Laboratory of Microbiology

Gent, Belgium

Laboratory of Microbiology

Gent, Belgium
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Short Course to Highlight Intracellular Cytokine Detection Assay in Adoptive Cell Therapy Trials and Poster to Highlight Metaproteomic Analysis of Gut Microbiome in Enfants Caprion Biosciences Inc. announced today that Dr. Yoav Peretz, Scientific Director of ImmuneCarta will lead a short course on novel techniques in development of Intracellular cytokine detection assays in adoptive cell therapy trials at the annual Molecular Medicine Triconference held in San Francisco, CA.  The course will focus on providing guidance on detection, persistence, and phenotypic characterization of pentamer CD8+ T cells in adoptive cell immunotherapy trials. Caprion will also have a poster presentation which features an exploratory discovery study on metaproteomic analysis of infant fecal microbiome.  The goal of the study was to extract gut microbiome taxonomy and functional data in a population of infant fecal samples. The results demonstrate a proteomics approach provides functional changes and responses with significantly greater coverage of bacterial genera than the pyrosequencing approach. Pathway analysis also underlines the differences between individual microbiomes and provides insights into their functional responses to diet, disease and therapy. Short Course: Development and Deployment of an Intracellular Cytokine Detection Assay in Adoptive Cell Therapy Trials   SC24 "Flow Cytometry and Phenotypic Cell Analysis in Immuno-Oncology" Speaker: Yoav Peretz, PhD, Scientific Director, ImmuneCarta Monday, Feb 20th, 10:10am Poster presentation at the conference "Metaproteomic Analysis of the Infant Fecal Microbiome" Laetitia Cortes[1], Aude Tartière[1], Julie Piquenot[1], Sebastian Tims[2], Joost W. Gouw[2], Jan Knol[2],[3], Harm Wopereis[2],[3] and Daniel Chelsky[1] [1]Caprion Biosciences Inc, Montreal, Canada; [2]Nutricia Research, Utrecht, the Netherlands; [3]Wageningen University, Laboratory of Microbiology, Wageningen, the Netherlands About Caprion Biosciences, Inc. Caprion is the leading provider of proteomics and immune monitoring services to the pharmaceutical and biotechnology industry. Caprion's immune monitoring division, ImmuneCarta®, offers proprietary multiparametric flow cytometry services for functional analyses of innate and adaptive immune responses. Caprion's proteomics division, ProteoCarta™, offers proprietary gel-free, label-free mass spectrometry (MS) for comprehensive, quantitative and robust comparative measurement of proteins across large sets of biological samples for the discovery and validation of protein biomarkers. Based in Montreal, Canada, and Belgium, Caprion has been providing large-scale proteomics and immune monitoring services to over 50 major pharmaceutical and biotech clients for more than 15 years. Caprion, a privately-held company, is majority owned by Global Healthcare Opportunities, or GHO Capital Partners LLP. For more information, please visit

Vandamme P.,Laboratory of Microbiology | Dawyndt P.,Ghent University
Systematic and Applied Microbiology | Year: 2011

The Burkholderia cepacia complex is a group of closely related species with conflicting biological properties. Triggered by the devastating effect of pulmonary infections in cystic fibrosis patients, the scientific community generated an unusually large amount of taxonomic data for these bacteria during the past 15 years. This review presents the polyphasic, multilocus and genomic methodology used for the classification and identification of these bacteria. The current state-of-the-art demonstrates that present day taxonomists can replace traditional DNA-DNA hybridizations for species level demarcation and 16S rRNA sequence analysis for studying phylogeny by superior whole genome sequence-based parameters within the framework of polyphasic taxonomic studies. © 2010 Elsevier GmbH.

