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1. Nationwide quality assurance of high-throughput diagnostic molecular testing during the SARS-CoV-2 pandemic: role of the Belgian National Reference Centre

Author

Janssen, Reile, Cuypers, Lize, Laenen, Lies, Keyaerts, Els, Beuselinck, Kurt, Janssenswillen, Sunita, Slechten, Bram, Bode, Jannes, Wollants, Elke, Van Laethem, Kristel, Rector, Annabel, Bloemen, Mandy, Sijmons, Anke, de Schaetzen, Nathalie, Capron, Arnaud, Van Baelen, Kurt, Pascal, Thierry, Vermeiren, Céline, Bureau, Fabrice, Vandesompele, Jo, De Smet, Pieter, Uten, Wouter, Malonne, Hugues, Kerkhofs, Pierre, De Cock, Jo, Matheeussen, Veerle, Verhasselt, Bruno, Gillet, Laurent, Detry, Gautier, Bearzatto, Bertrand, Degosserie, Jonathan, Henin, Coralie, Pairoux, Gregor, Maes, Piet, Van Ranst, Marc, Lagrou, Katrien, Dequeker, Elisabeth, and André, Emmanuel

Published
2024
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4. Two Years of Genomic Surveillance in Belgium during the SARS-CoV-2 Pandemic to Attain Country-Wide Coverage and Monitor the Introduction and Spread of Emerging Variants

Author

COVID-19 Genomics Belgium Consortium, Cuypers, Lize, Dellicour, Simon, Hong, Samuel L, Potter, Barney I, Verhasselt, Bruno, Vereecke, Nick, Lambrechts, Laurens, Durkin, Keith, Bours, Vincent, Klamer, Sofieke, Bayon-Vicente, Guillaume, Vael, Carl, Ariën, Kevin K, De Mendonca, Ricardo, Soetens, Oriane, Michel, Charlotte, Bearzatto, Bertrand, Naesens, Reinout, Gras, Jeremie, Vankeerberghen, Anne, Matheeussen, Veerle, Martens, Geert, Obbels, Dagmar, Lemmens, Ann, Van den Poel, Bea, Van Even, Ellen, De Rauw, Klara, Waumans, Luc, Reynders, Marijke, Degosserie, Jonathan, Maes, Piet, André, Emmanuel, Baele, Guy, Department of Bio-engineering Sciences, Supporting clinical sciences, Microbiology and Infection Control, Clinical Biology, Department of Clinical Microbiology, Faculty of Physical Education and Physical Therapy, Diabetes Pathology & Therapy, UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, and COVID-19 Genomics Belgium Consortium

Subjects
SARS-CoV-2, Biology and Life Sciences, COVID-19, High-Throughput Nucleotide Sequencing, Genomics, Genome, Viral, variants of concern, genomic surveillance, Infectious Diseases, Belgium, SARS-CoV-2/genetics, Virology, Medicine and Health Sciences, genomics, Humans, next-generation sequencing, Human medicine, Belgium/epidemiology, Pandemics, COVID-19/epidemiology
Abstract

An adequate SARS-CoV-2 genomic surveillance strategy has proven to be essential for countries to obtain a thorough understanding of the variants and lineages being imported and successfully established within their borders. During 2020, genomic surveillance in Belgium was not structurally implemented but performed by individual research laboratories that had to acquire the necessary funds themselves to perform this important task. At the start of 2021, a nationwide genomic surveillance consortium was established in Belgium to markedly increase the country's genomic sequencing efforts (both in terms of intensity and representativeness), to perform quality control among participating laboratories, and to enable coordination and collaboration of research projects and publications. We here discuss the genomic surveillance efforts in Belgium before and after the establishment of its genomic sequencing consortium, provide an overview of the specifics of the consortium, and explore more details regarding the scientific studies that have been published as a result of the increased number of Belgian SARS-CoV-2 genomes that have become available. ispartof: VIRUSES-BASEL vol:14 issue:10 ispartof: location:Switzerland status: published

Published
2022

5. Two Years of Genomic Surveillance in Belgium during the SARS-CoV-2 Pandemic to Attain Country-Wide Coverage and Monitor the Introduction and Spread of Emerging Variants

Author

Cuypers, Lize, primary, Dellicour, Simon, additional, Hong, Samuel L., additional, Potter, Barney I., additional, Verhasselt, Bruno, additional, Vereecke, Nick, additional, Lambrechts, Laurens, additional, Durkin, Keith, additional, Bours, Vincent, additional, Klamer, Sofieke, additional, Bayon-Vicente, Guillaume, additional, Vael, Carl, additional, Ariën, Kevin K., additional, De Mendonca, Ricardo, additional, Soetens, Oriane, additional, Michel, Charlotte, additional, Bearzatto, Bertrand, additional, Naesens, Reinout, additional, Gras, Jeremie, additional, Vankeerberghen, Anne, additional, Matheeussen, Veerle, additional, Martens, Geert, additional, Obbels, Dagmar, additional, Lemmens, Ann, additional, Van den Poel, Bea, additional, Van Even, Ellen, additional, De Rauw, Klara, additional, Waumans, Luc, additional, Reynders, Marijke, additional, Degosserie, Jonathan, additional, Maes, Piet, additional, André, Emmanuel, additional, and Baele, Guy, additional

Published
2022
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7. Nationwide Harmonization Effort for Semi-Quantitative Reporting of SARS-CoV-2 PCR Test Results in Belgium

