Publications

Exposing 24-hour cycles in bile acids of male humans

Adesola T. Bello, Magali H. Sarafian, Elizabeth A. Wimborne, Benita Middleton, Victoria L. Revell, Florence I. Raynaud, Namrata R. Chowdhury, Daan R. van der Veen, Debra J. Skene & Jonathan R. Swann

Towards personalized medicine: a scoping review of immunotherapy in sepsis

Marleen A. Slim1,2*†, Niels van Mourik1,2†, Lieke Bakkerus3, Katherine Fuller4, Lydia Acharya4,
Tatiana Giannidis4, Joanna C. Dionne4,5,6,7, Simon J. W. Oczkowski4,5,6, Mihai G. Netea3, Peter Pickkers8,
Evangelos J. Giamarellos‑Bourboulis9, Marcella C. A. Müller1, Tom van der Poll2,10, W. Joost Wiersinga2,10, in
collaboration with the ImmunoSep Consortium, Alexander P. J. Vlaar1† and Lonneke A. van Vught1,2†

Variability and bias in microbiome metagenomic sequencing: an interlaboratory study comparing experimental protocols

Authors: Samuel P. Forry 1*, Stephanie L. Servetas 1, Jason G. Kralj 1, Keng Soh 2,
Michalis Hadjithomas 3, Raul Cano 4, Martha Carlin 4, Maria G. de Amorim 5, Benjamin Auch 6, Matthew G. Bakker 7, Thais F. Bartelli 5, Juan P. Bustamante 10,8,9, Ignacio Cassol 8, Mauricio Chalita 11, Emmanuel Dias‑Neto 5, Aaron Del Duca 12, Daryl M. Gohl 13,6, Jekaterina Kazantseva 14, Muyideen T. Haruna 15, Peter Menzel 16, Bruno S. Moda 17,5, Lorieza Neuberger‑Castillo 18, Diana N. Nunes 5, Isha R. Patel 19, Rodrigo D. Peralta 10,8, Adrien Saliou 20, Rolf Schwarzer 16, Samantha Sevilla 21,22, Isabella K. T. M. Takenaka 5, Jeremy R. Wang 23, Rob Knight 24, Dirk Gevers 25 & Scott A. Jackson 1
Doi

Development of Mass Spectrometry Imaging on skeletal muscle to characterize the local pro-inflammatory and pro-resolution lipid responses in a vaccination context

Authors: Thomas Ribette, Yannick Charretier, Sébastien Laurent, Patrick Syntin, Emilie Chautard, Xavier Meniche, Marion Darnaud, Frédéric Becquet, Laurent Beloeil, Fabienne Piras-Douce, Josephine Abi-Ghanem
Doi

A single workflow for multi-species blood transcriptomics

Authors: Elody Orcel, Hayat Hage, May Taha, Noémie Boucher, Emilie Chautard, Virginie Courtois & Adrien Saliou
Doi

Multicenter evaluation of gut microbiome profiling by next-generation sequencing reveals major biases in partial-length metabarcoding approach

Authors: Hugo Roume, Stanislas Mondot, Adrien Saliou, Sophie Le Fresne-Languille & Joël Doré
Doi

Metagenomics for the microbiological diagnosis of hospital-acquired pneumonia and ventilator-associated pneumonia (HAP/VAP) in intensive care unit (ICU): a proof-of-concept study

Authors: Morgane Heitz, Albrice Levrat, Vladimir Lazarevic, Olivier Barraud, Stéphane Bland, Emmanuelle Santiago-Allexant, Karen Louis, Jacques Schrenzel & Sébastien Hauser
Doi

Cysteamine-mediated blockade of the glycine cleavage system modulates epithelial cell inflammatory and innate immune responses to viral infection

Authors: Douglas Fraser-Pitt, Derry K. Mercer, Marie-Louise Francis, David Toledo-Aparicio, Daniel W. Smith, Deborah A. O’Neil
Doi

Multispectral in-line hologram reconstruction with aberration compensation applied to Gram-stained bacteria microscopy

In collaboration with bioMérieux & LaHC
Authors: Dylan Brault, Thomas Olivier, Nicolas Faure, Sophie Dixneuf, Chloé Kolytcheff, Elodie Charmette, Ferréol Soulez & Corinne Fournier
Doi

Interspecies comparison of the early transcriptomic changes associated with hepatitis B virus exposure in human and macaque immune cell populations

Authors: Armando Andres Roca Suarez, Séverine Planel, Xavier Grand, Céline Couturier, Trang Tran, Fabrice Porcheray, Jérémie Becker, Frédéric Reynier, Ana Delgado, Elodie Cascales, Loïc Peyrot, Andrea Tamellini, Adrien Saliou, Céline Elie, Chloé Baum, Bao Quoc Vuong, Barbara Testoni, Pierre Roques, Fabien Zoulim, Uzma Hasan, Isabelle Chemin
https://www.frontiersin.org/articles/10.3389/fcimb.2023.1248782/full

Exploring the gut microbiota in patients with pre-diabetes and treatment naïve diabetes type 2 – A pilot Study.

