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Tristan Lefebure



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Subterranean species inventory in the molecular era

Florian Malard , Héloïse Verdier , Lara Konecny-Dupré , David Eme , Christophe J Douady
Karstologia, 2022
Journal articles hal-03810304v1
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Passive sampling of environmental DNA in aquatic environments using 3D‐printed hydroxyapatite samplers

Héloïse Verdier , Lara Konecny‐dupre , Christophe Marquette , Helen Reveron , Solène Tadier
Molecular Ecology Resources, In press, ⟨10.1111/1755-0998.13604⟩
Journal articles hal-03601922v1
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Transcriptome-wide deregulation of gene expression by artificial light at night in tadpoles of common toads

Morgane Touzot , Tristan Lefebure , Thierry Lengagne , Jean Secondi , Adeline Dumet
Science of the Total Environment, 2022, 818, pp.151734. ⟨10.1016/j.scitotenv.2021.151734⟩
Journal articles hal-03440101v1
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Unlocking our understanding of intermittent rivers and ephemeral streams with genomic tools

Rosetta C Blackman , Florian Altermatt , Arnaud Foulquier , Tristan Lefébure , Maïlys Gauthier
Frontiers in Ecology and the Environment, 2021, 19 (10), pp.574-583. ⟨10.1002/fee.2404⟩
Journal articles hal-03369170v1
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Bedrock radioactivity influences the rate and spectrum of mutation

Nathanaëlle Saclier , Patrick Chardon , Florian Malard , Lara Konecny-Dupré , David Eme
eLife, 2020, 9, pp.e56830. ⟨10.7554/eLife.56830⟩
Journal articles hal-03051267v1

Enhancing DNA metabarcoding performance and applicability with bait capture enrichment and DNA from conservative ethanol

Maïlys Gauthier , Lara Konecny-Dupré , Agnès Nguyen , Vasco Elbrecht , T. Datry
Molecular Ecology Resources, 2020, 20 (79-96), pp.79-96. ⟨10.1111/1755-0998.13088⟩
Journal articles hal-02328256v1

GOTIT: A laboratory application software for optimizing multi‐criteria species‐based research

Florian Malard , Philippe Grison , Louis Duchemin , Lara Konecny-Dupré , Tristan Lefébure
Methods in Ecology and Evolution, 2020, 11, pp.159-167. ⟨10.1111/2041-210X.13307⟩
Journal articles hal-02329439v1
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Trophic selectivity in aquatic isopods increases with the availability of resources

Clémentine François , Laurent Simon , Florian Malard , Tristan Lefébure , Christophe Jean Douady
Functional Ecology, 2020, 34, pp.1078-1090. ⟨10.1111/1365-2435.13530⟩
Journal articles hal-02492518v1

Life History Traits Impact the Nuclear Rate of Substitution but Not the Mitochondrial Rate in Isopods

Nathanaëlle Saclier , Clémentine François , Lara Konecny-Dupré , Nicolas Lartillot , Laurent Guéguen
Molecular Biology and Evolution, 2018, 35 (12), pp.2900-2912. ⟨10.1093/molbev/msy184⟩
Journal articles hal-01951580v1
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Less effective selection leads to larger genomes

Tristan Lefébure , Claire Morvan , Florian Malard , Clémentine François , Lara Konecny-Dupré
Genome Research, 2017, 27, pp.1016-1028. ⟨10.1101/gr.212589.116⟩
Journal articles hal-01544879v2

No Evidence That Nitrogen Limitation Influences the Elemental Composition of Isopod Transcriptomes and Proteomes

Clémentine François , L. Duret , Laurent Simon , Florian Mermillod-Blondin , Florian Malard
Molecular Biology and Evolution, 2016, 33 (10), pp.2605-2620. ⟨10.1093/molbev/msw131⟩
Journal articles hal-01370129v1

Genome Content and Phylogenomics Reveal both Ancestral and Lateral Evolutionary Pathways in Plant-Pathogenic Streptomyces Species

José Huguet-Tapia , Tristan Lefébure , Jonathan H Badger , Dongli Guan , Gregg S. Pettis
Applied and Environmental Microbiology, 2016, 82 (7), pp.2146-2153. ⟨10.1128/AEM.03504-15⟩
Journal articles hal-01329447v1

Genome based phylogeny and comparative genomic analysis of intra-mammary pathogenic Escherichia coli.