Spreghini E.,Marche Polytechnic University | Orlando F.,Experimental Animal Models for Aging Units | Tavanti A.,University of Pisa | Senesi S.,University of Pisa | And 3 more authors.
Journal of Antimicrobial Chemotherapy | Year: 2012

Objectives: The aim of the present study was to compare, in vitro and in vivo, the effects of caspofungin, micafungin and anidulafungin against Candida parapsilosis complex isolates. Methods: In vitro activities of all three echinocandins were assessed against C. parapsilosis sensu stricto (n = 4), Candida orthopsilosis (n = 4) and Candida metapsilosis (n = 3) using broth microdilution susceptibility testing, minimum fungicidal concentration determination and a killing-curve assay, in the absence and in the presence of 50% human serum. Then, the activities of all drugs were investigated in an immunocompromised murine model of systemic candidiasis. Animals were infected with six isolates (two for each species) and treated with the echinocandins administered at 0.25, 1, 5 and 10 mg/kg/day for six consecutive days. Fungal burdens were assessed in kidney tissues on day 7 post-infection. Results: Geometric mean MICs of caspofungin, micafungin and anidulafungin for C. parapsilosis sensu lato were, respectively, 0.09, 0.14 and 0.20 mg/L without serum, and 0.70, 3.92 and 5.84 mg/L with serum. The fungicidal activity of all three echinocandins was variable; however, the addition of serum reduced the fungicidal effects against these species. In vivo studies showed that caspofungin at 5 and 10 mg/kg/day significantly decreased the kidney burdens with respect to the controls for all isolates, while micafungin was active at 5 and/or 10 mg/kg/day only against C. metapsilosis. Conclusions: Our susceptibility testing showed that caspofungin was the most active echinocandin against all three species. Also, caspofungin resulted in significant therapeutic effects for treatments of experimental systemic infections due to the three species, while micafungin was effective only against C. metapsilosis. © The Author 2012. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved.

de Weerth C.,Behavioural Science Institute | Fuentes S.,Laboratory of Microbiology | de Vos W.M.,Laboratory of Microbiology
Gut microbes | Year: 2013

Up to around a quarter of all infants cry excessively and unsoothably during their first months of life. This phenomenon has been termed "infant colic." In most cases, physicians are unable to determine the cause of the colicky behavior. In a recent study, and by means of comprehensive and deep analyses of more than 1000 intestinal phylotypes, we found that infants with colic showed lower microbiota diversity and stability than control infants in the first weeks of life. Colic-control differences in the abundance of certain bacteria were also found at 2 weeks. These microbial signatures possibly explain the colic phenotype. In this addendum we discuss other recent publications on the subject and present previously unpublished analyses of our own. We address possible mechanisms behind the links between microbiota and crying, and present future directions that could further help elucidate the hypothesized relations between intestinal microbiota and infant colic.

Spreghini E.,Marche Polytechnic University | Orlando F.,Experimental Animal Models for Aging Units | Sanguinetti M.,Catholic University of the Sacred Heart | Posteraro B.,Catholic University of the Sacred Heart | And 3 more authors.
Antimicrobial Agents and Chemotherapy | Year: 2012

The aim of this study was to compare the in vitro and in vivo activities of micafungin, caspofungin, and anidulafungin against Candida glabrata. The MICs against 28 clinical isolates showed that the overall susceptibilities to caspofungin and to micafungin were not statistically different in the absence of human serum, whereas the isolates were less susceptible to micafungin than to caspofungin in its presence. Minimum fungicidal concentrations, as well as time-kill experiments, showed that caspofungin was more active than anidulafungin, while micafungin was superior to either caspofungin or anidulafungin without serum; its addition rendered caspofungin and micafungin equally effective. A murine model of systemic candidiasis against a C. glabratasusceptible isolate was performed to study the effects of all three echinocandins, and kidney burden counts showed that caspofungin, micafungin, and anidulafungin were active starting from 0.25, 1, and 5 mg/kg of body weight/day, respectively. Two echinocandin-resistant strains of C. glabrata were selected: C. glabrata 30, a laboratory strain harboring the mutation Fks2p- P667T, and C. glabrata 51, a clinical isolate harboring the mutation Fks2p-D666G. Micafungin activity was shown to be as effective as or more effective than that of caspofungin or anidulafungin in terms of MICs. In vivo studies against these resistant strains showed that micafungin was active starting from 1 mg/kg/day, while caspofungin was effective only when administrated at higher doses of 5 or 10 mg/kg/day. Although a trend toward colony reduction was observed with the highest doses of anidulafungin, a significant statistical difference was never reached. Copyright © 2012, American Society for Microbiology. All Rights Reserved.