In collaboration with Genetic Analysis SA
Authors: Kristin Gravdal, Katrine H. Kirste, Krzysztofa Grzelak, Graceline Tina Kirubakaran, Philippe Leissner, Adrien Saliou & Christina Casèn
https://bmcendocrdisord.biomedcentral.com/articles/10.1186/s12902-023-01432-0

Single-cell scattering and auto-fluorescence-based fast antibiotic susceptibility testing for gram-negative & gram-positive bacteria

In collaboration with bioMérieux
Authors: Sophie Dixneuf, Anne-Coline Chareire-Kleiberg, Pierre Mahé, Meriem El Azami, Chloé Kolytcheff, Samuel Bellais, Cyril Guyard, Christophe Védrine, Frédéric Mallard, Quentin Josso, Fabian Rol
Doi

Comparison of DNA extraction methods for 16S rRNA gene sequencing in the analysis of the human gut microbiome.

Authors: Céline Elie, Magali Perret, Hayat Hage, Erwin Sentausa, Amy Hesketh, Karen Louis, Asmaà Fritah-Lafont, Philippe Leissner, Carole Vachon, Hervé Rostaing, Frédéric Reynier, Gaspard Gervasi & Adrien Saliou
https://doi.org/10.1038/s41598-023-33959-6

Prior SARS-CoV-2 infection enhances and reshapes spike protein-specific induced by vaccination.

Authors: Véronique Barateau, Loïc Peyrot, Carla Saade, Bruno Pozzetto, Karen Brengel-Pesce, Mad-Hélénie Elsensohn, Omran Allatif, Nicolas Guibert, Christelle Compagnon, Natacha Mariano, Julie Chaix, Sophia Djeballi, Jean-Baptiste Fassier, Bruno Lina, Katia Lefsihane, Maxime Espi, Olivier Thaunat, Jacqueline Marvel, Manuel Rosa-Calatrava, Andres Pizzorno, Delphine Maucourt-Boulch, Laetitia Henaff, Mitra Saadatian-Elahi, Philippe Vanheims, Stéphane Paul, Thierry Walzer, Sophie Trouillet-Assant and Thierry Defrance
DOI: 10.1126/scitranslmed.ade0550

Antimicrobial Resistance: a Biochemical Society position statement.

Authors: Tailise De Souza; G. Rodrigues; Anthony Maxwell; Derry K. Mercer; Orla Lappin
https://doi.org/10.1042/bio_2022_148

A MALDI-TOF MS library for rapid identification of human commensal gut bacteria from the class Clostridia

Authors: Asare Paul-Tetteh, Lee Chi-Hsien, Hürlimann Vera, Teo Youzheng, Cuénod Aline, Akduman Nermin, Gekeler Cordula, Afrizal Afrizal, Corthesy Myriam, Kohout Claire, Thomas Vincent, de Wouters Tomas, Greub Gilbert, Clavel Thomas, Pamer Eric- G, Egli Adrian, Maier Lisa, Vonaesch Pascale
DOI: 10.3389/fmicb.2023.1104707

Deep longitudinal multi-omics analysis of Bordetella pertussis cultivated in bioreactors highlights medium starvations and transitory metabolisms, associated to vaccine antigen biosynthesis variations and global virulence regulation.

Authors: Anziani Paul, Becker Jérémie, Mignon Charlotte, Arnaud-Barbe Nadège, Courtois Virginie, Izac Marie, Pizzato Romain, Abi-Ghanem Joséphine, Tran Viet-Dung, Sarafian Magali, Bunescu Andrei, Garnier Dominique, Abachin Eric, Renauld-Mongénie Geneviève, Guyard Cyril.
DOI: 10.3389/fmicb.2023.1104707

A stratification strategy to predict secondary infection in critical illness-induced immune dysfunction: the REALIST score

Authors: Jan-Alexis Tremblay, Florian Peron, Louis Kreitmann, Julien Textoris, Karen Brengel-Pesce, Anne-Claire Lukaszewicz, Laurence Quemeneur, Christophe Vedrine, Lionel K Tan, Fabienne Venet, Thomas Rimmele, Guillaume Monneret; REALISM study group
DOI 10.1186/s13613-022-01051-3

Immune Profiling Demonstrates a Commin Immune Signature of Delayed Acquired Immunodeficiency in the Patients with Various Etiologies of Severe Injury

Authors: Fabienne Venet, Julien Textoris, Sophie Blein, Mary-Luz Rol, Maxime Bodinier, Bertrand Canard, Pierre Cortez, Boris Meunier, Lionel K Tan, Craig Tipple, Laurence Quemeneur, Frédéric Reynier, Philippe Leissner, Christophe Védrine, Yves Bouffard, Benjamin Delwarde, Olivier Martin, Thibaut Girardot, Cyrille Truc, Andrew D Griffiths, Virginie Moucadel, Alexandre Pachot, Guillaume Monneret, Thomas Rimmelé; REALISM study group

DOI

A gaps-and-needs analysis of vaccine R&D in Europe: Recommendations to improve the research infrastructure

Authors: Stefan Jungblut, Hilde Depraetere, Monika Slezak, Dennis Christensen, Norbert Stockhofe, Laurent Beloeil
10.1016/j.biologicals.2022.02.003

Advances in microfluidic 3D cell culture for preclinical drug development

Authors: M. Russo, C.M Cejas, G. Pitingolo
DOI

Species-targeted sorting and cultivation of commensal bacteria from the gut microbiome using flow cytometry under anaerobic conditions

Authors: Samuel Bellais, Mélanie Nehlich, Maryne Ania, Aurore Duquenoy, Wilfrid Mazier, Ger van den Engh, Jan Baijer, Nicole Simone Treichel, Thomas Clavel, Ilia Belotserkovsky & Vincent Thomas
https://doi.org/10.1186/s40168-021-01206-7