Author

Cuypers, Lize, primary, Bode, Jannes, additional, Beuselinck, Kurt, additional, Laenen, Lies, additional, Dewaele, Klaas, additional, Janssen, Reile, additional, Capron, Arnaud, additional, Lafort, Yves, additional, Paridaens, Henry, additional, Bearzatto, Bertrand, additional, Cauchie, Mathieu, additional, Huwart, Aline, additional, Degosserie, Jonathan, additional, Fagnart, Olivier, additional, Overmeire, Yarah, additional, Rouffiange, Arlette, additional, Vandecandelaere, Ilse, additional, Deffontaine, Marine, additional, Pilate, Thomas, additional, Yin, Nicolas, additional, Micalessi, Isabel, additional, Roisin, Sandrine, additional, Moons, Veronique, additional, Reynders, Marijke, additional, Steyaert, Sophia, additional, Henin, Coralie, additional, Lazarova, Elena, additional, Obbels, Dagmar, additional, Dufrasne, François E., additional, Pirenne, Hendri, additional, Schepers, Raf, additional, Collin, Anaëlle, additional, Verhasselt, Bruno, additional, Gillet, Laurent, additional, Jonckheere, Stijn, additional, Van Lint, Philippe, additional, Van den Poel, Bea, additional, Van der Beken, Yolien, additional, Stojkovic, Violeta, additional, Garrino, Maria-Grazia, additional, Segers, Hannah, additional, Vos, Kevin, additional, Godefroid, Maaike, additional, Pede, Valerie, additional, Nollet, Friedel, additional, Claes, Vincent, additional, Verschraegen, Inge, additional, Bogaerts, Pierre, additional, Van Gysel, Marjan, additional, Leurs, Judith, additional, Saegeman, Veroniek, additional, Soetens, Oriane, additional, Vanhee, Merijn, additional, Schiettekatte, Gilberte, additional, Huyghe, Evelyne, additional, Martens, Steven, additional, Lemmens, Ann, additional, Nailis, Heleen, additional, Laffineur, Kim, additional, Steensels, Deborah, additional, Vanlaere, Elke, additional, Gras, Jérémie, additional, Roussel, Gatien, additional, Gijbels, Koenraad, additional, Boudewijns, Michael, additional, Sion, Catherine, additional, Achtergael, Wim, additional, Maurissen, Wim, additional, Iliano, Luc, additional, Chantrenne, Marianne, additional, Vanheule, Geert, additional, Flies, Reinoud, additional, Hougardy, Nicolas, additional, Berth, Mario, additional, Verbeke, Vanessa, additional, Morent, Robin, additional, Vankeerberghen, Anne, additional, Bontems, Sébastien, additional, Kehoe, Kaat, additional, Schallier, Anneleen, additional, Ho, Giang, additional, Bafort, Kristof, additional, Raymaekers, Marijke, additional, Pypen, Yolande, additional, Heinrichs, Amelie, additional, Schuermans, Wim, additional, Cuigniez, Dominique, additional, Lali, Salah Eddine, additional, Drieghe, Stefanie, additional, Ory, Dieter, additional, Le Mercier, Marie, additional, Van Laethem, Kristel, additional, Thoelen, Inge, additional, Vandamme, Sarah, additional, Mansoor, Iqbal, additional, Vael, Carl, additional, De Sloovere, Maxime, additional, Declerck, Katrien, additional, Dequeker, Elisabeth, additional, Desmet, Stefanie, additional, Maes, Piet, additional, Lagrou, Katrien, additional, and André, Emmanuel, additional

Published
2022
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8. BRAFV600E Induction in Thyrocytes Triggers Important Changes in the miRNAs Content and the Populations of Extracellular Vesicles Released in Thyroid Tumor Microenvironment

Author

UCL - SSS/DDUV - Institut de Duve, UCL - SSS/DDUV/BCHM - Biochimie-Recherche métabolique, UCL - SSS/DDUV/CELL - Biologie cellulaire, UCL - SSS/DDUV/CBIO - Computational Biology and Bioinformatics, UCL - SSS/DDUV/GEPI - Epigénétique, Delcorte, Ophélie, Spourquet, Catherine, Lemoine, Pascale, Degosserie, Jonathan, Van Der Smissen, Patrick, Dauguet, Nicolas, Loriot, Axelle, Knauf, Jeffrey A., Gatto, Laurent, Marbaix, Etienne, Fagin, James A., Pierreux, Christophe, UCL - SSS/DDUV - Institut de Duve, UCL - SSS/DDUV/BCHM - Biochimie-Recherche métabolique, UCL - SSS/DDUV/CELL - Biologie cellulaire, UCL - SSS/DDUV/CBIO - Computational Biology and Bioinformatics, UCL - SSS/DDUV/GEPI - Epigénétique, Delcorte, Ophélie, Spourquet, Catherine, Lemoine, Pascale, Degosserie, Jonathan, Van Der Smissen, Patrick, Dauguet, Nicolas, Loriot, Axelle, Knauf, Jeffrey A., Gatto, Laurent, Marbaix, Etienne, Fagin, James A., and Pierreux, Christophe

