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126

Jean-Pierre Flandrois MD, PhD, Prof. Emer.

Current Research

Two flagship projects

BIBI-DB BIBI-DB is a taxonomy-hierarchized set of databasesand oriented to facilitate the phylogeny of Archaea and Bacteria. Thanks to a web interface it allows the phylogenetic placement of unknown nucleic acid sequences (this may precede identification). RiboDB is a ribosomal protein database of Bacteria and Archaea freely searchable via the Internet. RiboDB construction process is versatile and can be used to construct proteins databases from freshly assembled and annotated genomes.

Applications

leBIBI is a web application used worldwide to identify bacteria in hospital laboratories, industrial, environmental.
The leBIBI and RiboDB databases are useful to classify more rigorously the Bacteria and Archaea and may highlight new pathogen species. Their use helps to explain the evolution of the microbial world. RiboDB will allow to improve the quality of diagnosis of infections. 

 

Journal articles123 documents

  • Monique Aouad, Jean-Pierre Flandrois, Frédéric Jauffrit, Manolo Gouy, Simonetta Gribaldo, et al.. A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea. BMC Ecology and Evolution, BMC, 2022, 22 (1), pp.1-12. ⟨10.1186/s12862-021-01952-0⟩. ⟨hal-03514913⟩
  • Pierre Garcia, Wandrille Duchemin, Jean-Pierre Flandrois, Simonetta Gribaldo, Christophe Grangeasse, et al.. A Comprehensive Evolutionary Scenario of Cell Division and Associated Processes in the Firmicutes. Molecular Biology and Evolution, Oxford University Press (OUP), 2021, 38 (6), pp.2396-2412. ⟨10.1093/molbev/msab034⟩. ⟨hal-03293358⟩
  • Christophe Lécuyer, Jean Goedert, Johanne Klee, Thibault Clauzel, Pascale Richardin, et al.. Climatic change and diet of the pre-Hispanic population of Gran Canaria (Canary Archipelago, Spain) during the Medieval Warm Period and Little Ice Age. Journal of Archaeological Science, Elsevier, 2021, 128, pp.105336. ⟨10.1016/j.jas.2021.105336⟩. ⟨hal-03293366⟩
  • Nicole Hugouvieux‐cotte‐pattat, Celine Brochier-Armanet, Jean-Pierre Flandrois, Sylvie Reverchon. Dickeya poaceiphila sp. nov., a plant-pathogenic bacterium isolated from sugar cane (Saccharum officinarum). International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2020, 70 (8), pp.4508-4514. ⟨10.1099/ijsem.0.004306⟩. ⟨hal-03103453⟩
  • Stefan Moritz Neuenschwander, Miguel Angel Terrazos Miani, Heiko Amlang, Carmen Perroulaz, Pascal Bittel, et al.. A Sample-to-Report Solution for Taxonomic Identification of Cultured Bacteria in the Clinical Setting Based on Nanopore Sequencing. Journal of Clinical Microbiology, American Society for Microbiology, 2020, 58 (6), ⟨10.1128/JCM.00060-20⟩. ⟨hal-03105483⟩
  • Julie Shapiro, Gilles Leboucher, Anne-Florence Myard-Dury, Pascale Girardo, Anatole Luzzati, et al.. Metapopulation ecology links antibiotic resistance, consumption, and patient transfers in a network of hospital wards. eLife, eLife Sciences Publication, 2020, 9, ⟨10.7554/eLife.54795⟩. ⟨hal-03105766⟩
  • Marie Linglin, Romain Amiot, Pascale Richardin, Stéphanie Porcier, Ingrid Antheaume, et al.. Isotopic systematics point to wild origin of mummified birds in Ancient Egypt. Scientific Reports, Nature Publishing Group, 2020, 10 (1), ⟨10.1038/s41598-020-72326-7⟩. ⟨hal-02991805⟩
  • Christophe Lécuyer, Antonio Sanchez Marco, Alejandro Lomoschitz, Juan-Francisco Betancort, François Fourel, et al.. δ18O and δ13C of diagenetic land snail shells from the Pliocene (Zanclean) of Lanzarote, Canary Archipelago: Do they still record some climatic parameters?. Journal of African Earth Sciences, Elsevier, 2020, 162, pp.103702. ⟨10.1016/j.jafrearsci.2019.103702⟩. ⟨hal-02991811⟩
  • Thibault Clauzel, Pascale Richardin, Jannick Ricard, Yves Le Béchennec, Romain Amiot, et al.. The Gauls experienced the Roman Warm Period: Oxygen isotope study of the Gallic site of Thézy-Glimont, Picardie, France. Journal of Archaeological Science: Reports, Elsevier, 2020, 34, pp.102595. ⟨10.1016/j.jasrep.2020.102595⟩. ⟨hal-02998511⟩
  • Alexandre Duprey, Najwa Taïb, Simon Leonard, Tiffany Garin, Jean-Pierre Flandrois, et al.. The phytopathogenic nature of Dickeya aquatica 174/2 and the dynamic early evolution of Dickeya pathogenicity. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2019, 21 (8), pp.2809-2835. ⟨10.1111/1462-2920.14627⟩. ⟨hal-02099020⟩