DRAFT Genome sequence of Isolate POC01, a Novel Anaerobic Member of the Oscillospiraceae Family, Isolated from Human Feces

Authors: Victoria Meslier, Florian Plaza Oñate, Maryne Ania, Mélanie Nehlich, Ilia Belotserkovsky, Samuel Bellais, Vincent Thomas
DOI: https://doi.org/10.1128/mra.01134-21

Evolution of FMT – from early clinical to standardized treatments

Authors: Stephanie L Servetas, Phillip J Daschner, Cyril Guyard, Vincent Thomas, Herve Affagard, Chrysi Sergaki, Harry Sokol, Jennifer A Wargo, Gary D Wu, Philippe Sabot
DOI: 10.1016/j.biologicals.2022.01.004

Safety and immunogenicity of a measles-vectored SARS-CoV-2 vaccine candidate, V591/TMV-083, in healthy adults: resuts of a randomized, placebo controlled Phase I study

Authors: Odile Launay, Cécile Artaud, Marie Lachâtre, Mohand Ait-Ahmed, Jelle Klein, Liem Binh Luong Nguyen, Christine Durier, Bastiaan Jansen, Yvonne Tomberger, Nathalie Jolly, Anna Grossmann, Houda Tabbal, Jérémy Brunet, Marion Gransagne, Zaineb Choucha, Damien Batalie, Ana Delgado, Matthias Müllner, Roland Tschismarov, Pieter-Jan Berghmans, Annette Martin, Katrin Ramsauer, Nicolas Escriou, Christiane Gerke
DOI: 10.1016/j.ebiom.2021.103810

Concomitant Assessment of Monocyte HLA-DR Expression and Ex Vivo TNF-α Release as Markers of Adverse OUtcome after Various Injuries – Insights from the REALISM Study

Authors: Frank Bidar, Maxime Bodinier, Fabienne Venet, Anne-Claire Lukaszewicz, Karen Brengel-Pesce, Filippo Conti, Laurence Quemeneur, Philippe Leissner, Lionel K Tan, Julien Textoris, Thomas Rimmelé, Guillaume Monneret, On Behalf Of The Realism Study Group
DOI:10.3390/jcm11010096

Monocyte Trajectories Endotypes Are Associated With Worsening in Septic Patients

Authors: Bodinier M, Peronnet E, Brengel-Pesce K , Conti F, Rimmelé T, Textoris J, Vedrine C, Quemeneur L, Griffiths A. D., Tan L. K. , Venet F, Maucort-Boulch D, Monneret G, for the REALISM study group
https://doi.org/10.3389/fimmu.2021.795052

COVID-19 vaccine delivery: an opportunity to set up systems for the future

Authors: R. Weintraub, S Plotkin, M Liu, J Kim, N Garcon, D Bell, D Storisteanu, T Norman, E Aronoff-Spencer
https://doi.org/10.12688/gatesopenres.13210.2

A standardized gnotobiotic mouse model harboring a minimal 15-member mouse gut microbiota recapitulates SOPF/SPF phenotypes

Authors: Darnaud M, De Vadder F, Bogeat P, Boucinha L, Bulteau A. L, Bunescu A, Couturier C, Delgado A, Dugua H, Elie C, Mathieu A, Novotnà T, Ouattara D. A, Planel S, Saliou A, Srutkova D, Yansouni J, Stecher B, Schwarzer M. , Leulier F, Tamellini A
https://doi.org/10.1038/s41467-021-26963-9

Herpes DNAemia and TTV Viraemia in Intensive Care Unit Critically III patients: A single-Centre Propsective Longitudinal study

Authors: Mallet F, Diouf L, Meunier B, Perret M, Reynier F, Leissner P, Quemeneur L , Griffiths A.D, Moucadel V, PachotA , Venet F, Monneret G, Lepape A, Rimmelé T, TanL. K, Brengel-Pesce K and Textoris J on behalf of the REALISM Study Group
https://doi.org/10.3389/fimmu.2021.698808

Blood transcriptomics reveal the evolution and resolution of the immune response in tuberculosis

Authors: Tabone O, Verma R, Singhania A, Chakravarty P, Branchett W.J, Graham C.M, Lee J, Trang T, Reynier F, Leissner P, Kaiser K, Rodrigue M, Woltmann G, Haldar P, O’Garra A.
https://doi.org/10.1084/jem.20210915

The antimalarial MMV688533 provides potential for single-dose cures with a high barrier to Plasmodium falciparum parasite resistance

Authors: James M Murithi, Cécile Pascal, Jade Bath, Xavier Boulenc, Nina F Gnädig, Charisse Flerida A Pasaje, Kelly Rubiano, Tomas Yeo, Sachel Mok, Sylvie Klieber, Paul Desert, María Belén Jiménez-Díaz, Jutta Marfurt, Mélanie Rouillier, Mohammed H Cherkaoui-Rbati, Nathalie Gobeau, Sergio Wittlin, Anne-Catrin Uhlemann, Ric N Price, Grennady Wirjanata, Rintis Noviyanti, Patrick Tumwebaze, Roland A Cooper, Philip J Rosenthal, Laura M Sanz, Francisco Javier Gamo, Jayan Joseph, Shivendra Singh, Sridevi Bashyam, Jean Michel Augereau, Elie Giraud, Tanguy Bozec, Thierry Vermat, Gilles Tuffal, Jean-Michel Guillon, Jérôme Menegotto, Laurent Sallé, Guillaume Louit, Marie-José Cabanis, Marie Françoise Nicolas, Michel Doubovetzky, Rita Merino, Nadir Bessila, Iñigo Angulo-Barturen, Delphine Baud, Lidiya Bebrevska, Fanny Escudié, Jacquin C Niles, Benjamin Blasco, Simon Campbell, Gilles Courtemanche, Laurent Fraisse, Alain Pellet, David A Fidock, Didier Leroy
DOI:10.1126/scitranslmed.abg6013