Vincent P. Richards , Tristan Lefébure , Paulina Pavinski Bitar , Belgin Dogan , Kenneth Simpson
PLoS ONE, 2015, 10 (3, e0119799), pp.1-11. ⟨10.1371/journal.pone.0119799⟩
Journal articles hal-01292456v1

Inflammation-associated adherent-invasive Escherichia coli are enriched in pathways for use of Propanediol and Iron and M-cell translocation

Belgin Dogan , Haruo Suzuki , Deepali Herlekar , Balfour Sartor , Barry J Campbell
Inflammatory Bowel Diseases, 2014, 20 (2), pp.1919-1932. ⟨10.1097/MIB.0000000000000183⟩
Journal articles hal-01332099v1

Current developments in groundwater ecology -- from biodiversity to ecosystem function and services

Christian Griebler , Florian Malard , Tristan Lefébure
Current Opinion in Biotechnology, 2014, 27, pp.159-167. ⟨10.1016/j.copbio.2014.01.018⟩
Journal articles halsde-00958792v1

Complete Genome Sequence of the Porcine Strain Brachyspira pilosicoli P43/6/78T.

Changyou Lin , C. den Bakker Henk , Haruo Suzuki , Tristan Lefébure , Lalit Ponnala
Genome Announcements, 2013, 1 (1, e00215-12), pp.1-2. ⟨10.1128/genomeA.00215-12⟩
Journal articles halsde-00804898v1

Outcome of infection of C57BL/6 IL-10 mice with Campylobacter jejuni strains is correlated with genome content of open reading frames up- and down-regulated invivo

A. Bell, J. , J.P. Jerome , A.E. Plovanich-Jones , E.J. Smith , J.R. Gettings
Microbial Pathogenesis, 2013, 54, pp.1-19. ⟨10.1016/j.micpath.2012.08.001⟩
Journal articles halsde-00786264v1

Timetree of aselloidea reveals species diversification dynamics in groundwater

Claire Morvan , Florian Malard , Emmanuel Paradis , Tristan Lefébure , Lara Konecny-Dupré
Systematic Biology, 2013, 62 (4), pp.512-22. ⟨10.1093/sysbio/syt015⟩
Journal articles halsde-00837844v1

Comparative characterization of the virulence gene clusters (lipooligosaccharide [LOS] and capsular polysaccharide [CPS]) for Campylobacter coli, Campylobacter jejuni subsp. jejuni and related Campylobacter species. Infection

P. Richards Vincent , Tristan Lefébure , Paulina Pavinski Bitar , Michael J Stanhope
Genetics and Evolution, 2013, 14, pp.200-213. ⟨10.1016/j.meegid.2012.12.010⟩
Journal articles halsde-00787604v1

Microsatellite Development and First Population Size Estimates for the Groundwater Isopod Proasellus walteri

Cécile Capderrey , Bernard Kaufmann , Pauline Jean , Florian Malard , Lara Konecny-Dupré
PLoS ONE, 2013, 8 - e76213 (9), pp.1-10. ⟨10.1371/journal.pone.0076213⟩
Journal articles halsde-00876955v1

Evolutionary and Population Genomics of the Cavity Causing Bacteria Streptococcus mutans

E. Cornejo Omar , Tristan Lefébure , Paulina Pavinski Bitar , Ping Lang , Vincent P. Richards
Molecular Biology and Evolution, 2013, 30 (4), pp.881-93. ⟨10.1093/molbev/mss278⟩
Journal articles halsde-00814175v1

Bayesian phylogeographic inferences reveal contrasting colonization dynamics among European groundwater isopods

David Eme , Florian Malard , Lara Konecny-Dupré , Tristan Lefébure , Christophe Jean Douady
Molecular Ecology, 2013, 22, pp.5685-5699. ⟨10.1111/mec.12520⟩
Journal articles halsde-00921300v1