  • Jean-Pierre Flandrois, Céline Brochier-Armanet, Jérôme Briolay, Danis Abrouk, Guillaume Schwob, et al.. Taxonomic assignment of uncultured prokaryotes with long range PCR targeting the spectinomycin operon. Research in Microbiology, Elsevier, 2019, 170 (6-7), pp.280-287. ⟨10.1016/j.resmic.2019.06.005⟩. ⟨hal-02327832⟩
  • Maxime Barbier, Oana Dumitrescu, Catherine Pichat, Gérard Carret, Anne-Sophie Ronnaux-Baron, et al.. Changing patterns of human migrations shaped the global population structure of Mycobacterium tuberculosis in France. Scientific Reports, Nature Publishing Group, 2018, 8 (1), pp.5855. ⟨10.1038/s41598-018-24034-6⟩. ⟨hal-01908989⟩
  • Christophe Lécuyer, François Atrops, Romain Amiot, Delphine Angst, Valérie Daux, et al.. Tsunami sedimentary deposits of Crete records climate during the ‘Minoan Warming Period’ (≈3350 yr BP). The Holocene, London: Sage, 2018, ⟨10.1177/0959683617752840⟩. ⟨hal-01806805⟩
  • Andrej Benjak, Charlotte Avanzi, Yvonne Benito, Franck Breysse, Christophe Chartier, et al.. Highly Reduced Genome of the New Species Mycobacterium uberis, the Causative Agent of Nodular Thelitis and Tuberculoid Scrotitis in Livestock and a Close Relative of the Leprosy Bacilli. MSphere, American Society for Microbiology., 2018, 3 (5), pp.e00405-18. ⟨10.1128/mSphere.00405-18⟩. ⟨hal-02332532⟩
  • Romain Amiot, Xu Wang, Shuo Wang, Christophe Lécuyer, Jean-Michel Mazin, et al.. δ 18 O-derived incubation temperatures of oviraptorosaur eggs. Palaeontology, Wiley, 2017, 60 (5), pp.633-647. ⟨10.1111/pala.12311⟩. ⟨hal-02994695⟩
  • Jean-Philippe Rasigade, Maxime Barbier, Oana Dumitrescu, Catherine Pichat, Gérard Carret, et al.. Strain-specific estimation of epidemic success provides insights into the transmission dynamics of tuberculosis. Scientific Reports, Nature Publishing Group, 2017, 7, pp.45326. ⟨10.1038/srep45326⟩. ⟨hal-01911199⟩
  • Céline Martin, Bruno Maureille, Romain Amiot, Alexandra Touzeau, Aurélien Royer, et al.. Record of Nile seasonality in Nubian neonates.. Isotopes in Environmental and Health Studies, Taylor & Francis, 2017, 53 (3), pp.223-242. ⟨10.1080/10256016.2016.1229667⟩. ⟨hal-01495855⟩
  • Romain Amiot, Xu Wang, Shuo Wang, Christophe Lécuyer, Jean-Michel Mazin, et al.. d18O-Derived incubation temperatures of oviraptorosaur eggs.. Palaeontology, Wiley, 2017, pp.1-15. ⟨10.1111/pala.12311⟩. ⟨hal-01561556⟩
  • Frédéric Jauffrit, Simon Penel, Stéphane Delmotte, Carine Rey, Damien de Vienne, et al.. RiboDB database: a comprehensive resource for prokaryotic systematics. Molecular Biology and Evolution, Oxford University Press (OUP), 2016, 33 (8), pp.2170--2172. ⟨10.1093/molbev/msw088⟩. ⟨hal-01800061⟩
  • Catherine Pichat, David Couvin, Gérard Carret, Isabelle Frédénucci, Véronique Jacomo, et al.. Combined Genotypic, Phylogenetic, and Epidemiologic Analyses of Mycobacterium tuberculosis Genetic Diversity in the Rhône Alpes Region, France. PLoS ONE, Public Library of Science, 2016, 11 (4), pp.e0153580. ⟨10.1371/journal.pone.0153580⟩. ⟨hal-01910925⟩
  • Nicolas Lazzerini, Christophe Lécuyer, Romain Amiot, Delphine Angst, Eric Buffetaut, et al.. Oxygen isotope fractionation between bird eggshell calcite and body water: application to fossil eggs from Lanzarote (Canary Islands). The Science of Nature Naturwissenschaften, Springer Verlag, 2016, 103 (9-10), ⟨10.1007/s00114-016-1404-x⟩. ⟨hal-02994717⟩
  • Jean-Pierre Flandrois, G. Perrière, Manolo Gouy. leBIBIQBPP: a set of databases and a webtool for automatic phylogenetic analysis of prokaryotic sequences. BMC Bioinformatics, BioMed Central, 2015, 16 (1), pp.251. ⟨10.1186/s12859-015-0692-z⟩. ⟨hal-02044751⟩
  • Anne-Laure Bechy-Loizeau, Jean-Pierre Flandrois, Hafid Abaibou. Assessment of polycarbonate filter in a molecular analytical system for the microbiological quality monitoring of recycled waters onboard ISS. Life Sciences in Space Research, Elsevier 2015, 6, pp.29-35. ⟨10.1016/j.lssr.2015.06.002⟩. ⟨hal-02332536⟩
  • F. Baty, C. Ritz, Sandrine Charles, M. Brutsche, Jean-Pierre Flandrois, et al.. A Toolbox for Nonlinear Regression in R: The Package nistools. Journal of Statistical Software, University of California, Los Angeles, 2015, 66, pp.1-21. ⟨hal-02044944⟩
  • C. Bouchiat, J. Saison, S. Boisset, Jean-Pierre Flandrois, B. Issartel, et al.. Nontuberculous Mycobacteria: An Underestimated Cause of Bioprosthetic Valve Infective Endocarditis. Open Forum Infectious Diseases, Oxford University Press, 2015, 2, pp.ofv047-ofv047. ⟨hal-02044973⟩
  • Alexandra Touzeau, Romain Amiot, Janne Blichert-Toft, Jean-Pierre Flandrois, François Fourel, et al.. Diet of ancient Egyptians inferred from stable isotope systematics. Journal of Archaeological Science, Elsevier, 2014, 46, pp.114-124. ⟨10.1016/j.jas.2014.03.005⟩. ⟨hal-02994728⟩
