publications

publications by categories in reversed chronological order. generated by jekyll-scholar.

2025

  1. Urban life shapes genetic diversity in the green anole, Anolis carolinensis
    Yann Bourgeois, Simon Lailvaux, and Stéphane Boissinot
    Molecular Ecology, 2025

2024

  1. The burden of anthropogenic changes and mutation load in a critically endangered harrier from the Reunion biodiversity hotspot, Circus maillardi
    Yann Bourgeois, Ben H Warren, and Steve Augiron
    Molecular Ecology, 2024
  2. Polygenic architecture of flowering time and its relationship with local environments in the grass Brachypodium distachyon
    Nikolaos Minadakis, Lars Kaderli, Robert Horvath, and 5 more authors
    Genetics, 2024
  3. The evolution of transposable elements in Brachypodium distachyon is governed by purifying selection, while neutral and adaptive processes play a minor role
    Robert Horvath, Nikolaos Minadakis, Yann Bourgeois, and 1 more author
    Elife, 2024
  4. Taking advantage of reference-guided assembly in a slowly-evolving lineage: Application to Testudo graeca
    Andrea Mira-Jover, Eva Graciá, Andrés Giménez, and 3 more authors
    Plos one, 2024

2023

  1. What lies behind a fruit crop variety name? A case study of the barnı̄ date palm from al-‘Ulā oasis, Saudi Arabia
    Muriel Gros-Balthazard, Vincent Battesti, Jonathan M Flowers, and 8 more authors
    Plants, People, Planet, 2023
  2. Beyond morphs: Inter-individual colour variation despite strong genetic determinism of colour morphs in a wild bird
    Maya C Mould, Michèle Huet, Lou Senegas, and 4 more authors
    Journal of Evolutionary Biology, 2023
  3. Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes
    S Cotton, MP McHugh, R Dewar, and 8 more authors
    Journal of Hospital Infection, 2023
  4. The demographic history of the wild crop relative Brachypodium distachyon is shaped by distinct past and present ecological niches
    Nikolaos Minadakis, Hefin Williams, Robert Horvath, and 5 more authors
    Peer Community Journal, 2023
  5. Mechanisms of intrinsic postzygotic isolation: from traditional genic and chromosomal views to genomic and epigenetic perspectives
    Radka Reifová, S Lorena Ament-Velásquez, Yann Bourgeois, and 7 more authors
    Cold Spring Harbor Perspectives in Biology, 2023

2022

  1. Varied diversification patterns and distinct demographic trajectories in Ethiopian montane forest bird (Aves: Passeriformes) populations separated by the Great Rift Valley
    Joseph D Manthey, Yann Bourgeois, Yonas Meheretu, and 1 more author
    Molecular ecology, 2022
  2. Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B. 1.617. 2) compared with alpha (B. 1.1. 7) variants of concern: a cohort study
    Katherine A Twohig, Tommy Nyberg, Asad Zaidi, and 8 more authors
    The Lancet Infectious Diseases, 2022
  3. Experimentally heat-induced transposition increases drought tolerance in Arabidopsis thaliana
    Michael Thieme, Arthur Brêchet, Yann Bourgeois, and 3 more authors
    New Phytologist, 2022
  4. Genomic analyses reveal association of ASIP with a recurrently evolving adaptive color pattern in frogs
    Sandra Goutte, Imtiyaz Hariyani, Kole Deroy Utzinger, and 2 more authors
    Molecular Biology and Evolution, 2022

2021

  1. A two-locus system with strong epistasis underlies rapid parasite-mediated evolution of host resistance
    Camille Ameline, Yann Bourgeois, Felix Vögtli, and 4 more authors
    Molecular biology and evolution, 2021
  2. Evaluating the effects of SARS-CoV-2 spike mutation D614G on transmissibility and pathogenicity
    Erik Volz, Verity Hill, John T McCrone, and 8 more authors
    Cell, 2021
  3. Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B. 1.1. 7: an ecological study
    Mark S Graham, Carole H Sudre, Anna May, and 8 more authors
    The Lancet Public Health, 2021
  4. An overview of current population genomics methods for the analysis of whole-genome resequencing data in eukaryotes
    Yann XC Bourgeois, and Ben H Warren
    Molecular Ecology, 2021
  5. The structural, functional and evolutionary impact of transposable elements in eukaryotes
    Dareen Almojil, Yann Bourgeois, Marcin Falis, and 3 more authors
    Genes, 2021
  6. Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B. 1.1. 7
    Bo Meng, Steven A Kemp, Guido Papa, and 8 more authors
    Cell reports, 2021
  7. Balancing selection for pathogen resistance reveals an intercontinental signature of Red Queen coevolution
    Yann Bourgeois, Peter D Fields, Gilberto Bento, and 1 more author
    Molecular Biology and Evolution, 2021
  8. Exponential growth, high prevalence of SARS-CoV-2, and vaccine effectiveness associated with the Delta variant
    Paul Elliott, David Haw, Haowei Wang, and 8 more authors
    Science, 2021
  9. The impact of viral mutations on recognition by SARS-CoV-2 specific T cells
    Thushan I Silva, Guihai Liu, Benjamin B Lindsey, and 8 more authors
    Iscience, 2021