Abstract

Papillary thyroid cancer (PTC) is the most common endocrine malignancy for which diagnosis and recurrences still challenge clinicians. New perspectives to overcome these issues could come from the study of extracellular vesicle (EV) populations and content. Here, we aimed to elucidate the heterogeneity of EVs circulating in the tumor and the changes in their microRNA content during cancer progression. Using a mouse model expressing BRAFV600E, we isolated and characterized EVs from thyroid tissue by ultracentrifugations and elucidated their microRNA content by small RNA sequencing. The cellular origin of EVs was investigated by ExoView and that of deregulated EV-microRNA by qPCR on FACS-sorted cell populations. We found that PTC released more EVs bearing epithelial and immune markers, as compared to the healthy thyroid, so that changes in EV-microRNAs abundance were mainly due to their deregulated expression in thyrocytes. Altogether, our work provides a full description of in vivo-derived EVs produced by, and within, normal and cancerous thyroid. We elucidated the global EV-microRNAs signature, the dynamic loading of microRNAs in EVs upon BRAFV600E induction, and their cellular origin. Finally, we propose that thyroid tumor-derived EV-microRNAs could support the establishment of a permissive immune microenvironment.

Published
2022

9. Analytical Sensitivity of Six SARS-CoV-2 Rapid Antigen Tests for Omicron versus Delta Variant.

Author

UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, Bayart, Jean-Louis, Degosserie, Jonathan, Favresse, Julien, Gillot, Constant, Didembourg, Marie, Djokoto, Happy Phanio, Verbelen, Valérie, Roussel, Gatien, Maschietto, Céline, Mullier, François, Dogné, Jean-Michel, Douxfils, Jonathan, UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, Bayart, Jean-Louis, Degosserie, Jonathan, Favresse, Julien, Gillot, Constant, Didembourg, Marie, Djokoto, Happy Phanio, Verbelen, Valérie, Roussel, Gatien, Maschietto, Céline, Mullier, François, Dogné, Jean-Michel, and Douxfils, Jonathan

Abstract

Rapid antigen detection (RAD) tests are commonly used for the diagnosis of SARS-CoV-2 infections. However, with the continuous emergence of new variants of concern (VOC), presenting various mutations potentially affecting the nucleocapsid protein, the analytical performances of these assays should be frequently reevaluated. One hundred and twenty samples were selected and tested with both RT-qPCR and six commercial RAD tests that are commonly sold in Belgian pharmacies. Of these, direct whole-genome sequencing identified the strains present in 116 samples, of which 70 were Delta and 46 were Omicron (BA.1 and BA.1.1 sub-lineages, respectively). The sensitivity across a wide range of Ct values (13.5 to 35.7; median = 21.3) ranged from 70.0% to 92.9% for Delta strains and from 69.6% to 78.3% for Omicron strains. When taking swabs with a low viral load (Ct > 25, corresponding to <4.9 log copies/mL), only the Roche RAD test showed acceptable performances for the Delta strains (80.0%), while poor performances were observed for the other RAD tests (20.0% to 40.0%). All the tested devices had poor performances for the Omicron samples with a low viral load (0.0% to 23.1%). The poor performances observed with low viral loads, particularly for the Omicron strain, is an important limitation of RAD tests, which is not sufficiently highlighted in the instructions for use of these devices.

