QEM main publications


Tenaillon O, Barrick JE, Ribeck N, Deatherage DE, Blanchard JL, Dasgupta A, Wu GC, Wielgoss S, Cruveiller S, Médigue C, Schneider D, Lenski RE
Tempo and mode of genome evolution in a 50,000-generation experiment.
Nature 2016, 536, 165-170.

Figliuzzi M, Jacquier H, Schug A, Tenaillon O, Weigt M
Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1.
Molecular Biology and Evolution 2016, 33, 268-280.

Feugeas JP, Tourret J, Launay A, Bouvet O, Hoede C, Denamur E, Tenaillon O
Links between Transcription, Environmental Adaptation and Gene Variability in Escherichia coli: Correlations between Gene Expression and Gene Variability Reflect Growth Efficiencies.
Molecular Biology and Evolution 2016

Long A, Liti G, Luptak A, Tenaillon O
Elucidating the molecular architecture of adaptation via evolve and resequence experiments.
Nature Reviews. Genetics 2015, 16, 567-582.

Blanquart F, Achaz G, Bataillon T, Tenaillon O
Properties of selected mutations and genotypic landscapes under Fisher's geometric model.
Evolution; International Journal of Organic Evolution 2014, 68, 3537-3554.

Jacquier H, Birgy A, Le Nagard H, Mechulam Y, Schmitt E, Glodt J, Bercot B, Petit E, Poulain J, Barnaud G, Gros PA, Tenaillon O
Capturing the mutational landscape of the beta-lactamase TEM-1.
Proceedings of the National Academy of Sciences of the United States of America 2013, 110, 13067–13072.

Silander OK, Tenaillon O, Chao L
Understanding the Evolutionary Fate of Finite Populations: The Dynamics of Mutational Effects.
PLoS Biol 2007, 5, e94.

Bjedov I, Tenaillon O, Gérard B, Souza V, Denamur E, Radman M, Taddei F, Matic I
Stress-induced mutagenesis in bacteria.
Science (New York, N.Y.) 2003, 300, 1404-1409.

QEM exhaustive list of publications


(click to expand or collapse)

 2020                                                                            

Birgy A, Madhi F, Jung C, Levy C, Cointe A, Bidet P, Hobson CA, Bechet S, Sobral E, Vuthien H, Ferroni A, Aberrane S, Cuzon G, Beraud L, Gajdos V, Launay E, Pinquier D, Haas H, Desmarest M, Dommergues MA, Cohen R, Bonacorsi S, GotNOoUtIdtEpEic
Diversity and trends in population structure of ESBL-producing Enterobacteriaceae in febrile urinary tract infections in children in France from 2014 to 2017.
The Journal of Antimicrobial Chemotherapy 2020, 75, 96-105.

 2019                                                                            

Cointe A, de Ponfilly GP, Munier AL, Bachir M, Benmansour H, Crémieux AC, Forien M, Frazier A, Krief E, Cambau E, Jacquier H
Native joint septic arthritis due to Clostridium tarantellae.
Anaerobe 2019, 56, 46-48.

Amarsy R, Guéret D, Benmansour H, Flicoteaux R, Berçot B, Meunier F, Mougari F, Jacquier H, Pean de Ponfilly G, Clermont O, Denamur E, Teixeira A, Cambau E
Determination of Escherichia coli phylogroups in elderly patients with urinary tract infection or asymptomatic bacteriuria.
Clinical Microbiology and Infection: The Official Publication of the European Society of Clinical Microbiology and Infectious Diseases 2019, 25, 839-844.

Royer G, Melloul E, Roisin L, Courbin V, Jacquier H, Lepeule R, Coutte L, Darty M, Fihman V, Lim P, Decousser JW, Rodriguez C, Woerther PL
Complete genome sequencing of Enterococcus faecalis strains suggests role of Ebp deletion in infective endocarditis relapse.
Clinical Microbiology and Infection: The Official Publication of the European Society of Clinical Microbiology and Infectious Diseases 2019, 25, 1565-1567.

Pilmis B, Lourtet-Hascoët J, Barraud O, Piau C, Isnard C, Hery-Arnaud G, Amara M, Merens A, Farfour E, Thomas E, Jacquier H, Zahar JR, Bonnet E, Monnier AL, Cattoir V, Corvec S, Boutoille D, de Ponfilly GP, Reissier S, GSG
Be careful about MICs to amoxicillin for patients with Streptococci-related infective endocarditis.
International Journal of Antimicrobial Agents 2019, 53, 850-854.

Philippon A, Jacquier H, Ruppé E, Labia R
Structure-based classification of class A beta-lactamases, an update.
Current Research in Translational Medicine 2019, 67, 115-122.

Couce A, Tenaillon O
Mutation bias and GC content shape antimutator invasions.
Nature Communications 2019, 10, 3114.

Lescat M, Poirel L, Jayol A, Nordmann P
Performances of the Rapid Polymyxin Acinetobacter and Pseudomonas Tests for Colistin Susceptibility Testing.
Microbial Drug Resistance (Larchmont, N.Y.) 2019, 25, 520-523.

Bourrel AS, Poirel L, Royer G, Darty M, Vuillemin X, Kieffer N, Clermont O, Denamur E, Nordmann P, Decousser JW, IRG
Colistin resistance in Parisian inpatient faecal Escherichia coli as the result of two distinct evolutionary pathways.
The Journal of Antimicrobial Chemotherapy 2019, 74, 1521-1530.

Kemble H, Nghe P, Tenaillon O
Recent insights into the genotype-phenotype relationship from massively parallel genetic assays.
Evolutionary Applications 2019, 12, 1721-1742.

