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Evidence for parasite-mediated selection during short-lasting toxic algal blooms

 François Blanquart , Myriam Valero , Catharina Alves-De-Souza , Aliou Dia , Frédéric Lepelletier , et al.
Proceedings of the Royal Society B: Biological Sciences, 2016, 50, pp.109 - 109. ⟨10.1098/rspb.2000.1267⟩
Article dans une revue hal-01400173v1
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Characterization of vaccine-breakthrough infections of SARS-CoV-2 Delta and Alpha variants and within-host viral load dynamics in the community in France

 François Blanquart , Clémence Abad , Joevin Ambroise , Mathieu Bernard , Gina Cosentino , et al.
2021
Pré-publication, Document de travail hal-03318483v2
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Bottlenecks can constrain and channel evolutionary paths

 Jasmine Gamblin , Sylvain Gandon , François Blanquart , Amaury Lambert
2022
Pré-publication, Document de travail hal-03835693v1

An evolutionary model to predict the frequency of antibiotic resistance under seasonal antibiotic use, and an application to Streptococcus pneumoniae

 François Blanquart , Sonja Lehtinen , Christophe Fraser
Proceedings of the Royal Society B: Biological Sciences, 2017, 284 (1855), pp.20170679. ⟨10.1098/rspb.2017.0679⟩
Article dans une revue hal-04053958v1
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The effect of habitat choice on evolutionary rescue in subdivided populations

 Peter Czuppon , François Blanquart , Hildegard Uecker , Florence Débarre
2020
Pré-publication, Document de travail hal-03002998v1
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The Effect of Habitat Choice on Evolutionary Rescue in Subdivided Populations

 Peter Czuppon , François Blanquart , Hildegard Uecker , Florence Débarre
The American Naturalist, 2021, 197 (6), pp.625-643. ⟨10.1086/714034⟩
Article dans une revue hal-03439344v1

Evolution of antibiotic resistance is linked to any genetic mechanism affecting bacterial duration of carriage

 Sonja Lehtinen , François Blanquart , Nicholas Croucher , Paul Turner , Marc Lipsitch , et al.
Proceedings of the National Academy of Sciences of the United States of America, 2017, 114 (5), pp.1075-1080. ⟨10.1073/pnas.1617849114⟩
Article dans une revue hal-04053977v1
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Evolutionary epidemiology models to predict the dynamics of antibiotic resistance

 François Blanquart
Evolutionary Applications, 2018, 12 (3), pp.365-383. ⟨10.1111/eva.12753⟩
Article dans une revue hal-02347501v1
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Success of prophylactic antiviral therapy for SARS-CoV-2: predicted critical efficacies and impact of different drug-specific mechanisms of action

 Peter Czuppon , Florence Débarre , Antonio Gonçalves , Olivier Tenaillon , Alan S Perelson , et al.
PLoS Computational Biology, 2021, 17 (3), pp.e1008752. ⟨10.1371/journal.pcbi.1008752⟩
Article dans une revue hal-03003001v3
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Spread of the Delta variant, vaccine effectiveness against PCR-detected infections and within-host viral load dynamics in the community in France

 François Blanquart , Clémence Abad , Joevin Ambroise , Mathieu Bernard , Gina Cosentino , et al.
2021
Pré-publication, Document de travail hal-03289443v1
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The stochastic dynamics of early epidemics: probability of establishment, initial growth rate, and infection cluster size at first detection

 Peter Czuppon , Emmanuel Schertzer , François Blanquart , Florence Débarre
Journal of the Royal Society Interface, 2021, 18 (184), pp.20210575. ⟨10.1098/rsif.2021.0575⟩
Article dans une revue hal-03439370v1
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Early assessment of diffusion and possible expansion of SARS-CoV-2 Lineage 20I/501Y.V1 (B.1.1.7, variant of concern 202012/01) in France, January to March 2021

 Alexandre Gaymard , Paolo Bosetti , Adeline Feri , Gregory Destras , Vincent Enouf , et al.
Eurosurveillance, 2021, 26 (9), ⟨10.2807/1560-7917.ES.2021.26.9.2100133⟩
Article dans une revue hal-03184264v1
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Estimating the global reduction in transmission and rise in detection capacity of the novel coronavirus SARS-CoV-2 in early 2020

 Antoine Belloir , François Blanquart
Epidemics, 2021, 35, pp.100445. ⟨10.1016/j.epidem.2021.100445⟩
Article dans une revue hal-03439353v1

Phylodynamics of SARS-CoV-2 in France, Europe, and the world in 2020

 Romain Coppée , François Blanquart , Aude Jary , Valentin Leducq , Valentine Marie Ferré , et al.
eLife, 2023, 12, ⟨10.7554/eLife.82538⟩
Article dans une revue hal-04275646v1
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Selection for infectivity profiles in slow and fast epidemics, and the rise of SARS-CoV-2 variants

 François Blanquart , Nathanaël Hozé , Benjamin John Cowling , Florence Débarre , Simon Cauchemez
eLife, 2022, 11, pp.e75791. ⟨10.7554/eLife.75791⟩
Article dans une revue hal-03835687v1

What drives parallel evolution?