2020

  1. Differential divergence in autosomes and sex chromosomes is associated with intra-island diversification at a very small spatial scale in a songbird lineage
    Yann XC Bourgeois, Joris AM Bertrand, Boris Delahaie, and 3 more authors
    Molecular Ecology, 2020
  2. Disentangling the determinants of transposable elements dynamics in vertebrate genomes using empirical evidences and simulations
    Yann Bourgeois, Robert P Ruggiero, Imtiyaz Hariyani, and 1 more author
    PLoS genetics, 2020
  3. An integrated national scale SARS-CoV-2 genomic surveillance network
    The COVID
    The Lancet. Microbe, 2020
  4. CoronaHiT: large scale multiplexing of SARS-CoV-2 genomes using Nanopore sequencing
    Samuel Robson, Garry Scarlett, Yann Xavier Claude Bourgeois, and 3 more authors
    2020
  5. Genomic epidemiology of SARS-CoV-2 spread in Scotland highlights the role of European travel in COVID-19 emergence
    Samuel Robson, Garry Scarlett, Yann Xavier Claude Bourgeois, and 3 more authors
    2020
  6. COVID-19 infection dynamics in care homes in the East of England: a retrospective genomic epidemiology study
    Samuel Robson, Garry Scarlett, Yann Xavier Claude Bourgeois, and 3 more authors
    2020

2019

  1. Selection at behavioural, developmental and metabolic genes is associated with the northward expansion of a successful tropical colonizer
    Yann Bourgeois, and Stéphane Boissinot
    Molecular ecology, 2019
  2. The mobilome of reptiles: Evolution, structure, and function
    Stéphane Boissinot, Yann Bourgeois, Joseph D Manthey, and 1 more author
    Cytogenetic and genome research, 2019
  3. Recent secondary contacts, linked selection, and variable recombination rates shape genomic diversity in the model species Anolis carolinensis
    Yann Bourgeois, Robert P Ruggiero, Joseph D Manthey, and 1 more author
    Genome Biology and Evolution, 2019
  4. On the population dynamics of junk: a review on the population genomics of transposable elements
    Yann Bourgeois, and Stéphane Boissinot
    Genes, 2019

2018

  1. Genome-wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon
    Yann Bourgeois, Christoph Stritt, Jean-Claude Walser, and 3 more authors
    The Plant Journal, 2018
  2. Revisiting the phylogeography, demography and taxonomy of the frog genus Ptychadena in the Ethiopian highlands with the use of genome-wide SNP data
    Jacobo Reyes-Velasco, Joseph D Manthey, Yann Bourgeois, and 2 more authors
    PLoS One, 2018
  3. The end of a 60-year riddle: identification and genomic characterization of an iridovirus, the causative agent of white fat cell disease in zooplankton
    Elena R Toenshoff, Peter D Fields, Yann X Bourgeois, and 1 more author
    G3: Genes, Genomes, Genetics, 2018
  4. Contrasted patterns of divergence and gene flow among five fish species in a Mongolian rift lake following glaciation
    Ivana Roman, Yann Bourgeois, Jacobo Reyes-Velasco, and 3 more authors
    Biological Journal of the Linnean Society, 2018