  • L. Morand, D. Michel, Jean-Pierre Flandrois, T. Junillon, D. Mosticon, et al.. Optimization of the reactional medium and a food impact study for a colorimetric in situ Salmonella spp. detection method. International Journal of Food Microbiology, Elsevier, 2014, 181, pp.48-52. ⟨hal-02046798⟩
  • T. Junillon, L. Morand, Jean-Pierre Flandrois. Enhanced tetrazolium violet reduction of Salmonella spp. by magnesium addition to the culture media. Food Microbiology, Elsevier, 2014, 42, pp.132-135. ⟨hal-02046799⟩
  • D. Pin, V. Guerin-Faublee, V. Garreau, F. Breysse, Oana Dumitrescu, et al.. Mycobacterium Species Related to M. leprae and M. lepromatosis from Cows with Bovine Nodular Thelitis. Emerging Infectious Diseases, Centers for Disease Control and Prevention, 2014, 20, pp.2111-4. ⟨10.3201/eid2012.140184⟩. ⟨hal-02045107⟩
  • Jean-Pierre Flandrois, Gérard Lina, Oana Dumitrescu. MUBII-TB-DB: a database of mutations associated with antibiotic resistance in Mycobacterium tuberculosis.. BMC Bioinformatics, BioMed Central, 2014, 15 (1), pp.107. ⟨10.1186/1471-2105-15-107⟩. ⟨inserm-00982132⟩
  • Alexandra Touzeau, Janne Blichert-Toft, Romain Amiot, François Fourel, François Martineau, et al.. Egyptian mummies record increasing aridity in the Nile valley from 5500 to 1500yr before present. Earth and Planetary Science Letters, Elsevier, 2013, 375, pp.92-100. ⟨10.1016/j.epsl.2013.05.014⟩. ⟨hal-02110386⟩
  • T. Junillon, Jp. Flandrois. Diminution of 2,3,5-triphenyltetrazolium chloride toxicity on Listeria monocytogenes growth by iron source addition to the culture medium. Food Microbiology, 2013, 38, pp.1--5. ⟨10.1016/j.fm.2013.07.005⟩. ⟨hal-02281566⟩
  • Véronique Guérin-Faublée, Jean-Pierre Flandrois, Catherine Pichat, Maria Laura Boschiroli, Brigitte Lamy. Mycobacterium bourgelatii sp. nov., a rapidly growing, non-chromogenic species isolated from the lymph nodes of cattle.. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2013, 63 (Pt 12), pp.4669-74. ⟨10.1099/ijs.0.051979-0⟩. ⟨hal-01017330⟩
  • Jean-Pierre Flandrois, Laurence Parmeland, Mathieu Gazon, Claude Guérin, Laurent Argaud, et al.. Candida albicans and non- Candida albicans fungemia in an institutional hospital during a decade. Medical Mycology, Oxford University Press, 2013, 51 (1), pp.33-37. ⟨10.3109/13693786.2012.686673⟩. ⟨hal-02334577⟩
  • T. Junillon, A. Vimont, D. Mosticone, B. Mallen, F. Baril, et al.. Simplified detection of food-borne pathogens: An in situ high affinity capture and staining concept. Journal of Microbiological Methods, Elsevier, 2012, 91, pp.501--505. ⟨10.1016/j.mimet.2012.09.015⟩. ⟨hal-02296823⟩
  • D. Leyssene, S. Gardes, P. Vilquin, Jp. Flandrois, Gérard Carret, et al.. Species-driven interpretation guidelines in case of a single-sampling strategy for blood culture. European Journal of Clinical Microbiology & Infectious Diseases, 2011, 30, pp.1537-1541. ⟨10.1007/s10096-011-1257-3⟩. ⟨hal-02297650⟩
  • Frédérique Billy, Benjamin Ribba, Olivier Saut, Hélène Morre-Trouilhet, Thierry Colin, et al.. A pharmacologically based multiscale mathematical model of angiogenesis and its use in investigating the efficacy of a new cancer treatment strategy.. Journal of Theoretical Biology, Elsevier, 2009, 260 (4), pp.545-62. ⟨10.1016/j.jtbi.2009.06.026⟩. ⟨inria-00440447⟩
  • S. Mignard, Jean-Pierre Flandrois. A seven-gene multilocus genus-wide approach to the phylogeny of mycobacteria using supertrees. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2008, 58(part 6), pp.1432-1441. ⟨hal-00428262⟩
  • S. Mignard, J.-P. Flandrois. Identification of Mycobacterium using the EF-Tu encoding (tuf) gene and the tmRNA encoding (ssrA) gene. Journal of Medical Microbiology, Society for General Microbiology, 2007, 56 (8), pp.1033-1041. ⟨10.1099/jmm.0.47105-0⟩. ⟨hal-02332574⟩
  • V. Rodriguez-Nava, A. Couble, G. Devulder, Jean-Pierre Flandrois, P. Boiron, et al.. Use of PCR-Restriction Enzyme Pattern Analysis and Sequencing Database for hsp65 Gene-Based Identification of Nocardia Species. Journal of Clinical Microbiology, American Society for Microbiology, 2006, 44 (2), pp.536-546. ⟨10.1128/JCM.44.2.536-546.2006⟩. ⟨hal-00428029⟩
  • S. Mignard, Jean-Pierre Flandrois. Mycobacterium bovis Infection. Journal of Medical Microbiology, Society for General Microbiology, 2006, 56, pp.1033-1041. ⟨hal-00428005⟩