Mantas V.M.,University of Coimbra | Pereira A.J.S.C.,University of Coimbra | Morais P.V.,Laboratory of Microbiology | Morais P.V.,University of Coimbra
Remote Sensing of Environment | Year: 2011

The Home Reef volcano (Tonga, Southwest Pacific Ocean) erupted in August 2006. Initially a submarine eruption it quickly evolved into a subaerial event upon the formation of an ephemeral island.Remote sensing data from different sensors including MODIS, ASTER, EO-1 ALI and Landsat-7 ETM+ were used to analyze the event, focusing on the plumes of discolored water, ocean chlorophyll-a concentration (OCC) and sea surface temperature.An early classification system for the plumes was devised based on spectral properties and point of origin. Plumes originated at the volcano were named Type-I and those associated to the pumice rafts Type-II.Anomalies in ocean chlorophyll-a concentration, measured using MODIS data, were analyzed and a large bloom, presumably dominated by Trichodesmium sp. was identified. The bloom, which contributed to OCC values 17 times higher than the background, was spatially and temporally coincident with a Type-I plume of discolored water. The OCC increase appears to have been caused by a combined effect of both ocean fertilizations by the subsurface volcanic plume and rising sea surface temperatures.The Home Reef event offers a good candidate for a case of ocean enrichment by a submarine volcano and highlights the need for continuous monitoring of the eruptions even after the end of the explosive, more spectacular stages. © 2011 Elsevier Inc.

Touitou V.,Pitie Salpetriere Hospital | Fenollar F.,Laboratory of Microbiology | Cassoux N.,Pitie Salpetriere Hospital | Merle-Beral H.,Pitie Salpetriere Hospital | And 4 more authors.
Ophthalmology | Year: 2012

Objective: To characterize the clinical features of ocular Whipple's disease (WD) and determine the long-term prognosis after antibiotic treatment. Design: Retrospective case series. Participants: Medical records of patients referred between January 1993 and December 2010 were reviewed for chronic corticosteroid-resistant uveitis or neuro-ophthalmologic findings consistent with WD. Eleven patients (male/female = 9/2) were included in this study. Methods: Diagnosis was based on cytologic examination and molecular analysis of samples (cerebrospinal fluid, vitreous, duodenum, or any involved lymph node). It was based on cytology before the routine use of polymerase chain reaction (PCR) and on both cytology and molecular biology for more recent patients. Long-term antibiotic therapy included oral trimethoprim-sulfamethoxazole (TMP-SMX) and rifampin, TMP-SMX alone, rifampin alone, or tetracycline alone. Main Outcome Measures: (1) Demographic and clinical characteristics of patients with positive PCR for Tropheryma whipplei or periodic acid-Schiff-positive macrophages in the vitreous and (2) long-term prognosis after antibiotic treatment. Results: Mean age at diagnosis was 63 years (range, 51-73 years). Average time between the onset of the disease and diagnosis was 2 years (range, 1 month to 11 years). Mean follow-up was 7.2 years (range, 0.25-18 years). Ophthalmologic findings consisted of chronic uveitis (9 patients), isolated bilateral optic disc swelling (1 patient), and Parinaud syndrome (1 patient). All patients had PAS-positive macrophages, and 6 patients had a positive PCR for T. whipplei. Nine patients were treated with TMP-SMX and rifampin. One patient treated with only tetracycline relapsed and was successfully treated with TMP-SMX. No major side effects were reported. Intraocular inflammation and neurologic manifestations were controlled in all cases. At the end of follow-up, 2 patients were off treatment, 2 patients had a neurologic relapse after treatment interruption, and 5 patients were still taking TMP-SMX. One patient was taking only rifampin. Two patients were lost to follow-up. Conclusions: Ocular WD seems to be a neurologic manifestation of WD. Trimethoprim-SMX with rifampin is an efficient treatment, and prolonging treatment for at least 1 year is recommended. Long-term low-dose antibiotic therapy may reduce the rate of relapse, neurologic involvement, and death. Financial Disclosure(s): The author(s) have no proprietary or commercial interest in any materials discussed in this article. © 2012 American Academy of Ophthalmology.