Assessing the Functional Heterogeneity of Monocytes in Human Septic Shock: a Proof-of-Concept Microfluidic Assay of TNFα Secretion

Authors: Llitjos JF, Bounab Y, Rousseau C, Dixneuf S, Rimbault B, Chiche JF, Textoris J, Pène F. Védrine C.
Front. Immunol., 05 July 2021 | https://doi.org/10.3389/fimmu.2021.686111

Fast Antibiotic Susceptibility testing via Raman Microspectrometry on Single Bacteria: An MRSA Case study

Authors: Rousseau AN, Faure N, Rol F, Sedaghat Z, Le Galudec J, Mallard F, Josso Q.
ACS Omega. 2021 Jun 15;6(25):16273-16279. doi: 10.1021/acsomega.1c00170

Antibody avidity, persistence, and response to antigen recall: comparison of vaccine adjuvants

Authors: Budroni S, Buricchi F, Cavallone A, Bourguignon P, Caubet M, Dewar V, D’Oro U, Finco O, Garçon N, El Idrissi M, Janssens M, Leroux-Roels G, Marchant A, Schwarz T, Van Damme P, Volpini G, van der Most R, Didierlaurent AM, Burny W.
NPJ Vaccines. 2021 May 21;6(1):78. doi: 10.1038/s41541-021-00337-0.

Author Correction: Dynamic single-cell phenotyping of immune cells using the microfluidic platform DropMap

Authors: Bounab Y, Eyer K, Dixneuf S, Rybczynska M, Chauvel C, Mistretta M, Tran T, Aymerich N, Chenon G, Llitjos JF, Venet F, Monneret G, Gillespie IA, Cortez P, Moucadel V, Pachot A, Troesch A, Leissner P, Textoris J, Bibette J, Guyard C, Baudry J, Griffiths AD, Védrine C.
Nat Protoc. 2021 Jan 13. doi: 10.1038/s41596-021-00492-7.

Safety biomarkers for development of vaccines and biologics: Report from the safety biomarkers symposium held on November 28-29, 2017, Marcy l’Etoile, France.

Authors: Doubovetzky M, Ataman-Önal Y, Chousterman B, Feroldi E, Garçon N, Grillet MH, Kramer D, Laurent S, Lewis DJM, Luna E, Manigold T, Syntin P, Burdin N, Fraisse L, Jackson N.Vaccine. 2020 Dec 3;38(51):8055-8063. doi: 10.1016/j.vaccine.2020.10.015.

The impact of the Fungus-Host-Microbiota interplay upon Candida albicans infections: current knowledge and new perspectives.

Authors: d’Enfert C, Kaune AK, Alaban LR, Chakraborty S, Cole N, Delavy M, Kosmala D, Marsaux B, Fróis-Martins R, Morelli M, Rosati D, Valentine M, Xie Z, Emritloll Y, Warn PA, Bequet F, Bougnoux ME, Bornes S, Gresnigt MS, Hube B, Jacobsen ID, Legrand M, Leibundgut-Landmann S, Manichanh C, Munro CA, Netea MG, Queiroz K, Roget K, Thomas V, Thoral C, Van den Abbeele P, Walker AW, Brown AJP.
FEMS Microbiol Rev. 2020 Nov 24:fuaa060. doi: 10.1093/femsre/fuaa060.

An integrated transcriptomics and metabolomics study of the immune response of newly hatched chicks to the cytosine-phosphate-guanine oligonucleotide stimulation.

Authors: Ouattara DA, Remolue L, Becker J, Perret M, Bunescu A, Hennig K, Biliaut E, Badin A, Giacomini C, Reynier F, Andreoni C, Béquet F, Lecine P, De Luca K.
Poult Sci. 2020 Sep;99(9):4360-4372. doi: 10.1016/j.psj.2020.06.017

Caecal microbiota compositions from 7-day-old chicks reared in high-performance and low-performance industrial farms and systematic culturomics to select strains with anti-Campylobacter activity

Authors: Duquenoy A, Ania M, Boucher N, Reynier F, Boucinha L, Andreoni C, Thomas V.
PLoS One. 2020 Aug 24;15(8):e0237541. doi: 10.1371/journal.pone.0237541

Draft Genome Sequences of 15 Bacterial Species Constituting the Stable Defined Intestinal Microbiota of the GM15 Gnotobiotic Mouse Model.