  • S. Mignard, Jean-Pierre Flandrois. 16S rRNA sequencing in routine bacterial identification : A 30-month experiment. Journal of Microbiological Methods, Elsevier, 2006, 67, pp.574-581. ⟨hal-00427881⟩
  • J. Delmas, F. Breysse, G. Devulder, Jean-Pierre Flandrois, M. Chomarat. Rapid identification of Enterobacteriaceae by sequencing DNA gyrase subunit B encoding gene. Diagnostic Microbiology and Infectious Disease, Elsevier, 2006, 55, pp.263-268. ⟨hal-00427939⟩
  • Jean-Pierre Flandrois, B Lamy, G. Carret, M Delignette-Muller. [From prevalence to predictive values: considerations on the antimicrobial susceptibility testing dealing with change of susceptibility rates].. Annales de Biologie Clinique, John Libbey Eurotext, 2005, 63 (5), pp.493-502. ⟨hal-02332581⟩
  • B. Lamy, G. Carret, Jean-Pierre Flandrois, Marie Laure Delignette-Muller. De la prévalence aux valeurs prédictives: L`antibiogramme face à l`évolution de la résistance aux antibiotiques. Annales de Biologie Clinique (Paris), 2005, 63, pp.493-502. ⟨hal-00427775⟩
  • G. Devulder, M. Perouse de Montclos, Jean-Pierre Flandrois. A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2005, 55, pp.293-302. ⟨hal-00427738⟩
  • B. Lamy, G. Carret, Jean-Pierre Flandrois, Marie Laure Delignette-Muller. How does susceptibility prevalence impact on the performance of disk diffusion susceptibility testing?. Diagnostic Microbiology and Infectious Disease, Elsevier, 2004, 49, pp.131-139. ⟨hal-00427611⟩
  • A. Dechesne, C. Pallud, D. Debouzie, J. P. Flandrois, T. M. Vogel, et al.. A novel method for characterizing the microscale 3D spatial distribution of bacteria in soil. Soil Biology and Biochemistry, Elsevier, 2003, 35 (12), pp.1537-1546. ⟨10.1016/S0038-0717(03)00243-8⟩. ⟨hal-02573523⟩
  • A. Dechesne, C. Pallud, D. Debouzie, Jean-Pierre Flandrois, J.P. Gaudet, et al.. A method to study the microscale 3-D spatial distribution of Bacteria in soil.. Mycological Research, Elsevier, 2003, 107, pp.1221-1230. ⟨hal-00427331⟩
  • G. Devulder, G. Perrière, F. Baty, Jean-Pierre Flandrois. BIBI a bioinformatics bacterial identification tool. Journal of Clinical Microbiology, American Society for Microbiology, 2003, 41, pp.1785-1787. ⟨hal-00427401⟩
  • S. Charles-Bajard, Jean-Pierre Flandrois, R. Tomassone. Quelques problèmes statistiques rencontrés dans l`estimation de la température minimale de croissance de Listeria monocytogenes. Revue de Statistique Appliquée, Société française de statistique, 2003, LI, pp.59-71. ⟨hal-00427493⟩
  • B. Lamy, Pascal Roy, G. Carret, Jean-Pierre Flandrois, Marie Laure Delignette-Muller. What is the relevance of obtaining multiple blood samples for culture? A comprehensive model to optimize the strategy for diagnosing bacteremia. Clinical Infectious Diseases, Oxford University Press (OUP), 2002, 35, pp.842-850. ⟨hal-00427281⟩
  • F. Baty, Jean-Pierre Flandrois, Marie Laure Delignette-Muller. Modeling the Lag Time of Listeria monocytogenes from Viable Count Enumeration and Optical Density Data. Applied and Environmental Microbiology, American Society for Microbiology, 2002, 68, pp.5816-5825. ⟨hal-00427255⟩
  • Marie Cornu, Martin Kalmokoff, Jean-Pierre Flandrois. Modelling the competitive growth of Listeria monocytogenes and Listeria innocua in enrichment broths. International Journal of Food Microbiology, Elsevier, 2002, 73 (2-3), pp.261-274. ⟨10.1016/S0168-1605(01)00658-4⟩. ⟨hal-02332587⟩
  • Jean-Pierre Flandrois, F. Laurent. Fitness and competitive growth advantage of new gentamicin-susceptible MRSA clones spreading in French hospitals. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 2001, 47 (3), pp.277-283. ⟨10.1093/jac/47.3.277⟩. ⟨hal-02332592⟩
  • G. Grundmann, A. Dechesne, F. Bartoli, Jean-Pierre Flandrois, J. Chassé, et al.. Spatial Modeling of Nitrifier Microhabitats in Soil. Soil Science Society of America Journal, Soil Science Society of America, 2001, 65 (6), pp.1709. ⟨10.2136/sssaj2001.1709⟩. ⟨hal-02332596⟩
  • C. Noel, Sandrine Charles, A. Francon, Jean-Pierre Flandrois. A mathematical model describing the thermal virus inactivation. Vaccine, Elsevier, 2001, 19, pp.3575-3582. ⟨hal-00427188⟩
  • M. Cornu, Marie Laure Delignette-Muller, Jean-Pierre Flandrois. Characterization of Unexpected Growth of Escherichia coli O157:H7 by Modeling. Applied and Environmental Microbiology, American Society for Microbiology, 1999, 65, pp.5322-5327. ⟨hal-00428469⟩
  • S. Breand, G. Fardel, Jean-Pierre Flandrois, L. Rosso, R. Tomassone. A model describing the relationship between regrowth lag time and mild temperature increase for Listeria monocytogenes. International Journal of Food Microbiology, Elsevier, 1999, 46, pp.251-261. ⟨hal-00428438⟩