Published
2022

10. Nationwide Harmonization Effort for Semi-Quantitative Reporting of SARS-CoV-2 PCR Test Results in Belgium.

Author

UCL - (MGD) Laboratoire de biologie clinique, UCL - SSS/IREC/MONT - Pôle Mont Godinne, Cuypers, Lize, Bode, Jannes, Beuselinck, Kurt, Laenen, Lies, Dewaele, Klaas, Janssen, Reile, Capron, Arnaud, Lafort, Yves, Paridaens, Henry, Bearzatto, Bertrand, Cauchie, Mathieu, Huwart, Aline, Degosserie, Jonathan, Fagnart, Olivier, Overmeire, Yarah, Rouffiange, Arlette, Vandecandelaere, Ilse, Deffontaine, Marine, Pilate, Thomas, Yin, Nicolas, Micalessi, Isabel, Roisin, Sandrine, Moons, Veronique, Reynders, Marijke, Steyaert, Sophia, Henin, Coralie, Lazarova, Elena, Obbels, Dagmar, Dufrasne, François E, Pirenne, Hendri, Schepers, Raf, Collin, Anaëlle, Verhasselt, Bruno, Gillet, Laurent, Jonckheere, Stijn, Van Lint, Philippe, Van den Poel, Bea, Van der Beken, Yolien, Stojkovic, Violeta, Garrino, Maria-Grazia, Segers, Hannah, Vos, Kevin, Godefroid, Maaike, Pede, Valerie, Nollet, Friedel, Claes, Vincent, Verschraegen, Inge, Bogaerts, Pierre, Van Gysel, Marjan, Leurs, Judith, Saegeman, Veroniek, Soetens, Oriane, Vanhee, Merijn, Schiettekatte, Gilberte, Huyghe, Evelyne, Martens, Steven, Lemmens, Ann, Nailis, Heleen, Laffineur, Kim, Steensels, Deborah, Vanlaere, Elke, Gras, Jérémie, Roussel, Gatien, Gijbels, Koenraad, Boudewijns, Michael, Sion, Catherine, Achtergael, Wim, Maurissen, Wim, Iliano, Luc, Chantrenne, Marianne, Vanheule, Geert, Flies, Reinoud, Hougardy, Nicolas, Berth, Mario, Verbeke, Vanessa, Morent, Robin, Vankeerberghen, Anne, Bontems, Sébastien, Kehoe, Kaat, Schallier, Anneleen, Ho, Giang, Bafort, Kristof, Raymaekers, Marijke, Pypen, Yolande, Heinrichs, Amelie, Schuermans, Wim, Cuigniez, Dominique, Lali, Salah Eddine, Drieghe, Stefanie, Ory, Dieter, Le Mercier, Marie, Van Laethem, Kristel, Thoelen, Inge, Vandamme, Sarah, Mansoor, Iqbal, Vael, Carl, De Sloovere, Maxime, Declerck, Katrien, Dequeker, Elisabeth, Desmet, Stefanie, Maes, Piet, Lagrou, Katrien, André, Emmanuel, UCL - (MGD) Laboratoire de biologie clinique, UCL - SSS/IREC/MONT - Pôle Mont Godinne, Cuypers, Lize, Bode, Jannes, Beuselinck, Kurt, Laenen, Lies, Dewaele, Klaas, Janssen, Reile, Capron, Arnaud, Lafort, Yves, Paridaens, Henry, Bearzatto, Bertrand, Cauchie, Mathieu, Huwart, Aline, Degosserie, Jonathan, Fagnart, Olivier, Overmeire, Yarah, Rouffiange, Arlette, Vandecandelaere, Ilse, Deffontaine, Marine, Pilate, Thomas, Yin, Nicolas, Micalessi, Isabel, Roisin, Sandrine, Moons, Veronique, Reynders, Marijke, Steyaert, Sophia, Henin, Coralie, Lazarova, Elena, Obbels, Dagmar, Dufrasne, François E, Pirenne, Hendri, Schepers, Raf, Collin, Anaëlle, Verhasselt, Bruno, Gillet, Laurent, Jonckheere, Stijn, Van Lint, Philippe, Van den Poel, Bea, Van der Beken, Yolien, Stojkovic, Violeta, Garrino, Maria-Grazia, Segers, Hannah, Vos, Kevin, Godefroid, Maaike, Pede, Valerie, Nollet, Friedel, Claes, Vincent, Verschraegen, Inge, Bogaerts, Pierre, Van Gysel, Marjan, Leurs, Judith, Saegeman, Veroniek, Soetens, Oriane, Vanhee, Merijn, Schiettekatte, Gilberte, Huyghe, Evelyne, Martens, Steven, Lemmens, Ann, Nailis, Heleen, Laffineur, Kim, Steensels, Deborah, Vanlaere, Elke, Gras, Jérémie, Roussel, Gatien, Gijbels, Koenraad, Boudewijns, Michael, Sion, Catherine, Achtergael, Wim, Maurissen, Wim, Iliano, Luc, Chantrenne, Marianne, Vanheule, Geert, Flies, Reinoud, Hougardy, Nicolas, Berth, Mario, Verbeke, Vanessa, Morent, Robin, Vankeerberghen, Anne, Bontems, Sébastien, Kehoe, Kaat, Schallier, Anneleen, Ho, Giang, Bafort, Kristof, Raymaekers, Marijke, Pypen, Yolande, Heinrichs, Amelie, Schuermans, Wim, Cuigniez, Dominique, Lali, Salah Eddine, Drieghe, Stefanie, Ory, Dieter, Le Mercier, Marie, Van Laethem, Kristel, Thoelen, Inge, Vandamme, Sarah, Mansoor, Iqbal, Vael, Carl, De Sloovere, Maxime, Declerck, Katrien, Dequeker, Elisabeth, Desmet, Stefanie, Maes, Piet, Lagrou, Katrien, and André, Emmanuel

Abstract

From early 2020, a high demand for SARS-CoV-2 tests was driven by several testing indications, including asymptomatic cases, resulting in the massive roll-out of PCR assays to combat the pandemic. Considering the dynamic of viral shedding during the course of infection, the demand to report cycle threshold (Ct) values rapidly emerged. As Ct values can be affected by a number of factors, we considered that harmonization of semi-quantitative PCR results across laboratories would avoid potential divergent interpretations, particularly in the absence of clinical or serological information. A proposal to harmonize reporting of test results was drafted by the National Reference Centre (NRC) UZ/KU Leuven, distinguishing four categories of positivity based on RNA copies/mL. Pre-quantified control material was shipped to 124 laboratories with instructions to setup a standard curve to define thresholds per assay. For each assay, the mean Ct value and corresponding standard deviation was calculated per target gene, for the three concentrations (10, 10 and 10 copies/mL) that determine the classification. The results of 17 assays are summarized. This harmonization effort allowed to ensure that all Belgian laboratories would report positive PCR results in the same semi-quantitative manner to clinicians and to the national database which feeds contact tracing interventions.

Published
2022

11. Two Years of Genomic Surveillance in Belgium during the SARS-CoV-2 Pandemic to Attain Country-Wide Coverage and Monitor the Introduction and Spread of Emerging Variants.