Ghalayini M, Magnan M, Dion S, Zatout O, Bourguignon L, Tenaillon O, Lescat M
Long-term evolution of the natural isolate of Escherichia coli 536 in the mouse gut colonized after maternal transmission reveals convergence in the constitutive expression of the lactose operon.
Molecular Ecology 2019, 28, 4470-4485.

Birgy A, Levy C, Nicolas-Chanoine MH, Cointe A, Hobson CA, Magnan M, Bechet S, Bidet P, Cohen R, Bonacorsi S
Independent Host Factors and Bacterial Genetic Determinants of the Emergence and Dominance of Escherichia coli Sequence Type 131 CTX-M-27 in a Community Pediatric Cohort Study.
Antimicrobial Agents and Chemotherapy 2019, 63,

Kieffer N, Royer G, Decousser JW, Bourrel AS, Palmieri M, Ortiz De La Rosa JM, Jacquier H, Denamur E, Nordmann P, Poirel L
mcr-9, an Inducible Gene Encoding an Acquired Phosphoethanolamine Transferase in Escherichia coli, and Its Origin.
Antimicrobial Agents and Chemotherapy 2019, 63,

Mahérault AC, Kemble H, Magnan M, Gachet B, Roche D, Le Nagard H, Tenaillon O, Denamur E, Branger C, Landraud L
Advantage of the F2:A1:B- IncF Pandemic Plasmid over IncC Plasmids in In Vitro Acquisition and Evolution of blaCTX-M Gene-Bearing Plasmids in Escherichia coli.
Antimicrobial Agents and Chemotherapy 2019, 63,

Burdet C, Grall N, Linard M, Bridier-Nahmias A, Benhayoun M, Bourabha K, Magnan M, Clermont O, d'Humières C, Tenaillon O, Denamur E, Massias L, Tubiana S, Alavoine L, Andremont A, Mentré F, Duval X, CG
Ceftriaxone and Cefotaxime Have Similar Effects on the Intestinal Microbiota in Human Volunteers Treated by Standard-Dose Regimens.
Antimicrobial Agents and Chemotherapy 2019, 63,

Hobson CA, Bonacorsi S, Fahd M, Baruchel A, Cointe A, Poey N, Jacquier H, Doit C, Monjault A, Tenaillon O, Birgy A
Successful Treatment of Bacteremia Due to NDM-1-Producing Morganella morganii with Aztreonam and Ceftazidime-Avibactam Combination in a Pediatric Patient with Hematologic Malignancy.
Antimicrobial Agents and Chemotherapy 2019, 63,

Caméléna F, Birgy A, Smail Y, Courroux C, Mariani-Kurkdjian P, Le Hello S, Bonacorsi S, Bidet P
Rapid and Simple Universal Escherichia coli Genotyping Method Based on Multiple-Locus Variable-Number Tandem-Repeat Analysis Using Single-Tube Multiplex PCR and Standard Gel Electrophoresis.
Applied and Environmental Microbiology 2019, 85,

Lescat M, Poirel L, Tinguely C, Nordmann P
A Resazurin Reduction-Based Assay for Rapid Detection of Polymyxin Resistance in Acinetobacter baumannii and Pseudomonas aeruginosa.
Journal of Clinical Microbiology 2019, 57,

Garnier M, Gallah S, Vimont S, Benzerara Y, Labbe V, Constant AL, Siami S, Guerot E, Compain F, Mainardi JL, Montil M, Quesnel C, BCsg
Multicentre randomised controlled trial to investigate usefulness of the rapid diagnostic βLACTA test performed directly on bacterial cell pellets from respiratory, urinary or blood samples for the early de-escalation of carbapenems in septic intensive care unit patients: the BLUE-CarbA protocol.
BMJ open 2019, 9, e024561.

Geslain G, Birgy A, Adiba S, Magnan M, Courroux C, Levy C, Cohen R, Bidet P, Bonacorsi S
Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France.
BMC microbiology 2019, 19, 17.

Cointe A, Walewski V, Hobson CA, Doit C, Bidet P, Dortet L, Bonacorsi S, Birgy A
Rapid Carbapenemase Detection With Xpert Carba-R V2 Directly On Positive Blood Vials.
Infection and Drug Resistance 2019, 12, 3311-3316.

Poncin T, Merimeche M, Braille A, Mainardis M, Bebear C, Jacquier H, Berçot B
Two cases of multidrug-resistant Neisseria gonorrhoeae related to travel in south-eastern Asia, France, June 2019.
Euro Surveillance: Bulletin Europeen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin 2019, 24,

 2018                                                                            

de Lastours V, Goulenok T, Guérin F, Jacquier H, Eyma C, Chau F, Cattoir V, Fantin B
Ceftriaxone promotes the emergence of AmpC-overproducing Enterobacteriaceae in gut microbiota from hospitalized patients.
European Journal of Clinical Microbiology & Infectious Diseases: Official Publication of the European Society of Clinical Microbiology 2018, 37, 417-421.

Morel F, Jacquier H, Desroches M, Fihman V, Kumanski S, Cambau E, Decousser JW, Berçot B
Use of Andromas and Bruker MALDI-TOF MS in the identification of Neisseria.
European Journal of Clinical Microbiology & Infectious Diseases: Official Publication of the European Society of Clinical Microbiology 2018, 37, 2273-2277.

Tran Quang V, Bidet P, Birgy A, Caseris M, Basmaci R, Bonacorsi S
Susceptibility testing of Kingella kingae to cefazolin.
Clinical Microbiology and Infection: The Official Publication of the European Society of Clinical Microbiology and Infectious Diseases 2018, 24, 312-313.

Lescat M, Poirel L, Nordmann P
Rapid multiplex polymerase chain reaction for detection of mcr-1 to mcr-5 genes.
Diagnostic Microbiology and Infectious Disease 2018, 92, 267-269.

