List of works - Jean Bousquet

A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection

scientific article

A catalog of annotated high-confidence SNPs from exome capture and sequencing reveals highly polymorphic genes in Norway spruce (Picea abies)

article

A composite linkage map from two crosses for the species complex Picea mariana × Picea rubens and analysis of synteny with other Pinaceae

scientific article published on 10 November 2005

A high-resolution reference genetic map positioning 8.8 K genes for the conifer white spruce: structural genomics implications and correspondence with physical distance.

scientific article published on 15 January 2017

A metapopulation model for the introgression from genetically modified plants into their wild relatives

scientific article

A mitochondrial DNA minisatellite reveals the postglacial history of jack pine (Pinus banksiana), a broad-range North American conifer

scientific article published in October 2005

A spruce gene map infers ancient plant genome reshuffling and subsequent slow evolution in the gymnosperm lineage leading to extant conifers

scientific article

A white spruce gene catalog for conifer genome analyses

scientific article published on 05 July 2011

Adaptive genetic variation to drought in a widely distributed conifer suggests a potential for increasing forest resilience in a drying climate

scientific article published on 16 March 2020

Ancestry and divergence of subtropical montane forest isolates: molecular biogeography of the genus Abies (Pinaceae) in southern México and Guatemala

scientific article published on 17 April 2008

Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data

scientific article

Association Genetics of Wood Physical Traits in the Conifer White Spruce and Relationships With Gene Expression ⬇️

scientific article published on March 8, 2011

Association genetics of acetophenone defence against spruce budworm in mature white spruce

article

Automated SNP detection from a large collection of white spruce expressed sequences: contributing factors and approaches for the categorization of SNPs

scientific article

Breeding for adaptation to climate change: genomic selection for drought response in a white spruce multi‐site polycross test

scientific article published on 01 February 2022

Comparative genome mapping among Picea glauca, P. mariana × P. rubens and P. abies, and correspondence with other Pinaceae

scientific article published on 24 October 2006

Complete Chloroplast Genome Sequence of a Black Spruce (Picea mariana) from Eastern Canada

scientific article published on 24 September 2020

Complete Chloroplast Genome Sequence of a White Spruce (Picea glauca, Genotype WS77111) from Eastern Canada

scientific article published on 06 June 2019

Complete Chloroplast Genome Sequence of an Engelmann Spruce (Picea engelmannii, Genotype Se404-851) from Western Canada

scientific article published on 13 June 2019

Complete mitochondrial genome of a gymnosperm, Sitka spruce (Picea sitchensis), indicates a complex physical structure

scientific article published on 25 May 2020

Complex patterns of hybridization between exotic and native North American poplar species

scientific article published on 15 September 2010

Connecting tree‐ring phenotypes, genetic associations and transcriptomics to decipher the genomic architecture of drought adaptation in a widespread conifer

scientific article published on 17 February 2021

Contrasting microsatellite variation between subalpine and western larch, two closely related species with different distribution patterns

scientific article

Deciduous trees and the application of universal DNA barcodes: a case study on the circumpolar Fraxinus

scientific article

Decoupled mitochondrial and chloroplast DNA population structure reveals Holocene collapse and population isolation in a threatened Mexican-endemic conifer

scientific article published in September 2006

Development of a Traceability System Based on a SNP Array for Large-Scale Production of High-Value White Spruce (Picea glauca).

scientific article

Development of high-density SNP genotyping arrays for white spruce (Picea glauca) and transferability to subtropical and nordic congeners

scientific article published on 25 January 2013

Development of highly reliable in silico SNP resource and genotyping assay from exome capture and sequencing: an example from black spruce (Picea mariana).

scientific article published on 22 September 2015

Disentangling the roles of history and local selection in shaping clinal variation of allele frequencies and gene expression in Norway spruce (Picea abies)

scientific article (publication date: July 2012)

Ecophysiology and Growth of White Spruce Seedlings from Various Seed Sources along a Climatic Gradient Support the Need for Assisted Migration

scientific article

Efficient screening for expressed sequence tag polymorphisms (ESTPs) by DNA pool sequencing and denaturing gradient gel electrophoresis (DGGE) in spruces