Authors: Elie C, Mathieu A, Saliou A, Villain A, Darnaud M, Leulier F, Tamellini A.
Microbiol Resour Announc. 2020 Aug 27;9(35):e00686-20. doi: 10.1128/MRA.00686-20

Dynamic single-cell phenotyping of immune cells using the microfluidic platform DropMap

Authors: Bounab Y, Eyer K, Dixneuf S, Rybczynska M, Chauvel C, Mistretta M, Tran T, Aymerich N, Chenon G, Llitjos JF, Venet F, Monneret G, Gillespie IA, Cortez P, Moucadel V, Pachot A, Troesch A, Leissner P, Textoris J, Bibette J, Guyard C, Baudry J, Griffiths AD, Védrine C.
Nat Protoc. 2020 Sep;15(9):2920-2955. doi: 10.1038/s41596-020-0354-0

Assessment of Gram- and Viability-Staining Methods for Quantifying Bacterial Community Dynamics Using Flow Cytometry

Duquenoy A, Bellais S, Gasc C, Schwintner C, Dore J, Thomas V.
Front Microbiol. 2020 Jun 26;11:1469. doi: 10.3389/fmicb.2020.01469

Antibiotic resistance: Tools for effective translational research

Ploy MC, Andremont A, Valtier B, Le Jeunne C; participants of Giens XXXV Round Table ‘Translational research’.Therapie. 2020 Jan-Feb;75(1):7-12. doi: 10.1016/j.therap.2019.12.003. Epub 2019 Dec 16.

Clinical metagenomics bioinformatics pipeline for the identification of hospital-acquired pneumonia pathogens antibiotic resistance genes form bronchoalveolar lavage samples

Authors:Maud Tournoud, Etienne Ruppé, Guillaume Perrin, Stéphane Schicklin, Ghislaine Guigon, Pierre Mahé, Vladimir Lazarevic, Sébastien Hauser, Caroline Mirande, Albrice Levrat, Karen Louis, Gaspard Gervasi, Jacques Schrenzel
https://doi.org/10.1101/2020.02.26.966309

The science of vaccine safety: Summary of meeting at Wellcome Trust.

Authors: Plotkin SA, Offit PA, DeStefano F, Larson HJ, Arora NK, Zuber PLF, Fombonne E, Sejvar J, Lambert PH, Hviid A, Halsey N, Garçon N, Peden K, Pollard AJ, Markowitz LE, Glanz J.
Vaccine. 2020 Feb 18;38(8):1869-1880. doi: 10.1016/j.vaccine.2020.01.024

Evaluation of integrative clustering methods for the analysis of multi-omics data

Authors: Chauvel C, Novoloaca A, Veyre P, Reynier F, Becker J
Brief Bioinform. 2020 Feb 14. pii: bbz015. doi: 10.1093/bib/bbz015

Characterization and analytical validation of a new antigenic rapid diagnostic test for Ebola virus disease detection

Authors: Couturier C, Wada A, Louis K, Mistretta M, Beitz B, Povogui M, Ripaux M, Mignon C, Werle B, Lugari A, Pannetier D, Godard S, Bocquin A, Mely S, Béavogui I, Hébélamou J, Leuenberger D, Leissner P, Yamamoto T, Lécine P, Védrine C, Chaix J.
PLoS Negl Trop Dis. 2020 Jan 17;14(1):e0007965. doi: 10.1371/journal.pntd.0007965

Stiffness, pain and joint counts in chronic chikungunya disease: relevance to disability and quality of life

Authors: Watson H., Tritsch S.R. , Encinales L., Cadena A. , Cure C., Porras Ramirez A. , Rico Mendoza A.,Chang A. YClin Rheumatol. 2020 May;39(5):1679-1686. doi: 10.1007/s10067-019-04919-1

Chagas Disease Drug Discovery: Multiparametric Lead Optimization against Trypanosoma cruzi in Acylaminobenzothiazole Series

Authors: Charlotte Fleau, Angel Padilla, Juan Miguel-Siles, Maria T. Quesada-Campos, Isabel Saiz-Nicolas, Ignacio Cotillo, Juan Cantizani Perez, Rick L. Tarleton, Maria Marco and Gilles Courtemanche.
J. Med. Chem. 2019, 62, 10362−10375
https:// pubs.acs.org/jmc

Metagenomic Investigation of Torque Teno Mini Virus-SH in Hematological Patients.

Authors: Bal A, Oriol G, Josset L, Generenaz L, Sarkozy C, Sesques P, Salles G, Morfin F, Lina B, Becker J, Reynier F, Mallet F, Pachot A, Cheynet V, Brengel-Pesce K, Trouillet-Assant S.
Front Microbiol. 2019 Sep 18;10:1898. doi: 10.3389/fmicb.2019.01898.

Metabolomics, lipidomics and proteomics profiling of myoblasts infected with Trypanosoma cruzi after treatment with different drugs against Chagas disease

Authors: Hennig K., Abi‑Ghanem J., Bunescu A., Meniche X., Biliaut E., Ouattara A. D., Lewis M. D., Kelly J. M., Braillard S., Courtemanche G., Chatelain E., Béquet F.
Metabolomics (2019) 15:117 https://doi.org/10.1007/s11306-019-1583-5

SATQPCR: Website or statistical analysis of real-timequantitative PCR data

Authors: Rancurel C. , van Tran T., Elie C. , Hilliou F.
Mol Cell Probes, 2019 Aug;46:101418.doi: 10.1016/j.mcp.2019.07.001

2HybridTools, a handy software to facilitate clone identification and mutation mapping from yeast two-hybrid screening

Authors: Cauchy P, Kahn-Perlès B, Ferrier P, Imbert J, Lécine P.
PeerJ. 2019 Jul 3;7:e7245. doi: 10.7717/peerj.7245. eCollection 2019.

Combination of ribosome display and next generation sequencing as a powerful method for identification of affibody binders against β-lactamase CTX-M15

Authors: Lagoutte P, Lugari A, Elie C, Potisopon S, Donnat S, Mignon C, Mariano N, Troesch A, Werle B, Stadthagen G.;
Journal: N Biotechnol. 2019 May 25;50:60-69

Safety of AS03-adjuvanted influenza vaccines: A review of the evidence.