  • Jean-Pierre Flandrois, I. Fredenucci, M. Chomarat, C. Boucaud. Saccharomyces boulardii Fungemia in a Patient Receiving Ultra‐levure Therapy. Clinical Infectious Diseases, Oxford University Press (OUP), 1998, 27 (1), pp.222-223. ⟨10.1086/517685⟩. ⟨hal-02334575⟩
  • S. Breand, G. Fardel, Jean-Pierre Flandrois, L. Rosso, R. Tomassone. Model of the influence of time and mild temperature on Listeria monocytogenes nonlinear survival curves. International Journal of Food Microbiology, Elsevier, 1998, 40, pp.185-195. ⟨hal-00428479⟩
  • S. Breand, G. Fardel, Jean-Pierre Flandrois, L. Rosso, R. Tomassone. A model describing the relationship between lag time and mild temperature increase duration. International Journal of Food Microbiology, Elsevier, 1997, 38, pp.157-167. ⟨hal-00434965⟩
  • Jean-Pierre Flandrois, L. Rosso, E. Zuber, C. Pichat. Simple relationship between acid dissociation constant and minimal pH for microbial growth in laboratory medium. International Journal of Food Microbiology, Elsevier, 1997, 35 (1), pp.75-81. ⟨10.1016/S0168-1605(96)01231-7⟩. ⟨hal-02332604⟩
  • M. Chomarat, L. Chollet, M. Peyret, Jean-Pierre Flandrois. Influence of atmospheric conditions during incubation on the susceptibilities of Streptococcus pneumoniae isolates to five beta- lactam antibiotics. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1997, 40 (4), pp.599-601. ⟨10.1093/jac/40.4.599⟩. ⟨hal-02332606⟩
  • Emmanuel Zuber, Gérard Mathis, Jean-Pierre Flandrois. Homogeneous Two-Site Immunometric Assay Kinetics as a Theoretical Tool for Data Analysis. Analytical Biochemistry, Elsevier Masson, 1997, 251 (1), pp.79-88. ⟨10.1006/abio.1997.2243⟩. ⟨hal-02332601⟩
  • Emmanuel Zuber, Laurent Rosso, Bruno Darbouret, Françoise Socquet, Gérard Mathis, et al.. A Descriptive Model for the Kinetics of a Homogeneous Fluorometric Immunoassay. Journal of Immunoassay and Immunochemistry, Taylor & Francis, 1997, 18 (1), pp.21-47. ⟨10.1080/01971529708005803⟩. ⟨hal-02332602⟩
  • V. Guérin-Faublée, Sandrine Charles, M. Chomarat, Jean-Pierre Flandrois. Reappraisal of the effect of temperature on the growth kinetics of Aeromonas salmonicida. Letters in Applied Microbiology, Wiley, 1997, 25, pp.363-366. ⟨hal-00434985⟩
  • L. Rosso, S. Bajard, Jean-Pierre Flandrois, C. Lahellec, J. Fournaud, et al.. Differential growth of Listeria monocytogenes at 4 and 8°C: Consequences for the Shelf Life of Chilled Products. Journal of Food Protection, International Association for Food Protection, 1996, 59 (9), pp.944-949. ⟨10.4315/0362-028X-59.9.944⟩. ⟨hal-02332607⟩
  • M. Delignette-Muller, Jean-Pierre Flandrois, Catherine Chapuis. An economic approach to the MIC.. Zentralblatt fur Bakteriologie : international journal of medical microbiology, 1996, 284 (1), pp.67-74. ⟨hal-02332615⟩
  • V. Guerin-Faublée, Marie Laure Delignette-Muller, M. Vigneulle, Jean-Pierre Flandrois. Application of a modified disc diffusion technique to antimicrobial susceptibility testing of Vibrio anguillarum and Aeromonas salmonicida clinical isolates. Veterinary Microbiology, Elsevier, 1996, 51, pp.137-149. ⟨hal-00435044⟩
  • G Ciuperca, R Tomassone, Jp Flandrois. Use of mathematics and statistics in nutrition modelling. Annales de zootechnie, INRA/EDP Sciences, 1996, 45 (Suppl1), pp.143-152. ⟨hal-00889615⟩
  • Jean-Pierre Flandrois, G. Vedel, M. Peyret, J.P. Gayral, Patrick Millot. Evaluation of an expert system linked to a rapid antibiotic susceptibility testing system for the detection of β-lactam resistance phenotypes. Research in Microbiology, Elsevier, 1996, 147 (4), pp.297-309. ⟨10.1016/0923-2508(96)81390-8⟩. ⟨hal-02332610⟩
  • S. Bajard, L. Rosso, G. Fardel, Jean-Pierre Flandrois. The particular behaviour of Listeria monocytogenes under sub-optimal conditions. International Journal of Food Microbiology, Elsevier, 1996, 29, pp.201-211. ⟨hal-00435025⟩
  • Jean-Pierre Flandrois, M. Delignette-Muller. Accuracy of microbial growth predictions with square root and polynomial models. International Journal of Food Microbiology, Elsevier, 1995, 27 (2-3), pp.139-146. ⟨10.1016/0168-1605(94)00158-3⟩. ⟨hal-02332618⟩
  • M. Montclos, G. Chatte, M. Perrin-Fayolle, Jean-Pierre Flandrois. Olecranon bursitis due toPrototheca wickerhamii, an algal opportunistic pathogen. European Journal of Clinical Microbiology and Infectious Diseases, Springer Verlag, 1995, 14 (6), pp.561-562. ⟨10.1007/bf02113444⟩. ⟨hal-02332623⟩