2017

  1. A novel locus on chromosome 1 underlies the evolution of a melanic plumage polymorphism in a wild songbird
    Yann XC Bourgeois, Boris Delahaie, Mathieu Gautier, and 8 more authors
    Royal Society open science, 2017
  2. The genetic basis of resistance and matching-allele interactions of a host-parasite system: The Daphnia magna-Pasteuria ramosa model
    Gilberto Bento, Jarkko Routtu, Peter D Fields, and 3 more authors
    PLoS Genetics, 2017
  3. Parasitism drives host genome evolution: insights from the Pasteuria ramosa–Daphnia magna system
    Yann Bourgeois, Anne C Roulin, Kristina Müller, and 1 more author
    Evolution, 2017
  4. LINE insertion polymorphisms are abundant but at low frequencies across populations of Anolis carolinensis
    Robert P Ruggiero, Yann Bourgeois, and Stéphane Boissinot
    Frontiers in genetics, 2017
  5. Narrow hybrid zones in spite of very low population differentiation in neutral markers in an island bird species complex
    Boris Delahaie, Josselin Cornuault, Charline Masson, and 4 more authors
    Journal of Evolutionary Biology, 2017

2016

  1. Valuing museum specimens: high-throughput DNA sequencing on historical collections of New Guinea crowned pigeons (Goura)
    Guillaume Besnard, Joris AM Bertrand, Boris Delahaie, and 3 more authors
    Biological Journal of the Linnean Society, 2016
  2. Population density of the Réunion Grey White-eye Zosterops borbonicus within the summit ecosystems of Réunion, Mascarene Islands
    Joris AM Bertrand, Yann XC Bourgeois, and Christophe Thébaud
    Ostrich, 2016
  3. The role of selection and historical factors in driving population differentiation along an elevational gradient in an island bird
    Joris AM Bertrand, Boris Delahaie, Yann XC Bourgeois, and 6 more authors
    Journal of Evolutionary Biology, 2016
  4. Candidate gene analysis suggests untapped genetic complexity in melanin-based pigmentation in birds
    Yann XC Bourgeois, Joris AM Bertrand, Boris Delahaie, and 4 more authors
    Journal of Heredity, 2016
  5. A photoreceptor contributes to the natural variation of diapause induction in Daphnia magna
    Anne C Roulin, Yann Bourgeois, Urs Stiefel, and 2 more authors
    Molecular biology and evolution, 2016

2015

  1. Community assembly on remote islands: a comparison of Hawaiian and Mascarene spiders
    Juliane Casquet, Yann XC Bourgeois, Corinne Cruaud, and 3 more authors
    Journal of Biogeography, 2015
  2. Morphological and plumage colour variation in the Réunion grey white-eye (Aves: Zosterops borbonicus): assessing the role of selection
    Josselin Cornuault, Boris Delahaie, Joris AM Bertrand, and 4 more authors
    Biological Journal of the Linnean Society, 2015
  3. Using molecular tools to guide management of invasive alien species: assessing the genetic impact of a recently introduced island bird population
    Janske Crommenacker, YXC Bourgeois, Ben H Warren, and 4 more authors
    Diversity and Distributions, 2015

2014

  1. Extremely reduced dispersal and gene flow in an island bird
    JAM Bertrand, YXC Bourgeois, B Delahaie, and 7 more authors
    Heredity, 2014

2013

  1. The role of ecology in the geographical separation of blood parasites infecting an insular bird
    Josselin Cornuault, Aurélie Khimoun, Ryan J Harrigan, and 4 more authors
    Journal of Biogeography, 2013
  2. Mass production of SNP markers in a nonmodel passerine bird through RAD sequencing and contig mapping to the zebra finch genome
    Yann XC Bourgeois, Emeline Lhuillier, Timothée Cézard, and 7 more authors
    Molecular Ecology Resources, 2013
  3. Génétique évolutive d’un cas extrême de polymorphisme de la coloration du plumage chez un oiseau insulaire, Zosterops borbonicus (Zosteropidae).
    Yann Bourgeois
    Université Paul Sabatier, 2013

2012

  1. Hybridization and barriers to gene flow in an island bird radiation
    Ben H Warren, Eldredge Bermingham, Yann Bourgeois, and 4 more authors
    Evolution, 2012
  2. Isolation and characterization of twelve polymorphic microsatellite loci for investigating an extreme case of microgeographical variation in an island bird (Zosterops borbonicus)
    Joris AM Bertrand, Ricardo Garcı́a-Jiménez, Yann Bourgeois, and 4 more authors
    Conservation Genetics Resources, 2012
  3. Investigating the role of the melanocortin-1 receptor gene in an extreme case of microgeographical variation in the pattern of melanin-based plumage pigmentation
    Yann XC Bourgeois, Joris AM Bertrand, Christophe Thebaud, and 1 more author
    PLoS One, 2012