Garinet S, Fihman V, Jacquier H, Corvec S, Le Monnier A, Guillard T, Cattoir V, Zahar JR, Woerther PL, Carbonnelle E, Wargnier A, Kernéis S, Morand PC, G
Elective distribution of resistance to beta-lactams among Enterobacter cloacae genetic clusters.
The Journal of Infection 2018, 77, 178-182.

Tenaillon O
Experimental evolution heals the scars of genome-scale recoding.
Proceedings of the National Academy of Sciences of the United States of America 2018, 115, 2853-2855.

Limelette A, Giusti D, Anuset D, Beaupuis C, Jacquier H, De Champs C, Bani-Sadr F, Guillard T, N'Guyen Y
Amoxicillin-tolerant Pasteurella multocida strain isolated from chronic dermohypodermitis after suboptimal exposure to amoxicillin is not associated with reduced growth rate.
Journal of Medical Microbiology 2018

Branger C, Ledda A, Billard-Pomares T, Doublet B, Fouteau S, Barbe V, Roche D, Cruveiller S, Médigue C, Castellanos M, Decré D, Drieux-Rouze L, Clermont O, Glodt J, Tenaillon O, Cloeckaert A, Arlet G, Denamur E
Extended-spectrum β-lactamase-encoding genes are spreading on a wide range of Escherichia coli plasmids existing prior to the use of third-generation cephalosporins.
Microbial Genomics 2018

Birgy A, Madhi F, Hogan J, Doit C, Gaschignard J, Caseris M, Bidet P, Cohen R, Bonacorsi S
CTX-M-55-, MCR-1-, and FosA-Producing Multidrug-Resistant Escherichia coli Infection in a Child in France.
Antimicrobial Agents and Chemotherapy 2018, 62,

Cointe A, Bonacorsi S, Truong J, Hobson C, Doit C, Monjault A, Bidet P, Birgy A
Detection of Carbapenemase-Producing Enterobacteriaceae in Positive Blood Culture Using an Immunochromatographic RESIST-4 O.K.N.V. Assay.
Antimicrobial Agents and Chemotherapy 2018, 62,

Ghalayini M, Launay A, Bridier-Nahmias A, Clermont O, Denamur E, Lescat M, Tenaillon O
Evolution of a Dominant Natural Isolate of Escherichia coli in the Human Gut over the Course of a Year Suggests a Neutral Evolution with Reduced Effective Population Size.
Applied and Environmental Microbiology 2018, 84,

Caméléna F, Cointe A, Mathy V, Hobson C, Doit C, Bercot B, Decré D, Podglajen I, Dortet L, Monjault A, Bidet P, Bonacorsi S, Birgy A
Within-a-Day Detection and Rapid Characterization of Carbapenemase by Use of a New Carbapenem Inactivation Method-Based Test, CIMplus.
Journal of Clinical Microbiology 2018, 56,

Cointe A, Birgy A, Mariani-Kurkdjian P, Liguori S, Courroux C, Blanco J, Delannoy S, Fach P, Loukiadis E, Bidet P, Bonacorsi S
Emerging Multidrug-Resistant Hybrid Pathotype Shiga Toxin-Producing Escherichia coli O80 and Related Strains of Clonal Complex 165, Europe.
Emerging Infectious Diseases 2018, 24, 2262-2269.

 2017                                                                            

Koskas P, Henry-Feugeas MC, Feugeas JP, Ou P, Drunat O
Factors Of Rapid Cognitive Decline In Late Onset Alzheimer's Disease.
Current Aging Science 2017

Rasoanandrasana S, Decousser JW, Cattoir V, Berçot B, Domrane C, Fihman V, Grillon A, Lesenne A, Raskine L, Cambau E, Jacquier H
Use of ESwab in the Xpert® vanA/vanB PCR assay.
European Journal of Clinical Microbiology & Infectious Diseases: Official Publication of the European Society of Clinical Microbiology 2017, 36, 755-756.

Micaëlo M, Goubard A, La Ruche G, Denamur E, Tenaillon O, Cambau E, Jacquier H, Bercot B
Molecular epidemiology of penicillinase-producing Neisseria gonorrhoeae isolates in France.
Clinical Microbiology and Infection: The Official Publication of the European Society of Clinical Microbiology and Infectious Diseases 2017, 23, 968-973.

Simon-Tillaux N, Rouvier P, Deray G, Isnard-Bagnis C, Tourret J
[Lack of energy in a patient living with HIV].
Nephrologie & Therapeutique 2017

Tashk P, Lecronier M, Clermont O, Renvoisé A, Aubry A, Barrou B, Hertig A, Lescat M, Tenaillon O, Denamur E, Tourret J
[Molecular epidemiology and kinetics of early Escherichia coli urinary tract infections in kidney transplant recipients].
Nephrologie & Therapeutique 2017, 13, 236-244.

Charlier C, Perrodeau É, Leclercq A, Cazenave B, Pilmis B, Henry B, Lopes A, Maury MM, Moura A, Goffinet F, Dieye HB, Thouvenot P, Ungeheuer MN, Tourdjman M, Goulet V, de Valk H, Lortholary O, Ravaud P, Lecuit M, Msg
Clinical features and prognostic factors of listeriosis: the MONALISA national prospective cohort study.
The Lancet. Infectious Diseases 2017, 17, 510-519.

Couce A, Caudwell LV, Feinauer C, Hindré T, Feugeas JP, Weigt M, Lenski RE, Schneider D, Tenaillon O
Mutator genomes decay, despite sustained fitness gains, in a long-term experiment with bacteria.
Proceedings of the National Academy of Sciences of the United States of America 2017, 114, E9026-E9035.