  • L. Rosso, Jean-Pierre Flandrois, Catherine Chapuis. Relationship between colonial surface and density on agar plate. The Journal of applied bacteriology, Blackwell Science Ltd., 1995, 79 (5), pp.542-550. ⟨10.1111/j.1365-2672.1995.tb03175.x⟩. ⟨hal-02332629⟩
  • Véronique Guérin-Faublée, L. Rosso, Martine Vigneulle, J.-P. Flandrois. The effect of incubation temperature and sodium chloride concentration on the growth kinetics of Vibrio anguillarum and Vibrio anguillarum -related organisms. The Journal of applied bacteriology, Blackwell Science Ltd., 1995, 78 (6), pp.621-629. ⟨10.1111/j.1365-2672.1995.tb03108.x⟩. ⟨hal-02332625⟩
  • L. Rosso, J.R. Lobry, S. Bajard, Jean-Pierre Flandrois. Convenient Model To Describe the Combined Effects of Temperature and pH on Microbial Growth. Applied and Environmental Microbiology, American Society for Microbiology, 1995, 61, pp.610-616. ⟨hal-00698190⟩
  • M. Delignette-Muller, Jean-Pierre Flandrois. An accurate diffusion method for determining bacterial sensitivity to antibiotics. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1994, 34 (1), pp.73-81. ⟨10.1093/jac/34.1.73⟩. ⟨hal-02332634⟩
  • J.-P. Flandrois, Catherine Chapuis. Mathematical model of the interactions between Micrococcus spp. and Pseudomonas aeruginosa on agar surface. The Journal of applied bacteriology, Blackwell Science Ltd., 1994, 77 (6), pp.727-732. ⟨10.1111/j.1365-2672.1994.tb02826.x⟩. ⟨hal-02332635⟩
  • M de Montclos, M. Guinet, Jean-Pierre Flandrois, Catherine Chapuis. [Post-antibiotic effect of three aminoglycosides against Klebsiella pneumoniae].. Pathologie Biologie, Elsevier Masson, 1994, 42 (5), pp.419-24. ⟨hal-02332637⟩
  • F. Guérillot, G. Carret, Jean-Pierre Flandrois. A statistical evaluation of the bactericidal effects of ceftibuten in combination with aminoglycosides and ciprofloxacin. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1993, 32 (5), pp.685-694. ⟨10.1093/jac/32.5.685⟩. ⟨hal-02332639⟩
  • V Guérin-Faublée, Jp Flandrois, E Broye, F Tupin, Y Richard. Actinomyces pyogenes: susceptibility of 103 clinical animal isolates to 22 antimicrobial agents. Veterinary Research, BioMed Central, 1993, 24 (3), pp.251-259. ⟨hal-00902121⟩
  • F Guerillot, G. Carret, Jean-Pierre Flandrois. Mathematical model for comparison of time-killing curves.. Antimicrobial Agents and Chemotherapy, American Society for Microbiology, 1993, 37 (8), pp.1685-1689. ⟨10.1128/AAC.37.8.1685⟩. ⟨hal-02332638⟩
  • Véronique Guérin-Faublée, Jean-Pierre Flandrois, Yves Richard. Antimicrobial susceptibility testing of actinomyces pyogenes: Comparison of disk diffusion test and Api ATB Strep system with the Agar dilution method. Zentralblatt fur Bakteriologie, Mikrobiologie, und Hygiene. Series A, Medical microbiology, infectious diseases, virology, parasitology, 1993, 279 (3), pp.377-386. ⟨10.1016/S0934-8840(11)80370-1⟩. ⟨hal-02332640⟩
  • L. Rosso, J.R. Lobry, Jean-Pierre Flandrois. An unexpected correlation between cardinal temperatures of microbial growth highlighted by a new model. Journal of Theoretical Biology, Elsevier, 1993, 162, pp.447-463. ⟨hal-00698186⟩
  • Monique Chomarat, Daniel Espinouse, Jean-Pierre Flandrois. Gram-positive infections in neutropenic patients: glycopeptide antibiotic choice. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1992, 29 (4), pp.462-463. ⟨10.1093/jac/29.4.462⟩. ⟨hal-02334574⟩
  • M de Montclos, H. de Montclos, Jean-Pierre Flandrois. [Comparative study of two systems for the determination of the sensitivity of yeasts to antifungal agents].. Pathologie Biologie, Elsevier Masson, 1992, 40 (5), pp.495-9. ⟨hal-02332641⟩
  • J.R. Lobry, Jean-Pierre Flandrois, G. Carret, A. Pavé. Monod's bacterial growth model revisited. Bulletin of Mathematical Biology, Springer Verlag, 1992, 54(1), pp.117-122. ⟨hal-00698414⟩
  • J.R. Lobry, G. Carret, Jean-Pierre Flandrois. Maintenance requirements of Escherichia coli ATCC 25922 in the presence of sub-inhibitory concentrations of various antibiotics. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1992, 29, pp.121-127. ⟨hal-00698024⟩
  • Jean-Pierre Flandrois, F. Bailly, M. Peyret, L. Descos. Etude sur quatre ans des cas de yersiniose dans un service d'hépato-gastro-entérologie de la région lyonnaise. Médecine et Maladies Infectieuses, Elsevier Masson, 1991, 21, pp.371-375. ⟨10.1016/S0399-077X(05)81308-3⟩. ⟨hal-02334571⟩
  • Monique Chomarat, Marie-Gabrielle Vital, Jean-Pierre Flandrois. Susceptibility to Aminoglycosides of 63 Strains of Stomatococcus mucilaginosus Isolated from Sputum. Zentralblatt fur Bakteriologie, Mikrobiologie, und Hygiene. Series A, Medical microbiology, infectious diseases, virology, parasitology, 1991, 276 (1), pp.63-67. ⟨10.1016/S0934-8840(11)80219-7⟩. ⟨hal-02332646⟩