Enhancing genetic mapping of complex genomes through the design of highly-multiplexed SNP arrays: application to the large and unsequenced genomes of white spruce and black spruce

scientific article

Evolution of an ancient microsatellite hotspot in the conifer mitochondrial genome and comparison with other plants

scientific article published in March 2013

Evolution of gene structure in the conifer Picea glauca: a comparative analysis of the impact of intron size

scientific article

Expansion of the dehydrin gene family in the Pinaceae is associated with considerable structural diversity and drought-responsive expression

scientific article published on 13 October 2017

Factors affecting the accuracy of genomic selection for growth and wood quality traits in an advanced-breeding population of black spruce (Picea mariana)

scientific article

Fine-scale geographic variation in photosynthetic-related traits of Picea glauca seedlings indicates local adaptation to climate.

scientific article

From genotypes to phenotypes: expression levels of genes encompassing adaptive SNPs in black spruce

scientific article

From glacial refugia to modern populations: new assemblages of organelle genomes generated by differential cytoplasmic gene flow in transcontinental black spruce

scientific article published on November 2, 2010

Gene copy number variations in adaptive evolution: The genomic distribution of gene copy number variations revealed by genetic mapping and their adaptive role in an undomesticated species, white spruce (Picea glauca).

scientific article published on 22 August 2017

Gene mapping in white spruce (P. glauca): QTL and association studies integrating population and expression data

scientific article

Generation, annotation, analysis and database integration of 16,500 white spruce EST clusters.

scientific article

Genetic Adaptation to Climate in White Spruce Involves Small to Moderate Allele Frequency Shifts in Functionally Diverse Genes

scientific article published on 11 November 2015

Genetic Adaptation vs. Ecophysiological Plasticity of Photosynthetic-Related Traits in Young Picea glauca Trees along a Regional Climatic Gradient

scientific article

Genetic Mapping in Conifers

Genetic architecture of wood properties based on association analysis and co-expression networks in white spruce.

scientific article

Genomic prediction for hastening and improving efficiency of forward selection in conifer polycross mating designs: an example from white spruce

scientific article published on 22 January 2020

Genomic selection accuracies within and between environments and small breeding groups in white spruce.

scientific article published on 2 December 2014

Genomic selection for resistance to spruce budworm in white spruce and relationships with growth and wood quality traits

scientific article published on 11 August 2020

Genotypic variation in wood density and growth traits of poplar hybrids at four clonal trials

scientific article published on 22 November 2006

Glacial vicariance in Eurasia: mitochondrial DNA evidence from Scots pine for a complex heritage involving genetically distinct refugia at mid-northern latitudes and in Asia Minor

scientific article (publication date: 22 November 2007)

Glacial vicariance in the Pacific Northwest: evidence from a lodgepole pine mitochondrial DNA minisatellite for multiple genetically distinct and widely separated refugia

scientific article published on 21 April 2008

Improved white spruce (Picea glauca) genome assemblies and annotation of large gene families of conifer terpenoid and phenolic defense metabolism

scientific article published on 28 May 2015

Insights into conifer giga-genomes

scientific article

Joint inferences from cytoplasmic DNA and fossil data provide evidence for glacial vicariance and contrasted post-glacial dynamics in tamarack, a transcontinental conifer

scientific article published in 2016

Large-scale asymmetric introgression of cytoplasmic DNA reveals Holocene range displacement in a North American boreal pine complex

scientific article (publication date: August 2012)

Large-scale statistical analysis of secondary xylem ESTs in pine.

scientific article

Les génomes du pin gris et du pin tordu, témoins des bouleversements climatiques passés

article published in 2014

Less pollen-mediated gene flow for more signatures of glacial lineages: congruent evidence from balsam fir cpDNA and mtDNA for multiple refugia in eastern and central North America

scientific article

Mitochondrial genome recombination in the zone of contact between two hybridizing conifers

scientific article

Molecular evolution of regulatory genes in spruces from different species and continents: heterogeneous patterns of linkage disequilibrium and selection but correlated recent demographic changes

scientific article (publication date: April 2010)

Morpho-Physiological Variation of White Spruce Seedlings from Various Seed Sources and Implications for Deployment under Climate Change.