Lebeaux D, Freund R, van Delden C, Guillot H, Marbus SD, Matignon M, Van Wijngaerden E, Douvry B, De Greef J, Vuotto F, Tricot L, Fernández-Ruiz M, Dantal J, Hirzel C, Jais JP, Rodriguez-Nava V, Jacobs F, Lortholary O, Coussement J, ESGfNiSOT, ESGfNiSOT
Outcome and Treatment of Nocardiosis After Solid Organ Transplantation: New Insights From a European Study.
Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America 2017, 64, 1396-1405.

Birgy A, Delecourt M, Geslain G, Desselas E, Caseris M, Magnan M, Mariani-Kurkdjian P, Bidet P, Bonacorsi S
A combination of mecillinam and amoxicillin/clavulanate can restore susceptibility of high-level TEM-1-producing Escherichia coli to mecillinam.
The Journal of Antimicrobial Chemotherapy 2017, 72, 1911-1914.

Masson-Behar V, Jacquier H, Richette P, Ziza JM, Zeller V, Rioux C, Coustet B, Dieudé P, Ottaviani S
Arthritis secondary to meningococcal disease: A case series of 7 patients.
Medicine 2017, 96, e7573.

Tourret J, Willing BP, Dion S, MacPherson J, Denamur E, Finlay BB
Immunosuppressive Treatment Alters Secretion of Ileal Antimicrobial Peptides and Gut Microbiota, and Favors Subsequent Colonization by Uropathogenic Escherichia coli.
Transplantation 2017, 101, 74-82.

Isnard Bagnis C, Couchoud C, Bowens M, Sarraj A, Deray G, Tourret J, Cacoub P, Tezenas du Montcel S
Epidemiology update for hepatitis C virus and hepatitis B virus in end-stage renal disease in France.
Liver International: Official Journal of the International Association for the Study of the Liver 2017

Lescat M, Launay A, Ghalayini M, Magnan M, Glodt J, Pintard C, Dion S, Denamur E, Tenaillon O
Using long-term experimental evolution to uncover the patterns and determinants of molecular evolution of an Escherichia coli natural isolate in the streptomycin-treated mouse gut.
Molecular Ecology 2017, 26, 1802-1817.

Bidet P, Tran Quang V, Yagusky P, Birgy A, Bonacorsi S, Basmaci R
Investigation of Kingella kingae Invasive Infection Outbreaks in Day Care Facilities: Assessment of a Rapid Genotyping Tool Targeting the DNA Uptake Sequence.
Journal of Clinical Microbiology 2017, 55, 2422-2430.

Ailioaie O, Arzouk N, Valantin MA, Tourret J, Calin RO, Turinici M, Mircescu G, Barrou B
Infectious complications in HIV-infected kidney transplant recipients.
International journal of STD & AIDS 2017, 956462417726213.

Tourret J, Benabdellah N, Drouin S, Charlotte F, Rottembourg J, Arzouk N, Fekkar A, Barrou B
Unique case report of a chromomycosis and Listeria in soft tissue and cerebellar abscesses after kidney transplantation.
BMC infectious diseases 2017, 17, 288.

Bosshard L, Dupanloup I, Tenaillon O, Bruggmann R, Ackermann M, Peischl S, Excoffier L
Accumulation of Deleterious Mutations During Bacterial Range Expansions.
Genetics 2017

Bousquet G, El Bouchtaoui M, Sophie T, Leboeuf C, de Bazelaire C, Ratajczak P, Giacchetti S, de Roquancourt A, Bertheau P, Verneuil L, Feugeas JP, Espié M, Janin A
Targeting autophagic cancer stem-cells to reverse chemoresistance in human triple negative breast cancer.
Oncotarget 2017

Furet E, El Bouchtaoui M, Feugeas JP, Miquel C, Leboeuf C, Beytout C, Bertheau P, Le Rhun E, Bonneterre J, Janin A, Bousquet G
Increased risk of brain metastases in women with breast cancer and p16 expression in metastatic lymph-nodes.
Oncotarget 2017

Birgy A, Bidet P, Levy C, Sobral E, Cohen R, Bonacorsi S
CTX-M-27-Producing Escherichia coli of Sequence Type 131 and Clade C1-M27, France.
Emerging Infectious Diseases 2017, 23, 885.

 2016                                                                            

Couce A, Alonso-Rodriguez N, Costas C, Oliver A, Blázquez J
Intrapopulation variability in mutator prevalence among urinary tract infection isolates of Escherichia coli.
Clinical Microbiology and Infection: The Official Publication of the European Society of Clinical Microbiology and Infectious Diseases 2016, 22, 566.e1-7.

Mohammedi K, Patente TA, Bellili-Muñoz N, Driss F, Le Nagard H, Fumeron F, Roussel R, Hadjadj S, Corrêa-Giannella ML, Marre M, Velho G
Glutathione peroxidase-1 gene (GPX1) variants, oxidative stress and risk of kidney complications in people with type 1 diabetes.
Metabolism: Clinical and Experimental 2016, 65, 12-19.

Isnard-Bagnis C, Aloy B, Deray G, Tourret J
[Tenofovir nephrotoxicity].
Néphrologie & Thérapeutique 2016, 12, 179-189.

Tourret J, Hertig A
[The inner life of Lactobacillus].
Néphrologie & Thérapeutique 2016, 12, 190-192.

Drouin S, Raux M, Tourret J, Lebreton G, Coffin G, Cohen J, Arzouk N, Ourahma S, Parra J, Riou B, Leprince P, Barrou B
Transplantation rénale issue de donneurs décédés d’arrêt cardiaque de la catégorie III de Maastricht. Résultats après un an d’expérience.
Progrès en Urologie 2016, 26, 709.

