestic pig genome

Systematic differences in the response of genetic variation to pedigree and genome-based selection methods.

TRES: Identification of Discriminatory and Informative SNPs from Population Genomic Data

Tempo of speciation in a butterfly genus from the Southeast Asian tropics, inferred from mitochondrial and nuclear DNA sequence data

Testing models of speciation from genome sequences: divergence and asymmetric admixture in Island South-East Asian Sus species during the Plio-Pleistocene climatic fluctuations

The Genome of Winter Moth (Operophtera brumata) Provides a Genomic Perspective on Sexual Dimorphism and Phenology.

The Use of Genomics in Conservation Management of the Endangered Visayan Warty Pig (Sus cebifrons).

The development and characterization of a 60K SNP chip for chicken.

Untangling the hybrid nature of modern pig genomes: a mosaic derived from biogeographically distinct and highly divergent Sus scrofa populations

Using genome-wide measures of coancestry to maintain diversity and fitness in endangered and domestic pig populations

Varying disease-mediated selection at different life-history stages of Atlantic salmon in fresh water

Whole-genome sequence analysis reveals differences in population management and selection of European low-input pig breeds

Widespread horizontal genomic exchange does not erode species barriers among sympatric ducks