  • M. Peyret, Jean-Pierre Flandrois, G. Fardel. [Time-killing curves of Pseudomonas aeruginosa strains exposed to polymyxin B].. Pathologie Biologie, Elsevier Masson, 1991, 39 (5), pp.446-50. ⟨hal-02332645⟩
  • Jean-Pierre Flandrois, M. Peyret, J Zindel. [Influence of the culture medium (Isosensitest or Mueller-Hinton) on the results of antibiotics susceptibility testing and its interpretation].. Pathologie Biologie, Elsevier Masson, 1991, 39 (5), pp.455-60. ⟨hal-02334573⟩
  • J.R. Lobry, Jean-Pierre Flandrois. Comparison of estimates of Monod's growth model from the same data set. Binary, 1991, 3, pp.20-23. ⟨hal-00698025⟩
  • J.R. Lobry, L. Rosso, Jean-Pierre Flandrois. A FORTRAN subroutine for the determination of parameter confidence limits in non-linear Models. Binary, 1991, 3, pp.86-93. ⟨hal-00698031⟩
  • M. Peyret, Jean-Pierre Flandrois, G. Fardel. Time-killing curves of Pseudomonas aeruginosa strains exposed to polymyxin B. Pathologie Biologie, Elsevier Masson, 1991, 39, pp.446-450. ⟨hal-00698139⟩
  • G. Carret, Jean-Pierre Flandrois, Jean R Lobry. Biphasic kinetics of bacterial killing by quinolones. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1991, 27 (3), pp.319-327. ⟨10.1093/jac/27.3.319⟩. ⟨hal-02332643⟩
  • Monique Chomarat, Daniel Espinouse, Jean-Pierre Flandrois. Coagulase-negative staphylococci emerging during teicoplanin therapy and problems in the determination of their sensitivity. Journal of Antimicrobial Chemotherapy, Oxford University Press (OUP), 1991, 27 (4), pp.475-480. ⟨10.1093/jac/27.4.475⟩. ⟨hal-02332642⟩
  • Jean-Pierre Flandrois, G. Carret. [Expert systems and antibiotic sensitivity test].. Annales de Biologie Clinique, John Libbey Eurotext, 1991, 49 (3), pp.166-71. ⟨hal-02334572⟩
  • Michèle de Montclos, Jean-Pierre Flandrois. Preparation of a Latex Reagent for the Detection of Anti-Staphylococcus aureus Ribitol Teichoic Acid Antibodies. Zentralblatt fur Bakteriologie, Mikrobiologie, und Hygiene. Series A, Medical microbiology, infectious diseases, virology, parasitology, 1990, 274 (1), pp.50-60. ⟨10.1016/S0934-8840(11)80974-6⟩. ⟨hal-02332653⟩
  • M. Peyret, G. Carret, C. CarrÉ, G. Fardel, Jean-Pierre Flandrois. [Mathematical study of the sensitivity curves of Escherichia coli exposed to polymyxins].. Pathologie Biologie, Elsevier Masson, 1990, 38 (5), pp.441-5. ⟨hal-02332651⟩
  • Jean-Pierre Flandrois, M. Chomarat, M. Montclos, F. Breysse. Isolation ofSporosarcina ureae from a bronchial biopsy in a child with cystic fibrosis. European Journal of Clinical Microbiology and Infectious Diseases, Springer Verlag, 1990, 9 (4), pp.302-303. ⟨10.1007/bf01968068⟩. ⟨hal-02332652⟩
  • M. Peyret, Jean-Pierre Flandrois, G. Fardel. Mathematical study of the sensitivity curves of Escherichia coli exposed to polymyxins. Pathologie Biologie, Elsevier Masson, 1990, 38, pp.441-445. ⟨hal-00698138⟩
  • Jean-Pierre Flandrois, S. Comby, J.P. Flandrois, G. Carret, C. Pichat. Mathematical modelling of growth of Escherichia coli at subinhibitory levels of chloramphenicol or tetracyclines. Research in Microbiology, Elsevier, 1989, 140 (3), pp.243-254. ⟨10.1016/0923-2508(89)90079-X⟩. ⟨hal-02332654⟩
  • S Comby, G. Carret, A. Pavé, Jean-Pierre Flandrois, C. Pichat. [Bacteriostatic and bactericidal antibiotics: differences in subinhibitory concentration effects on the growth of Escherichia coli].. Pathologie Biologie, Elsevier Masson, 1989, 37 (5), pp.335-40. ⟨hal-02332659⟩
  • Marie-Joëlle Rochet, Jean-Pierre Flandrois. Bacterial Strain Characterization Using Mathematical Modelling of Growth. Zentralblatt fur Bakteriologie, Mikrobiologie, und Hygiene. Series A, Medical microbiology, infectious diseases, virology, parasitology, 1989, 271 (1), pp.2-10. ⟨10.1016/S0934-8840(89)80047-7⟩. ⟨hal-02332655⟩
  • C Flandrois, Jean-Pierre Flandrois, D Coullioud, I Maire. [Value of enzymuria during antibacterial therapy].. Pathologie Biologie, Elsevier Masson, 1989, 37 (5 Pt 2), pp.657-63. ⟨hal-02332656⟩
  • M. Peyret, Jean-Pierre Flandrois, G. Carret, C. Pichat. [Interpretative reading and quality control of an antibiotic sensitivity test using an expert system. Application to the API ATB system and Enterobacteriaceae].. Pathologie Biologie, Elsevier Masson, 1989, 37 (5 Pt 2), pp.624-8. ⟨hal-02332658⟩