Author

UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, Cuypers, Lize, Dellicour, Simon, Hong, Samuel L, Potter, Barney I, Verhasselt, Bruno, Vereecke, Nick, Lambrechts, Laurens, Durkin, Keith, Bours, Vincent, Klamer, Sofieke, Bayon-Vicente, Guillaume, Vael, Carl, Ariën, Kevin K, De Mendonca, Ricardo, Soetens, Oriane, Michel, Charlotte, Bearzatto, Bertrand, Naesens, Reinout, Gras, Jeremie, Vankeerberghen, Anne, Matheeussen, Veerle, Martens, Geert, Obbels, Dagmar, Lemmens, Ann, Van den Poel, Bea, Van Even, Ellen, De Rauw, Klara, Waumans, Luc, Reynders, Marijke, Degosserie, Jonathan, COVID-19 Genomics Belgium Consortium, Maes, Piet, André, Emmanuel, Baele, Guy, UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, Cuypers, Lize, Dellicour, Simon, Hong, Samuel L, Potter, Barney I, Verhasselt, Bruno, Vereecke, Nick, Lambrechts, Laurens, Durkin, Keith, Bours, Vincent, Klamer, Sofieke, Bayon-Vicente, Guillaume, Vael, Carl, Ariën, Kevin K, De Mendonca, Ricardo, Soetens, Oriane, Michel, Charlotte, Bearzatto, Bertrand, Naesens, Reinout, Gras, Jeremie, Vankeerberghen, Anne, Matheeussen, Veerle, Martens, Geert, Obbels, Dagmar, Lemmens, Ann, Van den Poel, Bea, Van Even, Ellen, De Rauw, Klara, Waumans, Luc, Reynders, Marijke, Degosserie, Jonathan, COVID-19 Genomics Belgium Consortium, Maes, Piet, André, Emmanuel, and Baele, Guy

Abstract

An adequate SARS-CoV-2 genomic surveillance strategy has proven to be essential for countries to obtain a thorough understanding of the variants and lineages being imported and successfully established within their borders. During 2020, genomic surveillance in Belgium was not structurally implemented but performed by individual research laboratories that had to acquire the necessary funds themselves to perform this important task. At the start of 2021, a nationwide genomic surveillance consortium was established in Belgium to markedly increase the country's genomic sequencing efforts (both in terms of intensity and representativeness), to perform quality control among participating laboratories, and to enable coordination and collaboration of research projects and publications. We here discuss the genomic surveillance efforts in Belgium before and after the establishment of its genomic sequencing consortium, provide an overview of the specifics of the consortium, and explore more details regarding the scientific studies that have been published as a result of the increased number of Belgian SARS-CoV-2 genomes that have become available.

Published
2022

12. Role of Extracellular Vesicles in Thyroid Physiology and Diseases: Implications for Diagnosis and Treatment.

Author

UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, UCL - SSS/DDUV - Institut de Duve, UCL - SSS/DDUV/CELL - Biologie cellulaire, Delcorte, Ophélie, Degosserie, Jonathan, Pierreux, Christophe, UCL - SSS/IREC/MONT - Pôle Mont Godinne, UCL - (MGD) Laboratoire de biologie clinique, UCL - SSS/DDUV - Institut de Duve, UCL - SSS/DDUV/CELL - Biologie cellulaire, Delcorte, Ophélie, Degosserie, Jonathan, and Pierreux, Christophe

Abstract

Extracellular vesicles are spherical subcellular structures delimited by a lipid bilayer and released by most cells in the human body. They are loaded with a myriad of molecules (i.e., nucleic acids and proteins) depending on their cell of origin and provide the ability to transmit a message to surrounding or distant target cells. In several organs, including the thyroid, abundant recent literature reports that extracellular vesicles are responsible for intercellular communication in physiological and pathological processes, and that their utilization as a potential biomarker of pathological states (i.e., cancer, autoimmune diseases) or as therapeutic delivery vehicles promise clinical options. In this review, we present the current knowledge and understanding regarding the role of extracellular vesicles in developing thyroid diseases and diagnosis.

Published
2022

13. Two Years of Genomic Surveillance in Belgium during the SARS-CoV-2 Pandemic to Attain Country-Wide Coverage and Monitor the Introduction and Spread of Emerging Variants

Author

Cuypers, Lize, Dellicour, Simon, Hong, Samuel S.L., Potter, Barney, Verhasselt, Bruno, Vereecke, Nick, Lambrechts, Laurens, Durkin, Keith, Bours, Vincent, Klamer, Sofieke, Bayon-Vicente, Guillaume, Vael, Carl, Ariën, Kevin, De Mendonça, Ricardo, Soetens, Oriane, Michel, Charlotte, Bearzatto, Bertrand, Naesens, Reinout, Gras, Jeremie, Vankeerberghen, Anne, Matheeussen, Veerle, Martens, Geert Antoine, Obbels, Dagmar, Lemmens, Ann, Van den Poel, Bea, Van Even, Ellen, De Rauw, Klara, Waumans, Luc, Reynders, Marijke, Degosserie, Jonathan, André, Emmanuel, Maes, Piet, Baele, Guy, Cuypers, Lize, Dellicour, Simon, Hong, Samuel S.L., Potter, Barney, Verhasselt, Bruno, Vereecke, Nick, Lambrechts, Laurens, Durkin, Keith, Bours, Vincent, Klamer, Sofieke, Bayon-Vicente, Guillaume, Vael, Carl, Ariën, Kevin, De Mendonça, Ricardo, Soetens, Oriane, Michel, Charlotte, Bearzatto, Bertrand, Naesens, Reinout, Gras, Jeremie, Vankeerberghen, Anne, Matheeussen, Veerle, Martens, Geert Antoine, Obbels, Dagmar, Lemmens, Ann, Van den Poel, Bea, Van Even, Ellen, De Rauw, Klara, Waumans, Luc, Reynders, Marijke, Degosserie, Jonathan, André, Emmanuel, Maes, Piet, and Baele, Guy