scientific article

Multi-trait genomic selection for weevil resistance, growth, and wood quality in Norway spruce

scientific article published on 20 June 2019

Multi-trait selection for improved solid wood physical and flexural properties in white spruce

scientific article published on 11 February 2022

New evidence from mitochondrial DNA of a progenitor-derivative species relationship between black spruce and red spruce (Pinaceae).

scientific article published in December 2003

Organellar Genomes of White Spruce (Picea glauca): Assembly and Annotation

scientific article published on 8 December 2015

Parallel and lineage-specific molecular adaptation to climate in boreal black spruce

scientific article published on 16 July 2012

Phylogeny, diversification rates and species boundaries of Mesoamerican firs (Abies, Pinaceae) in a genus-wide context

scientific article published on 10 October 2011

Phylogeographic structure of jack pine (Pinus banksiana; Pinaceae) supports the existence of a coastal glacial refugium in northeastern North America

scientific article published on 14 October 2010

QTL mapping in white spruce: gene maps and genomic regions underlying adaptive traits across pedigrees, years and environments

scientific article

Range-wide chloroplast and mitochondrial DNA imprints reveal multiple lineages and complex biogeographic history for Douglas-fir

scholarly article by Xiao-Xin Wei et al published 21 April 2011 in Tree Genetics and Genomes

Rates of spontaneous hybridization and hybrid recruitment in co-existing exotic and native mature larch populations

scholarly article by Patrick G. Meirmans published in April 2014

Scanning SNPs from a large set of expressed genes to assess the impact of artificial selection on the undomesticated genetic diversity of white spruce ⬇️

scientific article published on February 7, 2012

Scanning the genome for gene SNPs related to climate adaptation and estimating selection at the molecular level in boreal black spruce ⬇️

scientific article published on 07 March 2011

Scanning the genome for gene single nucleotide polymorphisms involved in adaptive population differentiation in white spruce

scientific article published on 3 July 2008

Species-diagnostic markers in Larix spp. based on RAPDs and nuclear, cpDNA, and mtDNA gene sequences, and their phylogenetic implications

article

Spruce

Spruce giga‐genomes: structurally similar yet distinctive with differentially expanding gene families and rapidly evolving genes

scientific article published in 2022

The Norway spruce genome sequence and conifer genome evolution

scientific article

The evolutionary implications of knox-I gene duplications in conifers: correlated evidence from phylogeny, gene mapping, and analysis of functional divergence

scientific article

The genomic architecture and association genetics of adaptive characters using a candidate SNP approach in boreal black spruce.

scientific article

The impact of climate change on growth of local white spruce populations in Québec, Canada

scientific article published on 16 December 2004

The landscape of nucleotide polymorphism among 13,500 genes of the conifer picea glauca, relationships with functions, and comparison with medicago truncatula.

scientific article published on January 2013

The large repertoire of conifer NLR resistance genes includes drought responsive and highly diversified RNLs

scientific article published on 12 August 2019

The phenotypic and genetic effects of drought-induced stress on apical growth, ring width, wood density and biomass in white spruce seedlings

scientific article published in 2022

The phylogeny and biogeographic history of ashes (fraxinus, oleaceae) highlight the roles of migration and vicariance in the diversification of temperate trees

scientific article (publication date: 2013)

The phylogeography of Eurasian Fraxinus species reveals ancient transcontinental reticulation

scientific article

Thermal acclimation of photosynthesis and respiration of southern and northern white spruce seed sources tested along a regional climatic gradient indicates limited potential to cope with temperature warming

scientific article

Tracking the progression of speciation: variable patterns of introgression across the genome provide insights on the species delimitation between progenitor-derivative spruces (Picea mariana × P. rubens).

scientific article published on 8 September 2015

Variation in mitochondrial DNA reveals multiple distant glacial refugia in black spruce (Picea mariana), a transcontinental North American conifer

scientific article published in September 2004

Variations in foliar monoterpenes across the range of jack pine reveal three widespread chemotypes: implications to host expansion of invasive mountain pine beetle ⬇️

scientific article published on 19 May 2015

ntEdit: scalable genome sequence polishing

scientific article published on 01 November 2019

List of works by Jean Bousquet

A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection

A catalog of annotated high-confidence SNPs from exome capture and sequencing reveals highly polymorphic genes in Norway spruce (Picea abies)

A composite linkage map from two crosses for the species complex Picea mariana × Picea rubens and analysis of synteny with other Pinaceae

A high-resolution reference genetic map positioning 8.8 K genes for the conifer white spruce: structural genomics implications and correspondence with physical distance.