Drouin S, Tourret J, Arzouk N, Cohen J, Coffin G, Parra J, Barrou B
L’emploi de la solution de préservation SCOT 15® pourrait réduire l’incidence des rejets aigus en transplantation rénale.
Progrès en Urologie 2016, 26, 710.

Tenaillon O, Barrick JE, Ribeck N, Deatherage DE, Blanchard JL, Dasgupta A, Wu GC, Wielgoss S, Cruveiller S, Médigue C, Schneider D, Lenski RE
Tempo and mode of genome evolution in a 50,000-generation experiment.
Nature 2016, 536, 165-170.

Coussement J, Lebeaux D, van Delden C, Guillot H, Freund R, Marbus S, Melica G, Van Wijngaerden E, Douvry B, Van Laecke S, Vuotto F, Tricot L, Fernández-Ruiz M, Dantal J, Hirzel C, Jais JP, Rodriguez-Nava V, Lortholary O, Jacobs F, ESGfNiSOT
Nocardia Infection in Solid Organ Transplant Recipients: A Multicenter European Case-control Study.
Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America 2016, 63, 338-345.

Belkacem A, Jacquier H, Goubard A, Mougari F, La Ruche G, Patey O, Micaëlo M, Semaille C, Cambau E, Bercot B
Molecular epidemiology and mechanisms of resistance of azithromycin-resistant Neisseria gonorrhoeae isolated in France during 2013-14.
The Journal of Antimicrobial Chemotherapy 2016, 71, 2471-2478.

Birgy A, Levy C, Bidet P, Thollot F, Derkx V, Béchet S, Mariani-Kurkdjian P, Cohen R, Bonacorsi S
ESBL-producing Escherichia coli ST131 versus non-ST131: evolution and risk factors of carriage among French children in the community between 2010 and 2015.
The Journal of Antimicrobial Chemotherapy 2016, 71, 2949-2956.

Figliuzzi M, Jacquier H, Schug A, Tenaillon O, Weigt M
Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1.
Molecular Biology and Evolution 2016, 33, 268-280.

Rodríguez-Verdugo A, Tenaillon O, Gaut BS
First-Step Mutations during Adaptation Restore the Expression of Hundreds of Genes.
Molecular Biology and Evolution 2016, 33, 25-39.

Skurnik D, Clermont O, Guillard T, Launay A, Danilchanka O, Pons S, Diancourt L, Lebreton F, Kadlec K, Roux D, Jiang D, Dion S, Ashard H, Denamur M, Cywes-Bentley C, Schwarz S, Tenaillon O, Andremont A, Picard B, Mekalanos J, Brisse S, Denamur E
Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans.
Molecular Biology and Evolution 2016, 33, 898.

Feugeas JP, Tourret J, Launay A, Bouvet O, Hoede C, Denamur E, Tenaillon O
Links between Transcription, Environmental Adaptation and Gene Variability in Escherichia coli: Correlations between Gene Expression and Gene Variability Reflect Growth Efficiencies.
Molecular Biology and Evolution 2016

Guégan S, Garcia-Hermoso D, Sitbon K, Ahmed S, Moguelet P, Dromer F, Lortholary O, FMSG
Ten-Year Experience of Cutaneous and/or Subcutaneous Infections Due to Coelomycetes in France.
Open Forum Infectious Diseases 2016, 3, ofw106.

Caudron A, Battistella M, Feugeas JP, Pages C, Basset-Seguin N, Mazouz Dorval S, Funck Brentano E, Sadoux A, Podgorniak MP, Menashi S, Janin A, Lebbé C, Mourah S
EMMPRIN/CD147 is an independent prognostic biomarker in cutaneous melanoma.
Experimental Dermatology 2016

Val ME, Marbouty M, de Lemos Martins F, Kennedy SP, Kemble H, Bland MJ, Possoz C, Koszul R, Skovgaard O, Mazel D
A checkpoint control orchestrates the replication of the two chromosomes of Vibrio cholerae.
Science Advances 2016, 2, e1501914.

de Lastours V, Chopin D, Jacquier H, d'Humières C, Burdet C, Chau F, Denamur E, Fantin B
Prospective Cohort Study of the Relative Abundance of Extended-Spectrum-Beta-Lactamase-Producing Escherichia coli in the Gut of Patients Admitted to Hospitals.
Antimicrobial Agents and Chemotherapy 2016, 60, 6941-6944.

de Curraize C, Kumanski S, Micaëlo M, Fournet N, La Ruche G, Meunier F, Amarsy R, Jacquier H, Cambau E, Goubard A, Bercot B
Ceftriaxone-Resistant Neisseria gonorrhoeae Isolates (2010 to 2014) in France Characterized by Using Whole-Genome Sequencing.
Antimicrobial Agents and Chemotherapy 2016, 60, 6962-6964.

Bidet P, Basmaci R, Guglielmini J, Doit C, Jost C, Birgy A, Bonacorsi S
Genome Analysis of Kingella kingae Strain KWG1 Reveals How a β-Lactamase Gene Inserted in the Chromosome of This Species.
Antimicrobial Agents and Chemotherapy 2016, 60, 703-708.

Tourret J, Denamur E
Population Phylogenomics of Extraintestinal Pathogenic Escherichia coli.
Microbiology Spectrum 2016

Tourret J, Willing BP, Croxen MA, Dufour N, Dion S, Wachtel S, Denamur E, Finlay BB
Small Intestine Early Innate Immunity Response during Intestinal Colonization by Escherichia coli Depends on Its Extra-Intestinal Virulence Status.
PloS One 2016, 11, e0153034.