  • Michèle Pérouse de Montclos, Paul Boullanger, Jean-Pierre Flandrois. Study of staphylococcus aureus teichoic acid immunodominant site by help of synthetic haptens. Zentralblatt fur Bakteriologie, Mikrobiologie, und Hygiene. Series A, Medical microbiology, infectious diseases, virology, parasitology, 1988, 267 (3), pp.414-424. ⟨10.1016/S0176-6724(88)80058-0⟩. ⟨hal-02332687⟩
  • Jean-Pierre Flandrois, A. Lepape, P.Y. Carry, M. Chomarat, J.P. Perdrix, et al.. Corynebacterium JK: surgical infections in non-immunosuppressed patients. Intensive Care Medicine, Springer Verlag, 1988, 15 (1), ⟨10.1007/bf00255631⟩. ⟨hal-02332688⟩
  • Jean-Pierre Flandrois, G. Carret, M. Peyret, Catherine Pichat. [Demonstration of an inoculum effect on the estimation of the minimal inhibitory concentration of LY 146032].. Pathologie Biologie, Elsevier Masson, 1988, 36 (5), pp.377-80. ⟨hal-02332666⟩
  • S Comby, Jean-Pierre Flandrois, A. Pavé. [An expert system as an aid to the validation of results of the antibiogram. Feasibility study based on the example of Staphylococcus aureus].. Pathologie Biologie, Elsevier Masson, 1988, 36 (5), pp.381-5. ⟨hal-02332664⟩
  • Jean-Pierre Flandrois, G. Carret, G. Fardel. [A mathematical study of the mortality curve of Escherichia coli exposed to aminoglycosides].. Pathologie Biologie, Elsevier Masson, 1988, 36 (5), pp.446-51. ⟨hal-02332694⟩
  • Jean-Pierre Flandrois, Ghislaine Fardel, G. Carret. Early stages of in vitro killing curve of LY146032 and vancomycin for Staphylococcus aureus.. Antimicrobial Agents and Chemotherapy, American Society for Microbiology, 1988, 32 (4), pp.454-457. ⟨10.1128/AAC.32.4.454⟩. ⟨hal-02332661⟩
  • Jean-Pierre Flandrois, S Comby, G. Carret, C. Pichat. Mathematical modelling of bacterial growth at subinhibitory levels of aminoglycosides. Annales de l'Institut Pasteur / Microbiologie, 1988, 139 (5), pp.613-629. ⟨10.1016/0769-2609(88)90159-7⟩. ⟨hal-02332662⟩
  • S Comby, G. Carret, Jean-Pierre Flandrois, A. Pavé, M Perouse de Montclos. [Use of an expert system as a tool to carry out urinary cyto-bacteriologic tests].. Annales de Biologie Clinique, John Libbey Eurotext, 1988, 46 (8), pp.669-72. ⟨hal-02332663⟩
  • G. Carret, B Charpe, A Cheruy, Jean-Pierre Flandrois, A. Pavé, et al.. [Effect of subinhibitory concentrations of antibiotics on the growth level of bacteria].. Pathologie Biologie, Elsevier Masson, 1987, 35 (5), pp.483-93. ⟨hal-02332695⟩
  • P Le Noc, G. Carret, C. Couix, Jean-Pierre Flandrois, J Gayral, et al.. [Evaluation of the Rapid-ATB system for testing the sensitivity of staphylococci to antibiotics. Comparison with the agar dilution reference method].. Pathologie Biologie, Elsevier Masson, 1986, 34 (5 Pt 2), pp.600-3. ⟨hal-02332697⟩
  • Jean-Pierre Flandrois, A. Corman, G. Carret, A. Pavé, C. Couix. Bacterial growth measurement using an automated system: Mathematical modelling and analysis of growth kinetics. Annales de l'Institut Pasteur / Microbiologie, 1986, 137 (1), pp.133-143. ⟨10.1016/S0769-2609(86)80102-8⟩. ⟨hal-02332696⟩
  • G. Carret, H. Emonard, G. Fardel, M. Druguet, D. Herbage, et al.. Gelatin and collagen binding to Staphylococcus aureus strains.. Ann Inst Pasteur Microbiol, 1985, 136A, pp.241-245. ⟨hal-00312957⟩
  • Jean-Pierre Flandrois, G. Carret. [Nonparametric approach to the determination of critical diameters. Comparison with conventional methods].. Pathologie Biologie, Elsevier Masson, 1984, 32 (5 Pt 2), pp.488-91. ⟨hal-02332698⟩
  • J Fleurette, S Chassignol, A Moulin, A Biron, Jean-Pierre Flandrois. Evolution de la résistance aux antibiotiques des agents infectieux en milieu hospitalier. Bulletin de l'Institut national de la sante et de la recherche medicale, 1970, 25 (5), pp.963-92. ⟨hal-02328996⟩

Conference papers1 document

  • Julie Shapiro, Leboucher Gilles, Anatole Luzzati, Jean Sauzon, Olivier Dauwalder, et al.. P2857 Quantifying drivers of antimicrobial resistance in a large network of hospital wards: a meta-population approach.. 29TH ECCMID, Apr 2019, Amsterdam, Netherlands. ⟨hal-02402157⟩

Book sections1 document

  • M. Delignette-Muller, Jean-Pierre Flandrois. NEURAL NETWORKS AS AN ALTERNATIVE METHOD FOR PREDICTING BACTERIAL GROWTH RATE FROM THE BEGINNING OF A GROWTH CURVE. Industrial Applications of Neural Networks, WORLD SCIENTIFIC, pp.451-457, 1998, ⟨10.1142/9789812816955_0053⟩. ⟨hal-02332600⟩

Preprints, Working Papers, ...1 document

  • Julie Shapiro, Gilles Leboucher, Anne-Florence Myard-Dury, Pascale Girardo, Anatole Luzatti, et al.. Metapopulation ecology links antibiotic resistance, consumption and patient transfers in a network of hospital wards.. 2019. ⟨hal-02402135⟩