Authors: Cohet C, van der Most R, Bauchau V, Bekkat-Berkani R, Doherty TM, Schuind A, Tavares Da Silva F, Rappuoli R, Garçon N, Innis BL. Vaccine. 2019

Early herpes and TTV DNAemia in septic shock patients: a pilot study

Authors: Mallet F, Perret M, Tran T, Meunier B, Guichard A, Tabone O, Mommert M, Brengel-Pesce K, Venet F, Pachot A, Monneret G, Reynier F, Védrine C, Leissner P, Mouscadel V, Lepape A, Textoris J, MIPrea Group, REALISM group
Journal Intensive Care Med Exp. 2019

Polymorphisms of a Collagen-Like Adhesin Contributes to Legionella pneumophila Adhesion, Biofilm Formation Capacity and Clinical Prevalence.

Authors: Abdel-Nour M, Su H, Duncan C, Li S, Raju D, Shamoun F, Valton M, Ginevra C, Jarraud S, Guyard C, Kerman K, Terebiznik MR. Front Microbiol. 2019.

Translocation and calmodulin-activation of the adenylate cyclase toxin (CyaA) of Bordetella pertussis

Authors: Voegele A, O’Brien DP, Subrini O, Sapay N, Cannella SE, Enguéné VYN, Hessel A, Karst J, Hourdel V, Perez ACS, Davi M, Veneziano R, Chopineau J, Vachette P, Durand D, Brier S, Ladant D, Chenal A.
Journal: Pathog Dis.

Metagenomics next generation sequencing reveals individual composition and dynamics of anelloviruses during autologous stem cell Transplant Recipient Management

Authors: Bal A, Sarkozy C, Josset L, Cheynet V, Oriol G, Becker J, Vilchez G, Sesques P, Mallet F, Pachot A, Morfin F, Lina B, Salles G, Reynier F, Trouillet-Assant S, Brengel-Pesce K.
Journal: Viruses

A steam-based method to investigate biofilm

Authors: Tasse J, Cara A, Saglio M, Villet R, Laurent F.
Journal: Sci Rep.

Biosensors for the Detection of Interaction between Legionella pneumophila Collagen-Like Protein and Glycosaminoglycans

Authors: Su H, Li S, Terebiznik M, Guyard C, Kerman K.
Journal: Sensors (Basel).

A modular transcriptional signature identifies phenotypic heterogeneity of human tuberculosis infection

Authors: Singhania A, Verma R, Graham CM, Lee J, Tran T, Richardson M, Lecine P, Leissner P, Berry MPR, Wilkinson RJ, Kaiser K, Rodrigue M, Woltmann G, Haldar P, O’Garra A.
Journal: Nat Commun.

Simultaneous surface display and cargo loading of encapsulin nanocompartments and their use for rational vaccine design

Authors: Lagoutte P, Mignon C, Stadthagen G, Potisopon S, Donnat S, Mast J, Lugari A, Werle B.
Journal: Vaccine

Small Rho GTPases and the Effector VipA Mediate the Invasion of Epithelial Cells by Filamentous Legionella pneumophila

Authors: Prashar A, Ortiz ME, Lucarelli S, Barker E, Tabatabeiyazdi Z, Shamoun F, Raju D, Antonescu C, Guyard C, Terebiznik MR.
Journal: Front Cell Infect Microbiol.

Lactobacillus paracasei feeding improves the control of secondary experimental meningococcal infection in flu-infected mice

Authors: Belkacem N, Bourdet-Sicard R, Taha MK.
Journal: BMC Infect Dis.

Codon harmonization – going beyond the speed limit for protein expression

Authors: Mignon C, Mariano N, Stadthagen G, Lugari A, Lagoutte P, Donnat S, Chenavas S, Perot C, Sodoyer R, Werle B.
Journal: FEBS Press

Culture-free Antibiotic-susceptibility Determination From Single-bacterium Raman Spectra

Authors: Novelli-Rousseau A, Espagnon I, Filiputti D, Gal O, Douet A, Mallard F, Josso Q.
Journal: Sci Rep.

Non-conventional expression systems for the production of vaccine proteins and immunotherapeutic molecules

Authors: Legastelois I, Buffin S, Peubez I, Mignon C, Sodoyer R,Werle B
Review: Hum Vaccin & immunotherapeutics

Type I interferon-mediated autoinflammation due to DNase II deficiency

Authors: Rodero M.P , Tesser A, Bartok E, Rice G. I. , Della Mina E , Depp M, Beitz B, Bondet V, Cagnard N, Duffy D, Dussiot M, Frémond M-L, Gattorno M, Guillem F, Kitabayashi N, Porcheray F, Rieux-Laucat F, Seabra L, Uggenti C, Volpi S, Zeef L.A.H , Alyanakian M-A, Beltrand J, Bianco A-M, Boddaert N, Brouzes C, Candon S, Caorsi R, Charbit M, Fabre M, Faletra F, Girard M, Harroche A, Hartmann E, Lasne D, Marcuzzi A, Neven B, Nitschke P, Pascreau T, Pastore S, Picard C, Picco P,Piscianz E, Polak M, Quartier P, Rabant M, Stocco G, Taddio A, Uettwiller F, Valencic E, Vozzi D, Hartmann G, Barchet W, Hermine O, Bader-Meunier B, Tommasini A & Crow Y.J
Journal: Nature Communication

From discovery to licensure, the Adjuvant System story

Authors: Garçon N, Di Pasquale A.
Journal: Hum Vaccin Immunother

Membrane-Active Properties of an Amphitropic Peptide from the CyaA Toxin Translocation Region

Authors: Voegele A, Subrini O, Sapay N, Ladant D, Chenal A.
Journal: Toxins (Basel)

Lactobacillus paracasei feeding improves immune control of influenza infection in mice

Authors: Belkacem N, Serafini N, Wheeler R, Derrien M, Boucinha L, Couesnon A, Cerf-Bensussan N, Gomperts Boneca I, Di Santo JP, Taha MK, Bourdet-Sicard R.
Journal: PLoS One.