Couce A, Rodríguez-Rojas A, Blázquez J
Determinants of Genetic Diversity of Spontaneous Drug Resistance in Bacteria.
Genetics 2016, 203, 1369-1380.

Houamel D, Ducrot N, Lefebvre T, Daher R, Moulouel B, Sari MA, Letteron P, Lyoumi S, Millot S, Tourret J, Bouvet O, Vaulont S, Vandewalle A, Denamur E, Puy H, Beaumont C, Gouya L, Karim Z
Hepcidin as a Major Component of Renal Antibacterial Defenses against Uropathogenic Escherichia coli.
Journal of the American Society of Nephrology: JASN 2016, 27, 835-846.

Romero M, Gapihan G, Castro-Vega LJ, Acevedo A, Wang L, Li ZW, El Bouchtaoui M, Di Benedetto M, Ratajczak P, Feugeas JP, Thieblemont C, Saavedra C, Janin A
Primary mediastinal large B-cell lymphoma: transcriptional regulation by miR-92a through FOXP1 targeting.
Oncotarget 2016

Delyon J, Varna M, Feugeas JP, Sadoux A, Yahiaoui S, Podgorniak MP, Leclert G, Dorval SM, Dumaz N, Janin A, Mourah S, Lebbé C
Validation of a preclinical model for assessment of drug efficacy in melanoma.
Oncotarget 2016, 7, 13069-13081.

Ghalayini M, Brun PY, Augustin P, Guivarch E, Dilly MP, Provenchere S, Mordant P, Castier Y, Montravers P, Longrois D
Esmolol Corrects Severe Hypoxemia in Patients with Femoro-Femoral Venoarterial Extracorporeal Life Support for Lung Transplantation.
The Journal of Extra-Corporeal Technology 2016, 48, 113-121.

 2015                                                                            

Amarsy-Guerle R, Mougari F, Jacquier H, Oliary J, Benmansour H, Riahi J, Berçot B, Raskine L, Cambau E
High medical impact of implementing the new polymeric bead-based BacT/ALERT® FAPlus and FNPlus blood culture bottles in standard care.
European Journal of Clinical Microbiology & Infectious Diseases: Official Publication of the European Society of Clinical Microbiology 2015, 34, 1031-1037.

Jacquier H, Benmansour H, Zadegan F, Hannouche D, Micaelo M, Mongiat-Artus P, Salomon E, Cambau E, Berçot B
Actinobaculum schaalii, a new cause of knee prosthetic joint infection in elderly.
Infection 2015

Le Monnier A, Duburcq A, Zahar JR, Corvec S, Guillard T, Cattoir V, Woerther PL, Fihman V, Lalande V, Jacquier H, Mizrahi A, Farfour E, Morand P, Marcadé G, Coulomb S, Torreton E, Fagnani F, Barbut F, GSG
Hospital cost of Clostridium difficile infection including the contribution of recurrences in French acute-care hospitals.
The Journal of Hospital Infection 2015, 91, 117-122.

Osio A, Battistella M, Feugeas JP, Cuccuini W, Noguera ME, Petrella T, Raffoux E, Janin A, Pennamen V
Myelodysplasia Cutis Versus Leukemia Cutis.
The Journal of Investigative Dermatology 2015, 135, 2321-2324.

Battistella M, Romero M, Castro-Vega LJ, Gapihan G, Bouhidel F, Bagot M, Feugeas JP, Janin A
The High Expression of the microRNA 17-92 Cluster and its Paralogs, and the Downregulation of the Target Gene PTEN, Is Associated with Primary Cutaneous B-Cell Lymphoma Progression.
The Journal of Investigative Dermatology 2015, 135, 1659-1667.

Long A, Liti G, Luptak A, Tenaillon O
Elucidating the molecular architecture of adaptation via evolve and resequence experiments.
Nature Reviews. Genetics 2015, 16, 567-582.

Nghe P, Hordijk W, Kauffman SA, Walker SI, Schmidt FJ, Kemble H, Yeates JAM, Lehman N
Prebiotic network evolution: six key parameters.
Molecular bioSystems 2015, 11, 3206-3217.

Abgrall S, Rachas A, Tourret J, Isnard-Bagnis C, Billaud E, Tattevin P, Costagliola D, Guiguet M, Durieux P, FHDoH
A multifaceted intervention designed to improve medical management of moderate to advanced chronic kidney disease in HIV-infected patients: a cluster randomized trial.
Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America 2015, 61, 375-384.

Rodríguez-Beltrán J, Tourret J, Tenaillon O, López E, Bourdelier E, Costas C, Matic I, Denamur E, Blázquez J
High Recombinant Frequency in Extraintestinal Pathogenic Escherichia coli Strains.
Molecular Biology and Evolution 2015, 32, 1708.

Couce A, Rodríguez-Rojas A, Blázquez J
Bypass of genetic constraints during mutator evolution to antibiotic resistance.
Proc. R. Soc. B 2015, 282, 20142698.

Bridier-Nahmias A, Tchalikian-Cosson A, Baller JA, Menouni R, Fayol H, Flores A, Saïb A, Werner M, Voytas DF, Lesage P
Retrotransposons. An RNA polymerase III subunit determines sites of retrotransposon integration.
Science (New York, N.Y.) 2015, 348, 585-588.

Berçot B, Amarsy R, Goubard A, Aparicio C, Loeung HU, Segouin C, Gueret D, Jacquier H, Meunier F, Mougari F, Cambau E
Assessment of coinfection of sexually transmitted pathogen microbes by use of the anyplex II STI-7 molecular kit.
Journal of Clinical Microbiology 2015, 53, 991-993.