Phenotypic Heterogeneity of Genomically-Diverse Isolates of Streptococcus mutans

R. Palmer Sara , H. Miller James , Jacqueline Abranches , Lin Zeng , Tristan Lefébure
PLoS ONE, 2013, 8 - e61358 (4), pp.1-17. ⟨10.1371/journal.pone.0061358⟩
Journal articles halsde-00837811v1

Comparative genomic analysis of the genus Staphylococcus including Staphylococcus aureus and its newly described sister species Staphylococcus simiae

Haruo Suzuki , Tristan Lefébure , Paulina Pavinski Bitar , J. Stanhope Michael
BMC Genomics, 2012, 13 (38), pp.1-8. ⟨10.1186/1471-2164-13-38⟩
Journal articles halsde-00685689v1

Progress dissecting the oral microbiome in caries and health

R.A. Burne , L. Zeng, , S.J. Ahn , S.R. Palmer , Yehan Liu
Advances in dental research, 2012, 24 (2), pp.77-80. ⟨10.1177/0022034512449462⟩
Journal articles halsde-00734401v1

Gene repertoire evolution of Streptococcus pyogenes inferred from phylogenomic analysis with Streptococcus canis and Streptococcus dysgalactiae

Tristan Lefébure , P. Richards Vince , Ping Lang , Paulina Pavinski Bitar , J. Stanhope Michael
PLoS ONE, 2012, 7 (5), pp.1-11. ⟨10.1371/journal.pone.0037607⟩
Journal articles halsde-00705729v1
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Genome characterization and population genetic structure of the zoonotic pathogen, Streptococcus canis

Vincent P Richards , Ruth N. Zadoks , Paulina D Pavinski Bitar , Tristan Lefébure , Ping Lang
BMC Microbiology, 2012, 12 (293), pp.1-16. ⟨10.1186/1471-2180-12-293⟩
Journal articles halsde-00786423v1

Comparative genomics and the role of lateral gene transfer in the evolution of bovine adapted Streptococcus agalactiae

P. Richards Vincent , Ping Lang , D. Bitar Paulina , Tristan Lefébure , Ynte H. Schukken
Infection, Genetics and Evolution, 2011, 11 (6), pp.1263-75. ⟨10.1016/j.meegid.2011.04.019⟩
Journal articles halsde-00623049v1

Comparative genomic analysis of the streptococcus dysgalactiae species group : Gene content, molecular adaptation, and promoter evolution

Haruo Suzuki , Tristan Lefébure , Melissa Jane Hubisz , Paulina Pavinski Bitar , Ping Lang
Genome Biology and Evolution, 2011, 3, pp.168-185. ⟨10.1093/gbe/evr006⟩
Journal articles halsde-00579903v1

Expanded Multilocus Sequence Typing and Comparative Genomic Hybridization of Campylobacter coli Isolates from Multiple Hosts

Ping Lang , Tristan Lefébure , Wei Wang , Paulina Pavinski Bitar , Richard J. Meinersmann
Applied and Environmental Microbiology, 2010, 76 (6), pp.1913-1925. ⟨10.1128/aem.01753-09⟩
Journal articles halsde-00958684v1

Evolutionary Dynamics of Complete Campylobacter Pan-Genomes and the Bacterial Species Concept

Tristan Lefébure , Paulina Pavinski Bitar , Haruo Suzuki , Michael J Stanhope
Genome Biology and Evolution, 2010, 2, pp.646-655. ⟨10.1093/gbe/evq048⟩
Journal articles halsde-00958687v1

Relationships between environmental variables and groundwater biodiversity at the regional scale. In: Freshwater Biology Special Issue, Assessing and Conserving Groundwater Biodiversity (Eds. J. Gibert & D.C. Culver)

Marie-José Dole-Olivier , Florian Malard , Dominique P. Martin , Tristan Lefébure , Janine Gibert
Freshwater Biology, 2009, 54, pp.797-813. ⟨10.1111/j.1365-2427.2009.02184.x⟩
Journal articles halsde-00370421v1

Pervasive, genome-wide positive selection leading to functional divergence in the bacterial genus Campylobacter