Signal management in pharmacovigilance and human risk assessment of CpG 7909, integrating embryo-fetal and post-natal developmental toxicity studies in rats and rabbits

Authors: Delannois F, Planty C, Giordano G, Destexhe E, Stanislaus D, Da Silva FT, Stegmann JU, Thacker K, Reynaud L, Garçon N, Segal L.
Journal: Reprod Toxicol.

Different Adjuvants Induce Common Innate Pathways That Are Associated with Enhanced Adaptive Responses against a Model Antigen in Humans

Authors: Burny W, Callegaro A, Bechtold V, Clement F, Delhaye S, Fissette L, Janssens M, Leroux-Roels G, Marchant A, van den Berg R. A, Garçon N, van der Most R and Didierlaurent Arnaud M. On Behalf of the ECR-002 Study Group
Journal: Frontiers in Immunology

Adjuvant system AS01: helping to overcome the challenges of modern vaccines

Authors: Didierlaurent AM, Laupèze B, Di Pasquale A, Hergli N, Collignon C, Garçon N.
Journal: Expert Rev Vaccines

The REAnimation Low Immune Status Markers (REALISM) project: a protocol for broad characterisation and follow-up of injury-induced immunosuppression in intensive care unit (ICU) critically ill patients

Authors: Rol ML, Venet F, Rimmele T, Moucadel V, Cortez P, Quemeneur L, Gardiner D, Griffiths A, Pachot A, Textoris J, Monneret G; REALISM study group.
Journal: BMJ Open

Cedratvirus lausannensis – digging into Pithoviridae diversity.

Bertelli C, Mueller L, Thomas V, Pillonel T, Jacquier N, Greub G.
Environ Microbiol.

Modulation of estrogen related receptor alpha activity by the kinesin KIF17.

Authors: Seneviratne APB, Turan Z, Hermant A, Lecine P, Smith WO, Borg JP, Jaulin F, Kreitzer G.
Journal: Oncotarget

Intramuscularly administered herpes zoster subunit vaccine has no effects on fertility, pre- and post-natal development in Sprague-Dawley rats

Authors: Segal L, Thacker K, Fochesato M, Giordano G, Garçon N, Destexhe E.
Journal: Reprod Toxicol.

Clinical, virological, and biological parameters associated with outcomes of Ebola virus infection in Macenta, Guinea

Authors: Vernet MA, Reynard S, Fizet A, Schaeffer J, Pannetier D, Guedj J, Rives M, Georges N, Garcia-Bonnet N, Sylla AI, Grovogui P, Kerherve JY, Savio C, Savio-Coste S, de Séverac ML, Zloczewski P, Linares S, Harouna S, Abdoul BM, Petitjean F, Samake N, Shepherd S, Kinda M, Koundouno FR, Joxe L, Mateo M, Lecine P, Page A, Tchamdja TM, Schoenhals M, Barbe S, Simon B, Tran-Minh T, Longuet C, L’Hériteau F, Baize S.
Journal: JCI Insight Cedratvirus lausannensis – digging into Pithoviridae diversity
Authors: Bertelli C, Mueller L, Thomas V, Pillonel T, Jacquier N, Greub G.

Cellular and molecular synergy in AS01-adjuvanted vaccines results in an early IFNγ response promoting vaccine immunogenicity

Authors: Coccia M, Collignon C, Hervé C, Chalon A, Welsby I, Detienne S, Helden MJV, Dutta S, Genito CJ, Waters NC, Deun KV, Smilde AK, Berg RAVD, Franco D, Bourguignon P, Morel S, Garçon N, Lambrecht BN, Goriely S, Most RV, Didierlaurent AM.
Journal: NPJ Vaccines

Respiratory Syncytial Virus Infects Regulatory B Cells in Human Neonates via Chemokine Receptor CX3CR1 and Promotes Lung Disease Severity

Authors: Zhivaki D, Lemoine S, Lim A, Morva A, Vidalain P-O, Schandene L, Casartelli N, Rameix-Welti M-A, Herve P-L , Dériaud E, Beitz B, Ripaux-Lefevre M, Miatello J, Lemercier B, Lorin V, Descamps D, Fix J, Eléouët J-F et Riffault S , Schwartz O, Porcheray F, Mascart F, Mouquet H, Zhang X, Tissières P and Lo-Man R.
Journal: Immunity

The human gut microbiome as source of innovation for health: Which physiological and therapeutic outcomes could we expect?