Nahon P, Lescat M, Layese R, Bourcier V, Talmat N, Allam S, Marcellin P, Guyader D, Pol S, Larrey D, De Lédinghen V, Ouzan D, Zoulim F, Roulot D, Tran A, Bronowicki JP, Zarski JP, Goria O, Calès P, Péron JM, Alric L, Bourlière M, Mathurin P, Blanc JF, Abergel A, Serfaty L, Mallat A, Grangé JD, Attali P, Bacq Y, Wartelle C, Dao T, Benhamou Y, Pilette C, Silvain C, Christidis C, Capron D, Bernard-Chabert B, Hillaire S, Di Martino V, Trinchet JC, Moreau R, Roudot-Thoraval F, ACCaMG
Bacterial infection in compensated viral cirrhosis impairs 5-year survival (ANRS CO12 CirVir prospective cohort).
Gut 2015

Varna M, Gapihan G, Feugeas JP, Ratajczak P, Tan S, Ferreira I, Leboeuf C, Setterblad N, Duval A, Verine J, Germain S, Mongiat-Artus P, Janin A, Bousquet G
Stem cells increase in numbers in perinecrotic areas in human renal cancer.
Clinical Cancer Research: An Official Journal of the American Association for Cancer Research 2015, 21, 916-924.

Garinet S, Tourret J, Barete S, Arzouk N, Meyer I, Frances C, Datry A, Mazier D, Barrou B, Fekkar A
Invasive cutaneous Neoscytalidium infections in renal transplant recipients: a series of five cases.
BMC infectious diseases 2015, 15, 535.

Mohammedi K, Bellili-Muñoz N, Marklund SL, Driss F, Le Nagard H, Patente TA, Fumeron F, Roussel R, Hadjadj S, Marre M, Velho G
Plasma extracellular superoxide dismutase concentration, allelic variations in the SOD3 gene and risk of myocardial infarction and all-cause mortality in people with type 1 and type 2 diabetes.
Cardiovascular Diabetology 2015, 14, 845.

Bennabi M, Delorme R, Oliveira J, Fortier C, Lajnef M, Boukouaci W, Feugeas JP, Marzais F, Gaman A, Charron D, Ghaleh B, Krishnamoorthy R, Leboyer M, Tamouza R
Dectin-1 Polymorphism: A Genetic Disease Specifier in Autism Spectrum Disorders?.
PloS One 2015, 10, e0137339.

Bousquet G, El Bouchtaoui M, Leboeuf C, Battistella M, Varna M, Ferreira I, Plassa LF, Hamdan D, Bertheau P, Feugeas JP, Damotte D, Janin A
Tracking sub-clonal TP53 mutated tumor cells in human metastatic renal cell carcinoma.
Oncotarget 2015, 6, 19279-19289.

Couce A, Tenaillon OA
The rule of declining adaptability in microbial evolution experiments.
Frontiers in Genetics 2015, 6, 99.

 2014                                                                            

Achaz G, Rodriguez-Verdugo A, Gaut BS, Tenaillon O
The reproducibility of adaptation in the light of experimental evolution with whole genome sequencing.
Advances in Experimental Medicine and Biology 2014, 781, 211-231.

Bauer R, Mentré F, Kaddouri H, Le Bras J, Le Nagard H
Benefits of a new Metropolis-Hasting based algorithm, in non-linear regression for estimation of ex vivo antimalarial sensitivity in patients infected with two strains.
Computers in Biology and Medicine 2014, 55, 16–25.

Bonnin RA, Poirel L, van der Reijden TJK, Dijkshoorn L, Lescat M, Nordmann P
Carbapenem resistance in a human clinical isolate identified to be closely related to Acinetobacter indicus.
International Journal of Antimicrobial Agents 2014, 44, 345-350.

Shoai Tehrani M, Hajage D, Fihman V, Tankovic J, Cau S, Day N, Visseaux C, Carbonnelle E, Kouatchet A, Cattoir V, Nhan TX, Corvec S, Jacquier H, Jauréguy F, Le Monnier A, Morand P, Zahar JR, obtGdmc
Gram-negative bacteremia: which empirical antibiotic therapy?.
Médecine Et Maladies Infectieuses 2014, 44, 159-166.

Hamy AS, Porcher R, Cuvier C, Giacchetti S, Schlageter MH, Coussieu C, Gronier H, Feugeas JP, Adoui N, Lacorte JM, Poirot C, Mohamed H, Marc E
Ovarian reserve in breast cancer: assessment with anti-Müllerian hormone.
Reproductive Biomedicine Online 2014

Marcadé G, Micol JB, Jacquier H, Raskine L, Donay JL, Nicolas-Viaud S, Rouveau M, Ribaud P, Dombret H, Leclercq R, Cambau E
Outbreak in a haematology unit involving an unusual strain of glycopeptide-resistant Enterococcus faecium carrying both vanA and vanB genes.
The Journal of Antimicrobial Chemotherapy 2014, 69, 500-505.

Plucain J, Hindré T, Le Gac M, Tenaillon O, Cruveiller S, Médigue C, Leiby N, Harcombe WR, Marx CJ, Lenski RE, Schneider D
Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli.
Science (New York, N.Y.) 2014, 343, 1366-1369.

Jost C, Bercot B, Jacquier H, Raskine L, Barranger E, Mouchnino G, Cambau E
Xpert GBS assay for rapid detection of group B streptococcus in gastric fluid samples from newborns.
Journal of Clinical Microbiology 2014, 52, 657-659.

Raeside C, Gaffé J, Deatherage DE, Tenaillon O, Briska AM, Ptashkin RN, Cruveiller S, Médigue C, Lenski RE, Barrick JE, Schneider D
Large chromosomal rearrangements during a long-term evolution experiment with Escherichia coli.
mBio 2014, 5, e01377-01314.