T. Lefébure , M. Stanhope
Genome Research, 2009, 19 (7), pp.1224-1232. ⟨10.1101/gr.089250.108⟩
Journal articles hal-03034739v1

A molecular test for cryptic diversity in ground water : how large are the ranges of macro-stygobionts ? In: Freshwater Biology Special Issue, Assessing and Conserving Groundwater Biodiversity (Eds. J. Gibert & D.C. Culver)

Peter Trontelj , Christophe Jean Douady , Cene Fiser , Janine Gibert , Spela Goricki
Freshwater Biology, 2009, 54, pp.727-744. ⟨10.1111/j.1365-2427.2007.01877.x⟩
Journal articles halsde-00378197v1

Gene content differences across strains of Streptococcus uberis identified using oligonucleotide microarray comparative genomic hybridization

Ping Lang , Tristan Lefébure , W. Wang , Ruth N. Zadoks , Ynte Schukken
Infection, Genetics and Evolution, 2009, 9 (2), pp.179-188. ⟨10.1016/j.meegid.2008.10.015⟩
Journal articles hal-03034836v1

Positive selection in penicillin-binding proteins 1a, 2b, and 2x from Streptococcus pneumoniae and its correlation with amoxicillin resistance development

Michael Stanhope , Tristan Lefébure , Stacey Walsh , Julie Becker , Ping Lang
Infection, Genetics and Evolution, 2008, 8 (3), pp.331-339. ⟨10.1016/j.meegid.2008.02.001⟩
Journal articles hal-03034737v1

The imprint of quaternary glaciers on the present-day distribution of the obligate groundwater amphipod Niphargus virei (Niphargidae)

Arnaud Foulquier , Florian Malard , Tristan Lefébure , Christophe Jean Douady , Janine Gibert
Journal of Biogeography, 2008, 35, pp.552-564. ⟨10.1111/j.1365-2699.2007.01795.x⟩
Journal articles halsde-00264658v1

Testing dispersal and cryptic diversity in a widely distributed groundwater amphipod (Niphargus rhenorhodanensis).

T. Lefébure , Christophe Jean Douady , Florian Malard , Janine Gibert
Molecular Phylogenetics and Evolution, 2007, 42 (3), pp.676-686. ⟨10.1016/j.ympev.2006.08.020⟩
Journal articles halsde-00157625v1

The relative frequency of intraspecific lateral gene transfer of penicillin binding proteins 1a, 2b, and 2x, in amoxicillin resistant Streptococcus pneumoniae

Michael Stanhope , Stacey Walsh , Tristan Lefébure , Ping Lang , Paulina Bitar
Infection, Genetics and Evolution, 2007, 7 (4), pp.520-534. ⟨10.1016/j.meegid.2007.03.004⟩
Journal articles hal-03034686v1
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Evolution of the core and pan-genome of Streptococcus: positive selection, recombination, and genome composition

Tristan Lefébure , Michael J Stanhope
Genome Biology, 2007, 8 (5), pp.R71. ⟨10.1186/gb-2007-8-5-r71⟩
Journal articles hal-03034694v1

Phylogeography of a subterranean amphipod reveals cryptic diversity and dynamic evolution in extreme environments

T. Lefébure , C.J. Douady , Manolo Gouy , P. Trontel , J. Briolay
Molecular Ecology, 2006, 15, pp.1797-1806. ⟨10.1111/j.1365-294X.2006.02888.x⟩
Journal articles hal-00427985v1

Relationship between morphological taxonomy and molecular divergence within Crustacea : Proposal of a molecular threshold to help species delimitation

T. Lefébure , C.J. Douady , Manolo Gouy , J. Gibert
Molecular Phylogenetics and Evolution, 2006, 40 (2), pp.435-447. ⟨10.1016/j.ympev.2006.03.014⟩
Journal articles hal-00427988v1

De l'influence des glaciations du Quaternaire sur les crustacés aquatiques souterains.

Christophe Jean Douady , Florian Malard , T. Lefébure , Julien Issartel , J. Azzarotto
Nature et Patrimoine en Pays de Savoie, 2006, 18 (3), pp.26-29
Journal articles halsde-00157681v1