Abstract

An adequate SARS-CoV-2 genomic surveillance strategy has proven to be essential for countries to obtain a thorough understanding of the variants and lineages being imported and successfully established within their borders. During 2020, genomic surveillance in Belgium was not structurally implemented but performed by individual research laboratories that had to acquire the necessary funds themselves to perform this important task. At the start of 2021, a nationwide genomic surveillance consortium was established in Belgium to markedly increase the country’s genomic sequencing efforts (both in terms of intensity and representativeness), to perform quality control among participating laboratories, and to enable coordination and collaboration of research projects and publications. We here discuss the genomic surveillance efforts in Belgium before and after the establishment of its genomic sequencing consortium, provide an overview of the specifics of the consortium, and explore more details regarding the scientific studies that have been published as a result of the increased number of Belgian SARS-CoV-2 genomes that have become available., SCOPUS: re.j, info:eu-repo/semantics/published

Published
2022

14. BRAFV600E Induction in Thyrocytes Triggers Important Changes in the miRNAs Content and the Populations of Extracellular Vesicles Released in Thyroid Tumor Microenvironment

Author

Delcorte, Ophélie, primary, Spourquet, Catherine, additional, Lemoine, Pascale, additional, Degosserie, Jonathan, additional, Van Der Smissen, Patrick, additional, Dauguet, Nicolas, additional, Loriot, Axelle, additional, Knauf, Jeffrey A., additional, Gatto, Laurent, additional, Marbaix, Etienne, additional, Fagin, James A., additional, and Pierreux, Christophe E., additional

Published
2022
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15. Analytical Sensitivity of Six SARS-CoV-2 Rapid Antigen Tests for Omicron versus Delta Variant

Author

Bayart, Jean-Louis, primary, Degosserie, Jonathan, additional, Favresse, Julien, additional, Gillot, Constant, additional, Didembourg, Marie, additional, Djokoto, Happy Phanio, additional, Verbelen, Valérie, additional, Roussel, Gatien, additional, Maschietto, Céline, additional, Mullier, François, additional, Dogné, Jean-Michel, additional, and Douxfils, Jonathan, additional

Published
2022
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16. Analytical Sensitivity of Five SARS-CoV-2 Rapid Antigen Tests for Omicron Versus Delta Variant

Author

Bayart, Jean-Louis, primary, Degosserie, Jonathan, additional, Favresse, Julien, additional, Gillot, Constant, additional, Didembourg, Marie, additional, Djokoto, Happy Phanio, additional, Verbelen, Valérie, additional, Roussel, Gatien, additional, Maschietto, Celine, additional, Mullier, François, additional, Dogné, Jean-Michel, additional, and Douxfils, Jonathan, additional

Published
2022
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17. BRAF V600E Induction in Thyrocytes Triggers Important Changes in the miRNAs Content and the Populations of Extracellular Vesicles Released in Thyroid Tumor Microenvironment.

Author

Delcorte, Ophélie, Spourquet, Catherine, Lemoine, Pascale, Degosserie, Jonathan, Van Der Smissen, Patrick, Dauguet, Nicolas, Loriot, Axelle, Knauf, Jeffrey A., Gatto, Laurent, Marbaix, Etienne, Fagin, James A., and Pierreux, Christophe E.

Subjects
EXTRACELLULAR vesicles, THYROID gland tumors, TUMOR microenvironment, THYROID cancer, NON-coding RNA, BRAF genes
Abstract

Papillary thyroid cancer (PTC) is the most common endocrine malignancy for which diagnosis and recurrences still challenge clinicians. New perspectives to overcome these issues could come from the study of extracellular vesicle (EV) populations and content. Here, we aimed to elucidate the heterogeneity of EVs circulating in the tumor and the changes in their microRNA content during cancer progression. Using a mouse model expressing BRAFV600E, we isolated and characterized EVs from thyroid tissue by ultracentrifugations and elucidated their microRNA content by small RNA sequencing. The cellular origin of EVs was investigated by ExoView and that of deregulated EV-microRNA by qPCR on FACS-sorted cell populations. We found that PTC released more EVs bearing epithelial and immune markers, as compared to the healthy thyroid, so that changes in EV-microRNAs abundance were mainly due to their deregulated expression in thyrocytes. Altogether, our work provides a full description of in vivo-derived EVs produced by, and within, normal and cancerous thyroid. We elucidated the global EV-microRNAs signature, the dynamic loading of microRNAs in EVs upon BRAFV600E induction, and their cellular origin. Finally, we propose that thyroid tumor-derived EV-microRNAs could support the establishment of a permissive immune microenvironment. [ABSTRACT FROM AUTHOR]

Published
2022
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19. Extracellular vesicles are important actors in paracrine communication during thyroid development : implications for papillary cancer establishment ?