Battistella M, Cribier B, Feugeas JP, Roux J, Le Pelletier F, Pinquier L, Plantier F, CHSotFSoD
Vascular invasion and other invasive features in granular cell tumours of the skin: a multicentre study of 119 cases.
Journal of Clinical Pathology 2014, 67, 19-25.

Koskas P, Henry-Feugeas MC, Feugeas JP, Poissonnet A, Pons-Peyneau C, Wolmark Y, Drunat O
The Lawton Instrumental Activities Daily Living/Activities Daily Living Scales A Sensitive Test to Alzheimer Disease in Community-Dwelling Elderly People?.
Journal of Geriatric Psychiatry and Neurology 2014, 27, 85-93.

Bousquet G, Feugeas JP, Ferreira I, Vercellino L, Jourdan N, Bertheau P, de Bazelaire C, Barranger E, Janin A
Individual xenograft as a personalized therapeutic resort for women with metastatic triple-negative breast carcinoma.
Breast cancer research: BCR 2014, 16, 401.

Lescat M, Reibel F, Pintard C, Dion S, Glodt J, Gateau C, Launay A, Ledda A, Cruvellier S, Tourret J, Tenaillon O
The Conserved nhaAR Operon Is Drastically Divergent between B2 and Non-B2 Escherichia coli and Is Involved in Extra-Intestinal Virulence.
PloS One 2014, 9, e108738.

 2013                                                                            

Dumay A, Feugeas JP, Wittmer E, Lehmann-Che J, Bertheau P, Espié M, Plassa LF, Cottu P, Marty M, André F, Sotiriou C, Pusztai L, de Thé H
Distinct tumor protein p53 mutants in breast cancer subgroups.
International Journal of Cancer. Journal International Du Cancer 2013, 132, 1227-1231.

Jacquier H, Birgy A, Le Nagard H, Mechulam Y, Schmitt E, Glodt J, Bercot B, Petit E, Poulain J, Barnaud G, Gros PA, Tenaillon O
Capturing the mutational landscape of the beta-lactamase TEM-1.
Proceedings of the National Academy of Sciences of the United States of America 2013, 110, 13067–13072.

Wielgoss S, Barrick JE, Tenaillon O, Wiser MJ, Dittmar WJ, Cruveiller S, Chane-Woon-Ming B, Médigue C, Lenski RE, Schneider D
Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load.
Proceedings of the National Academy of Sciences of the United States of America 2013, 110, 222-227.

Jacquier H, Marcadé G, Raffoux E, Dombret H, Woerther PL, Donay JL, Arlet G, Cambau E
In vivo selection of a complex mutant TEM (CMT) from an inhibitor-resistant TEM (IRT) during ceftazidime therapy.
The Journal of Antimicrobial Chemotherapy 2013, 68, 2792-2796.

Mougari F, Jacquier H, Berçot B, Hannouche D, Nizard R, Cambau E, Zadegan F
Prosthetic knee arthritis due to Granulicatella adiacens after dental treatment.
Journal of Medical Microbiology 2013, 62, 1624-1627.

Lescat M, Clermont O, Woerther PL, Glodt J, Dion S, Skurnik D, Djossou F, Dupont C, Perroz G, Picard B, Catzeflis F, Andremont A, Denamur E
Commensal Escherichia coli strains in Guiana reveal a high genetic diversity with host-dependant population structure.
Environmental Microbiology Reports 2013, 5, 49-57.

Woodrow CJ, Dahlström S, Cooksey R, Flegg JA, Le Nagard H, Mentré F, Murillo C, Ménard D, Nosten F, Sriprawat K, Musset L, Quashie NB, Lim P, Fairhurst RM, Nsobya SL, Sinou V, Noedl H, Pradines B, Johnson JD, Guerin PJ, Sibley CH, Le Bras J
High-throughput analysis of antimalarial susceptibility data by the WorldWide Antimalarial Resistance Network (WWARN) in vitro analysis and reporting tool.
Antimicrobial Agents and Chemotherapy 2013, 57, 3121–3130.

Bleibtreu A, Gros PA, Laouénan C, Clermont O, Le Nagard H, Picard B, Tenaillon O, Denamur E
Fitness, stress resistance, and extraintestinal virulence in Escherichia coli.
Infection and Immunity 2013, 81, 2733–2742.

Birgy A, Mariani-Kurkdjian P, Bidet P, Doit C, Genel N, Courroux C, Arlet G, Bingen E
Characterization of extended-spectrum-beta-lactamase-producing Escherichia coli strains involved in maternal-fetal colonization: prevalence of E. coli ST131.
Journal of Clinical Microbiology 2013, 51, 1727-1732.

Díaz-Muñoz SL, Tenaillon O, Goldhill D, Brao K, Turner PE, Chao L
Electrophoretic mobility confirms reassortment bias among geographic isolates of segmented RNA phages.
BMC evolutionary biology 2013, 13, 206.

Rodríguez-Verdugo A, Gaut BS, Tenaillon O
Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress.
BMC evolutionary biology 2013, 13, 50.

Maharjan RP, Gaffé J, Plucain J, Schliep M, Wang L, Feng L, Tenaillon O, Ferenci T, Schneider D
A case of adaptation through a mutation in a tandem duplication during experimental evolution in Escherichia coli.
BMC genomics 2013, 14, 441.

Guglielminotti J, Mentré F, Gaillard J, Ghalayini M, Montravers P, Longrois D
Assessment of pain during labor with pupillometry: a prospective observational study.
Anesthesia and Analgesia 2013, 116, 1057–1062.

Tourret J, Deray G, Isnard-Bagnis C
Tenofovir effect on the kidneys of HIV-infected patients: a double-edged sword?.
Journal of the American Society of Nephrology: JASN 2013, 24, 1519-1527.