Authors: Doré J, Multon MC, Béhier JM, Affagard H, Andremont A, Barthélémy P, Batitsa R, Bonneville M, Bonny C, Boyaval G, Chamaillard M, Chevalier MP, Cordaillat-Simmons M, Cournarie F, Diaz I, Guillaume E, Guyard C, Jouvin-Marche E, Martin FP, Petiteau D.
Review: Therapie, Elsevier

Vaccine development: From concept to early clinical testing

Authors: Cunningham AL, Garçon N, Leo O, Friedland LR, Strugnell R, Laupèze B, Doherty M, Stern P.
Journal: Vaccine

Vaccine provision: Delivering sustained & widespread use

Authors: Preiss S, Garçon N, Cunningham AL, Strugnell R, Friedland LR.
Journal: Vaccine

Vaccine safety evaluation: Practical aspects in assessing benefits and risks

Authors: Di Pasquale A, Bonanni P, Garçon N, Stanberry LR, El-Hodhod M, Tavares Da Silva F.
Journal: Vaccine

From discovery to licensure, the Adjuvant System story

Authors: Garçon N, Di Pasquale A.
Journal: Hum Vaccin Immunother.

Chapitre: Les vaccins ou deux siècles de biotechnologies

Authors: Sodoyer R, Drouet E, Werle B
Book: Les biotechnologies en santé tome1.

Zika antiviral chemotherapy: identification of drugs and promising starting points for drug discovery from an FDA-approved library

Authors: Pascoalino B.S, Courtemanche G, Cordeiro M.T, Gil L. H. V. G. , Freitas-Junior L
Journal: F1000Research

Impact of adjuvants on CD4(+) T cell and B cell responses to a protein antigen vaccine: Results from a phase II, randomized, multicenter trial

Authors: Leroux-Roels G, Marchant A, Levy J, Van Damme P, Schwarz TF, Horsmans Y, Jilg W, Kremsner PG, Haelterman E, Clément F, Gabor JJ, Esen M, Hens A, Carletti I, Fissette L, Tavares Da Silva F, Burny W, Janssens M, Moris P, Didierlaurent AM, Van Der Most R, Garçon N, Van Belle P, Van Mechelen M.
Journal: Clin Immunol.

SNP calling from RNA-seq data without a reference genome: identification, quantification, differential analysis and impact on the protein sequence

Authors: Lopez-Maestre H, Brinza L, Marchet C, Kielbassa J, Bastien S, Boutigny M, Monnin D, Filali AE, Carareto CM, Vieira C, Picard F, Kremer N, Vavre F, Sagot MF, Lacroix V.
Journal: Nucleic Acids Res.

Scalable chromatography-based purification of virus-like particle carrier for epitope based Influenza A vaccine produced in Escherichia coli

Authors: Lagoutte P, Mignon C, Donnat S, Stadthagen G, Mast J, Sodoyer R, Lugari A and Werle B
Journal: J. Virol. Methods

Non-clinical safety evaluation of repeated intramuscular administration of the AS15 immunostimulant combined with various antigens in rabbits and cynomolgus monkeys

Authors: Garçon N, Silvano J, Kuper CF, Baudson N, Gérard C, Forster R, Segal L.
Journal: J Appl Toxicol.

Reducing hypoxia and inflammation during invasive pulmonary aspergillosis by targeting the Interleukin-1 receptor

Authors: Gresnigt M.S. , Rekiki A, Rasid O, Savers A, Jouvion G, Dannaoui E, Parlato M, Fitting C, Brock M, Cavaillon J-M, van de Veerdonk F. L. & Ibrahim-Granet O
Journal: Nature Scientific Reports

Chapter 5: Hydrophilic Interaction Liquid Chromatography (HILIC) and Perfluorinated Stationary Phases, pp. 149-184

Authors: Cristina C. JACOB
Book: Fast Liquid Chromatography – Mass Spectrometry Methods in Food and Environmental Analysis (Imperial College Press)

Legionella CRISPR-Cas reveals a recurrent challenge to the pathogen

Authors: Rao C, Guyard C, Pelaz C, Wasserscheid J, Bondy-Denomy J, Dewar K, Ensminger AW.
Journal: Cell Microbiol.

Differential proteomic analysis of virus-enriched fractions obtained from plasma pools of patients with dengue fever or severe dengue

Authors: Fragnoud R, Flamand M, Reynier F, Buchy P, Duong V, Pachot A, Paranhos-Baccala G, Bedin F.
Journal: BMC Infect Dis.

Draft Genome Sequences of Acinetobacter parvus CM11, Acinetobacter radioresistens CM38, and Stenotrophomonas maltophilia BR12, Isolated from Murine Proximal Colonic Tissue

Authors: Saffarian A, Mulet C, Naito T, Bouchier C, Tichit M, Ma L, Grompone G, Sansonetti PJ, Pédron T.
Journal: Genome Announc.

Vaccine Adjuvants: from 1920 to 2015 and Beyond

Authors: Di Pasquale A, Preiss S, Tavares Da Silva F, Garçon N.
Journal: Vaccines

Antibiotic free selection in Biotherapeutics

Authors: Mignon C. , Sodoyer R. , Werle B.
Journal: Antibiotic free selection in Biotherapeutics: Now and Forever, Pathogens

A FACS-optimized screen identifies regulators of genome stability in Candida albicans

Authors: Loll-Krippleber R, Feri A, Nguyen M, Maufrais C, Yansouni J, d’Enfert C, Legrand M
Journal: Eukaryot Cell.

Non clinical reproductive and developmental safety evaluation of he MAGE-A3 Cancer Immunotherapeutic, a therapeutic vaccine for cancer treatment

Authors: Destexhe E, Stannard D, Wilby OK, Grosdidier E, Baudson N, Forster R, Gérard CM, Garçon N, Segal L.
Journal: Elsevier, Reproductive toxicology Volume 51