A metapopulation model for the introgression from genetically modified plants into their wild relatives

A mitochondrial DNA minisatellite reveals the postglacial history of jack pine (Pinus banksiana), a broad-range North American conifer

A spruce gene map infers ancient plant genome reshuffling and subsequent slow evolution in the gymnosperm lineage leading to extant conifers

A white spruce gene catalog for conifer genome analyses

Adaptive genetic variation to drought in a widely distributed conifer suggests a potential for increasing forest resilience in a drying climate

Ancestry and divergence of subtropical montane forest isolates: molecular biogeography of the genus Abies (Pinaceae) in southern México and Guatemala

Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data

Association Genetics of Wood Physical Traits in the Conifer White Spruce and Relationships With Gene Expression ⬇️

Association genetics of acetophenone defence against spruce budworm in mature white spruce

Automated SNP detection from a large collection of white spruce expressed sequences: contributing factors and approaches for the categorization of SNPs

Breeding for adaptation to climate change: genomic selection for drought response in a white spruce multi‐site polycross test

Comparative genome mapping among Picea glauca, P. mariana × P. rubens and P. abies, and correspondence with other Pinaceae

Complete Chloroplast Genome Sequence of a Black Spruce (Picea mariana) from Eastern Canada

Complete Chloroplast Genome Sequence of a White Spruce (Picea glauca, Genotype WS77111) from Eastern Canada

Complete Chloroplast Genome Sequence of an Engelmann Spruce (Picea engelmannii, Genotype Se404-851) from Western Canada

Complete mitochondrial genome of a gymnosperm, Sitka spruce (Picea sitchensis), indicates a complex physical structure

Complex patterns of hybridization between exotic and native North American poplar species

Connecting tree‐ring phenotypes, genetic associations and transcriptomics to decipher the genomic architecture of drought adaptation in a widespread conifer

Contrasting microsatellite variation between subalpine and western larch, two closely related species with different distribution patterns

Deciduous trees and the application of universal DNA barcodes: a case study on the circumpolar Fraxinus

Decoupled mitochondrial and chloroplast DNA population structure reveals Holocene collapse and population isolation in a threatened Mexican-endemic conifer

Development of a Traceability System Based on a SNP Array for Large-Scale Production of High-Value White Spruce (Picea glauca).

Development of high-density SNP genotyping arrays for white spruce (Picea glauca) and transferability to subtropical and nordic congeners

Development of highly reliable in silico SNP resource and genotyping assay from exome capture and sequencing: an example from black spruce (Picea mariana).

Disentangling the roles of history and local selection in shaping clinal variation of allele frequencies and gene expression in Norway spruce (Picea abies)

Ecophysiology and Growth of White Spruce Seedlings from Various Seed Sources along a Climatic Gradient Support the Need for Assisted Migration

Efficient screening for expressed sequence tag polymorphisms (ESTPs) by DNA pool sequencing and denaturing gradient gel electrophoresis (DGGE) in spruces

Enhancing genetic mapping of complex genomes through the design of highly-multiplexed SNP arrays: application to the large and unsequenced genomes of white spruce and black spruce

Evolution of an ancient microsatellite hotspot in the conifer mitochondrial genome and comparison with other plants

Evolution of gene structure in the conifer Picea glauca: a comparative analysis of the impact of intron size

Expansion of the dehydrin gene family in the Pinaceae is associated with considerable structural diversity and drought-responsive expression

Factors affecting the accuracy of genomic selection for growth and wood quality traits in an advanced-breeding population of black spruce (Picea mariana)

Fine-scale geographic variation in photosynthetic-related traits of Picea glauca seedlings indicates local adaptation to climate.

From genotypes to phenotypes: expression levels of genes encompassing adaptive SNPs in black spruce

From glacial refugia to modern populations: new assemblages of organelle genomes generated by differential cytoplasmic gene flow in transcontinental black spruce

Gene copy number variations in adaptive evolution: The genomic distribution of gene copy number variations revealed by genetic mapping and their adaptive role in an undomesticated species, white spruce (Picea glauca).