Author

Degosserie, Jonathan, UCL - SSS/DDUV/CELL - Biologie cellulaire, UCL - Faculté de pharmacie et des sciences biomédicales, Demoulin, Jean-Baptiste, Courtoy, Pierre, Constantinescu, Stefan, Jacquemin, Patrick, Costagliola, Sabine, Lässer, Cecilia, and Pierreux, Christophe

Subjects
Thyroid, endocrine system diseases, Endothelial cells, Communication, Embryogenesis, Extracellular vesicles
Abstract

Thyroid embryogenesis requires reorganization of a non-polarized cell mass into a multitude of polarized spherical monolayers called follicles. During cancer establishment, the well-organized tissue transforms back into a non-polarized cell mass. Both processes involve multiple intercellular communication steps. In this work, we study the role of extracellular vesicles (EVs) produced by cells that mediate the transition between the cell mass and the spherical monolayers during thyroid follicle formation. We demonstrate that EVs produced by endothelial progenitor cells (EPCs) are capable of stimulating thyroid follicle formation in an ex vivo thyroid explants culture system and that the folliculogenic activity of EPC-EVs is dependent on an adequate basal lamina production by the endothelial cells. However, the mechanism by which the basal lamina influences the folliculogenic potential of EVs still needs to be elucidated. Finally, we started to study the implication of EVs in papillary cancer (PTC) establishment in vivo, using an inducible human PTC mouse model. We demonstrate that PTCs produce EVs and that those EVs can be harvested from PTCs after gentle tissue dissociation. (BIFA - Sciences biomédicales et pharmaceutiques) -- UCL, 2018

Published
2018

21. Bioprinting of functional vascularized mouse thyroid gland construct.

Author

UCL - SSS/DDUV - Institut de Duve, UCL - SSS/DDUV/CELL - Biologie cellulaire, Bulanova, Elena A, Koudan, Elizaveta V, Degosserie, Jonathan, Heymans, Charlotte, Pereira, Frederico DAS, Parfenov, Vladislav A, Sun, Yi, Wang, Qi, Akhmedova, Suraya A, Sviridova, Irina K, Sergeeva, Natalia S, Frank, Georgy A, Khesuani, Yusef D, Pierreux, Christophe, Mironov, Vladimir A, UCL - SSS/DDUV - Institut de Duve, UCL - SSS/DDUV/CELL - Biologie cellulaire, Bulanova, Elena A, Koudan, Elizaveta V, Degosserie, Jonathan, Heymans, Charlotte, Pereira, Frederico DAS, Parfenov, Vladislav A, Sun, Yi, Wang, Qi, Akhmedova, Suraya A, Sviridova, Irina K, Sergeeva, Natalia S, Frank, Georgy A, Khesuani, Yusef D, Pierreux, Christophe, and Mironov, Vladimir A

Abstract

Bioprinting can be defined as additive biofabrication of 3D tissues and organ constructs using tissue spheroids, capable of self-assembly, as building blocks. Thyroid gland, a relatively simple endocrine organ, is suitable for testing the proposed bioprinting technology. Here we report the bioprinting of functional vascularized mouse thyroid gland construct from embryonic tissue spheroids as a proof of concept. Based on the self-assembly principle, we generated thyroid tissue starting from thyroid spheroids (TS) and allantoic spheroids (AS), as a source of thyrocytes and endothelial cells (EC), respectively. Inspired by mathematical modelling of spheroid fusion, we used an original 3D bioprinter to print TS in close association with AS within collagen hydrogel. During the culture, closely placed embryonic tissue spheroids fused into a single integral construct, endothelial cells from AS invaded and vascularized TS, and epithelial cells from the TS progressively formed follicles. In this experimental setting, we observed formation of capillary network around follicular cells, as observed during in utero thyroid development when thyroid epithelium controls the recruitment, invasion and expansion of EC around follicles. To prove that EC from AS are responsible for vascularization of thyroid gland construct, we depleted endogenous EC from thyroid spheroids before bioprinting. EC from allantoic spheroids completely revascularized depleted thyroid tissue. Cultured bioprinted construct was functional as it could normalize blood thyroxin levels and body temperature after grafting under the kidney capsule of hypothyroid mice. Bioprinting of functional vascularized mouse thyroid gland construct represents further advance in bioprinting technology exploring self-assembling properties of tissue spheroids.

Published
2017

22. Bioprinting of a functional vascularized mouse thyroid gland construct

Author

Bulanova, Elena A, primary, Koudan, Elizaveta V, additional, Degosserie, Jonathan, additional, Heymans, Charlotte, additional, Pereira, Frederico DAS, additional, Parfenov, Vladislav A, additional, Sun, Yi, additional, Wang, Qi, additional, Akhmedova, Suraya A, additional, Sviridova, Irina K, additional, Sergeeva, Natalia S, additional, Frank, Georgy A, additional, Khesuani, Yusef D, additional, Pierreux, Christophe E, additional, and Mironov, Vladimir A, additional

Published
2017
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23. Nationwide Harmonization Effort for Semi-Quantitative Reporting of SARS-CoV-2 PCR Test Results in Belgium