Luzzaro F.,Laboratory of Microbiology | Ortisi G.,Laboratory of Microbiology | Larosa M.,Sanofi S.A. | Drago M.,Laboratory of Microbiology | And 2 more authors.
Diagnostic Microbiology and Infectious Disease | Year: 2011

Beginning on April 2007, a prospective multicenter study was performed to investigate prevalence and epidemiology of microbial pathogens causing bloodstream infections (BSIs). Twenty microbiology laboratories participated to the survey over a 1-year period. A total of 11638 episodes of BSI occurred in 11 202 patients, with 8.5% (n = 985) of episodes being polymicrobial. Of 12 781 causative organisms, aerobic Gram-negative bacteria were 47.4% (n = 6058), whereas Gram-positives accounted for 43.9% (n = 5608). The remaining organisms included fungal species (n = 924, 7.2%) and anaerobes (n = 191, 1.5%). The most prevalent agents were Escherichia coli (21.7%), Staphylococcus aureus (14.9%), Staphylococcus epidermidis (8.2%), Pseudomonas aeruginosa (7.0%), and Enterococcus faecalis (6.3%). Isolates recovered from patients admitted to medical, surgical, and intensive care units accounted for 62.9%, 17.7%, and 19.4% of cases, respectively. BSIs were classified as hospital-acquired in 67.2% of cases. Compared with previous studies, our data show an increasing role of Gram-negative bacteria among both hospital- and community-acquired blood isolates. © 2011 Elsevier Inc.

Yeom G.G.M.,IPEERES Cosmetics Ltd. | Min S.,Laboratory of Microbiology | Kim S.Y.,Gachon University
International Immunopharmacology | Year: 2014

Background 2,3,5,6-Tetramethylpyrazine (TMP) is known as a composition of Ephedra sinica and it has been used in the treatment of several disorders such as asthma, heart failure, rhinitis, and urinary incontinence. It has been reported that TMP inhibits melanoma metastasis and suppression angiogenesis by VEGF. Objective The inhibitory activity of melanogenic proteins by TMP was confirmed in UVA-induced melanoma/keratinocyte co-culture system in this paper. Methods The melanin content, cell viability and cytokines release such as TNFα, IL-1β, IL-8 and GM-CSF were measured by ELISA assay. In addition, TRP1, MITF and MAPK signaling protein expression were also evaluated by Western blotting analysis. Results Decreasing melanogenic factors (TRP1, MITF, and MAPK) and factors (TNFα, IL-1β, IL-8, and GM-CSF) improving skin cancer and inflammation were identified. Conclusion It suggests that TMP can serve as a potent candidate for regulation of melanogenesis. © 2013 Elsevier B.V.

Vandamme P.,Laboratory of Microbiology | Peeters C.,Laboratory of Microbiology
Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology | Year: 2014

Although the International Code of Nomenclature of Bacteria does not specify a working strategy, editors and reviewers of taxonomic journals commonly request a polyphasic taxonomic approach that includes phenotypic, genotypic and chemotaxonomic information for the description of novel bacterial species. Whole genome sequences provide an insight into the genetic nature of microbial species, yield new and superior tools for delineating bacterial species and for studying their phylogeny, and provide a window on an organism's metabolic potential. These new insights and tools are gradually introduced in the polyphasic taxonomic practice. The genus Burkholderia, a controversial group of bacteria with both benign and devastating characteristics, is used as an example to show that the modern practice of polyphasic taxonomy is counterproductive in light of the tremendous number of bacterial species that awaits formal description and naming. Bacterial taxonomists must urgently reconsider how to describe and name novel bacteria in the genomic era, and should consider using a full genome sequence and a minimal description of phenotypic characteristics as a basic, sufficient, cost-effective and appropriate biological identity card for a species description. © 2014 Springer International Publishing.

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