 Susan Bailey , François Blanquart , Thomas Bataillon , Rees Kassen
BioEssays, 2017, 39 (1), pp.e201600176. ⟨10.1002/bies.201600176⟩
Article dans une revue hal-04053986v1
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Epistatic interactions between the high pathogenicity island and other iron uptake systems shape Escherichia coli extra-intestinal virulence

 Guilhem Royer , Olivier Clermont , Julie Marin , Bénédicte Condamine , Sara Dion , et al.
Nature Communications, 2023, 14 (1), pp.3667. ⟨10.1038/s41467-023-39428-y⟩
Article dans une revue hal-04275628v1
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Fisher to the rescue

 François Blanquart , Florence Débarre
2019, pp.100072. ⟨10.24072/pci.evolbiol.100072⟩
Autre publication scientifique hal-02550744v1
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SARS-CoV-2 viral dynamics in infections with Alpha and Beta variants of concern in the French community

 Gina Cosentino , Mathieu Bernard , Joëvin Ambroise , Jean-Marc Giannoli , Jérémie Guedj , et al.
Journal of Infection, 2022, 84 (1), pp.94-118. ⟨10.1016/j.jinf.2021.07.031⟩
Article dans une revue hal-03835698v1
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Factors favouring the evolution of multidrug resistance in bacteria

 Eliott Jacopin , Sonja Lehtinen , Florence Débarre , François Blanquart
Journal of the Royal Society Interface, 2020, 17 (168), ⟨10.1098/rsif.2020.0105⟩
Article dans une revue hal-03002992v1
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High-risk exposure without personal protective equipment and infection with SARS-CoV-2 in-hospital workers - The CoV-CONTACT cohort

 Sarah Tubiana , Charles Burdet , Nadhira Houhou , Michael Thy , Pauline Manchon , et al.
Journal of Infection, 2021, 82 (5), pp.186-230. ⟨10.1016/j.jinf.2021.01.026⟩
Article dans une revue hal-03439333v1

Workup of Human Blood Samples for Deep Sequencing of HIV-1 Genomes

 Marion Cornelissen , Astrid Gall , Antoinette van der Kuyl , Chris Wymant , François Blanquart , et al.
Methods in Molecular Biology, 2018, Methods in Molecular Biology, 1746, pp.55-61. ⟨10.1007/978-1-4939-7683-6_5⟩
Article dans une revue hal-04053721v1
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High-risk exposure without personal protective equipment and infection with SARS-CoV-2 in healthcare workers: results of the CoV-CONTACT prospective cohort

 Sarah Tubiana , Charles Burdet , Nadhira Houhou , Michael Thy , Pauline Manchon , et al.
2021
Pré-publication, Document de travail pasteur-03147092v1
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Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver

 Chris Wymant , François Blanquart , Tanya Golubchik , Astrid Gall , Margreet Bakker , et al.
Virus Evolution, 2018, 4, pp.vey007. ⟨10.1093/ve/vey007⟩
Article dans une revue hal-02347553v1
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Success of Escherichia coli O25b:H4 Sequence Type 131 Clade C Associated with a Decrease in Virulence

 Marion Duprilot , Alexandra Baron , François Blanquart , Sara Dion , Cassandra Pouget , et al.
Infection and Immunity, 2020, 88 (12), ⟨10.1128/IAI.00576-20⟩
Article dans une revue hal-03089418v1
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A new hypothesis to explain Ebola's high virulence

 Virginie Ravigné , François Blanquart
Peer Community In Evolutionary Biology, 2017, pp.100022. ⟨10.24072/pci.evolbiol.100022⟩
Article dans une revue hal-01527139v1
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HIV-phyloTSI: Subtype-independent estimation of time since HIV-1 infection for cross-sectional measures of population incidence using deep sequence data

 Tanya Golubchik , Lucie Abeler-Dörner , Matthew Hall , Chris Wymant , David Bonsall , et al.
2022
Pré-publication, Document de travail hal-03835696v1
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SARS-CoV-2 viral dynamics in infections with variants of concern in the French community

 Gina Cosentino , Mathieu Bernard , Joëvin Ambroise , Jean-Marc Giannoli , Jérémie Guedj , et al.
2021
Pré-publication, Document de travail hal-03217231v1

Within-Host Dynamics and Duration of Colonization of Travel-Acquired Multidrug-Resistant Enterobacterales in Untreated Individuals

 Olivier Cotto , Laurence Armand-Lefèvre , Sophie Matheron , Etienne Ruppé , François Blanquart
Clinical Infectious Diseases, 2023, 77 (6), pp.934-936. ⟨10.1093/cid/ciad369⟩
Article dans une revue hal-04275649v1

The bacterial genetic determinants of Escherichia coli capacity to cause bloodstream infections in humans

 Judit Burgaya , Julie Marin , Guilhem Royer , Bénédicte Condamine , Benoit Gachet , et al.
PLoS Genetics, 2023, 19 (8), pp.e1010842. ⟨10.1371/journal.pgen.1010842⟩
Article dans une revue hal-04275619v1
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