Gene mapping in white spruce (P. glauca): QTL and association studies integrating population and expression data

Generation, annotation, analysis and database integration of 16,500 white spruce EST clusters.

Genetic Adaptation to Climate in White Spruce Involves Small to Moderate Allele Frequency Shifts in Functionally Diverse Genes

Genetic Adaptation vs. Ecophysiological Plasticity of Photosynthetic-Related Traits in Young Picea glauca Trees along a Regional Climatic Gradient

Genetic Mapping in Conifers

Genetic architecture of wood properties based on association analysis and co-expression networks in white spruce.

Genomic prediction for hastening and improving efficiency of forward selection in conifer polycross mating designs: an example from white spruce

Genomic selection accuracies within and between environments and small breeding groups in white spruce.

Genomic selection for resistance to spruce budworm in white spruce and relationships with growth and wood quality traits

Genotypic variation in wood density and growth traits of poplar hybrids at four clonal trials

Glacial vicariance in Eurasia: mitochondrial DNA evidence from Scots pine for a complex heritage involving genetically distinct refugia at mid-northern latitudes and in Asia Minor

Glacial vicariance in the Pacific Northwest: evidence from a lodgepole pine mitochondrial DNA minisatellite for multiple genetically distinct and widely separated refugia

Improved white spruce (Picea glauca) genome assemblies and annotation of large gene families of conifer terpenoid and phenolic defense metabolism

Insights into conifer giga-genomes

Joint inferences from cytoplasmic DNA and fossil data provide evidence for glacial vicariance and contrasted post-glacial dynamics in tamarack, a transcontinental conifer

Large-scale asymmetric introgression of cytoplasmic DNA reveals Holocene range displacement in a North American boreal pine complex

Large-scale statistical analysis of secondary xylem ESTs in pine.

Les génomes du pin gris et du pin tordu, témoins des bouleversements climatiques passés

Less pollen-mediated gene flow for more signatures of glacial lineages: congruent evidence from balsam fir cpDNA and mtDNA for multiple refugia in eastern and central North America

Mitochondrial genome recombination in the zone of contact between two hybridizing conifers

Molecular evolution of regulatory genes in spruces from different species and continents: heterogeneous patterns of linkage disequilibrium and selection but correlated recent demographic changes

Morpho-Physiological Variation of White Spruce Seedlings from Various Seed Sources and Implications for Deployment under Climate Change.

Multi-trait genomic selection for weevil resistance, growth, and wood quality in Norway spruce

Multi-trait selection for improved solid wood physical and flexural properties in white spruce

New evidence from mitochondrial DNA of a progenitor-derivative species relationship between black spruce and red spruce (Pinaceae).

Organellar Genomes of White Spruce (Picea glauca): Assembly and Annotation

Parallel and lineage-specific molecular adaptation to climate in boreal black spruce

Phylogeny, diversification rates and species boundaries of Mesoamerican firs (Abies, Pinaceae) in a genus-wide context

Phylogeographic structure of jack pine (Pinus banksiana; Pinaceae) supports the existence of a coastal glacial refugium in northeastern North America

QTL mapping in white spruce: gene maps and genomic regions underlying adaptive traits across pedigrees, years and environments

Range-wide chloroplast and mitochondrial DNA imprints reveal multiple lineages and complex biogeographic history for Douglas-fir

Rates of spontaneous hybridization and hybrid recruitment in co-existing exotic and native mature larch populations

Scanning SNPs from a large set of expressed genes to assess the impact of artificial selection on the undomesticated genetic diversity of white spruce ⬇️

Scanning the genome for gene SNPs related to climate adaptation and estimating selection at the molecular level in boreal black spruce ⬇️

Scanning the genome for gene single nucleotide polymorphisms involved in adaptive population differentiation in white spruce

Species-diagnostic markers in Larix spp. based on RAPDs and nuclear, cpDNA, and mtDNA gene sequences, and their phylogenetic implications

Spruce

Spruce giga‐genomes: structurally similar yet distinctive with differentially expanding gene families and rapidly evolving genes

The Norway spruce genome sequence and conifer genome evolution