Author

Lize Cuypers, Jannes Bode, Kurt Beuselinck, Lies Laenen, Klaas Dewaele, Reile Janssen, Arnaud Capron, Yves Lafort, Henry Paridaens, Bertrand Bearzatto, Mathieu Cauchie, Aline Huwart, Jonathan Degosserie, Olivier Fagnart, Yarah Overmeire, Arlette Rouffiange, Ilse Vandecandelaere, Marine Deffontaine, Thomas Pilate, Nicolas Yin, Isabel Micalessi, Sandrine Roisin, Veronique Moons, Marijke Reynders, Sophia Steyaert, Coralie Henin, Elena Lazarova, Dagmar Obbels, François E. Dufrasne, Hendri Pirenne, Raf Schepers, Anaëlle Collin, Bruno Verhasselt, Laurent Gillet, Stijn Jonckheere, Philippe Van Lint, Bea Van den Poel, Yolien Van der Beken, Violeta Stojkovic, Maria-Grazia Garrino, Hannah Segers, Kevin Vos, Maaike Godefroid, Valerie Pede, Friedel Nollet, Vincent Claes, Inge Verschraegen, Pierre Bogaerts, Marjan Van Gysel, Judith Leurs, Veroniek Saegeman, Oriane Soetens, Merijn Vanhee, Gilberte Schiettekatte, Evelyne Huyghe, Steven Martens, Ann Lemmens, Heleen Nailis, Kim Laffineur, Deborah Steensels, Elke Vanlaere, Jérémie Gras, Gatien Roussel, Koenraad Gijbels, Michael Boudewijns, Catherine Sion, Wim Achtergael, Wim Maurissen, Luc Iliano, Marianne Chantrenne, Geert Vanheule, Reinoud Flies, Nicolas Hougardy, Mario Berth, Vanessa Verbeke, Robin Morent, Anne Vankeerberghen, Sébastien Bontems, Kaat Kehoe, Anneleen Schallier, Giang Ho, Kristof Bafort, Marijke Raymaekers, Yolande Pypen, Amelie Heinrichs, Wim Schuermans, Dominique Cuigniez, Salah Eddine Lali, Stefanie Drieghe, Dieter Ory, Marie Le Mercier, Kristel Van Laethem, Inge Thoelen, Sarah Vandamme, Iqbal Mansoor, Carl Vael, Maxime De Sloovere, Katrien Declerck, Elisabeth Dequeker, Stefanie Desmet, Piet Maes, Katrien Lagrou, Emmanuel André, Dufrasne, Francois/0000-0001-6288-7936, Yin, Nicolas/0000-0003-1706-6869, Van Laethem, Kristel/0000-0001-6036-2271, Micalessi, Isabel, Ory , Dieter, Dequeker, Elisabeth, CLAES , Vincent, Verhasselt, Bruno, Moons, Veronique, Soetens, Oriane, Godefroid, Maaike, Verschraegen, Inge, Pirenne, Hendri, Gillet, Laurent, Heinrichs, Amelie, Huwart, Aline, Vanhee, Merijn, Vandamme, Sarah, Maurissen, Wim, Laenen , Lies, Reynders , Marijke, Thoelen, Inge, Gras, Jeremie, Berth, Mario, Obbels, Dagmar, Vanheule, Geert, Maes, Piet, Bafort, Kristof, Flies, Reinoud, Janssen, Reile, van den Poel, Bea, Bontems, Sebastien, Schepers , Raf, Overmeire, Yarah, Boudewijns, Michael, van der Beken, Yolien, Cuypers , Lize, Bode, Jannes, Vos, Kevin, Paridaens, Henry, Achtergael, Wim, Saegeman, Veroniek, Rouffiange, Arlette, Dewaele, Klaas, Pypen, Yolande, Yin, Nicolas, Drieghe, Stefanie, Nailis, Heleen, Kehoe, Kaat, DE SMET, Stefanie, Verbeke, Vanessa, Vanlaere, Elke, Vael, Carl, Van Laethem, Kristel, Segers, Hannah, Pede, Valerie, Deffontaine, Marine, Martens , Steven, Lemmens, Ann, Vankeerberghen, Anne, Lagrou, Katrien, Iliano, Luc, Chantrenne, Marianne, Laffineur, Kim, Bearzatto, Bertrand, Vandecandelaere, Ilse, Sion, Catherine, Andre, Emmanuel, Cuigniez, Dominique, Pilate, Thomas, Capron, Arnaud, Nollet, Friedel, Roisin, Sandrine, Gijbels, Koenraad, Van Lint, Philippe, Bogaerts, Pierre, Lafort, Yves, Henin, Coralie, Van Gysel, Marjan, Huyghe, Evelyne, Lali, Salah Eddine, Roussel, Gatien, Garrino, Maria-Grazia, Schuermans, Wim, Steyaert, Sophia, Le Mercier, Marie, De Sloovere, Maxime, Leurs, Judith, STEENSELS, Deborah, Declerck, Katrien, Dufrasne, Francois E., Fagnart, Olivier, Ho, Giang, Lazarova, Elena, Schallier, Anneleen, Beuselinck, Kurt, Morent, Robin, Hougardy, Nicolas, Raymaekers, Marijke, Jonckheere, Stijn, Stojkovic, Violeta, Degosserie, Jonathan, Cauchie, Mathieu, Schiettekatte, Gilberte, Collin, Anaelle, Mansoor, Iqbal, Faculty of Economic and Social Sciences and Solvay Business School, Faculty of Medicine and Pharmacy, Supporting clinical sciences, Microbiology and Infection Control, Clinical Biology, Experimental Pharmacology, Department of Clinical Microbiology, Faculty of Psychology and Educational Sciences, UCL - (MGD) Laboratoire de biologie clinique, and UCL - SSS/IREC/MONT - Pôle Mont Godinne

Subjects
SARS-CoV-2, PCR, semi-quantitative reporting, RNA copies/mL, infectivity, COVID-19/diagnosis, COVID-19, Real-Time Polymerase Chain Reaction, mL, Infectious Diseases, Belgium, SARS-CoV-2/genetics, Virology, Humans, RNA copies, Human medicine, Belgium/epidemiology, Pandemics
Abstract

From early 2020, a high demand for SARS-CoV-2 tests was driven by several testing indications, including asymptomatic cases, resulting in the massive roll-out of PCR assays to combat the pandemic. Considering the dynamic of viral shedding during the course of infection, the demand to report cycle threshold (Ct) values rapidly emerged. As Ct values can be affected by a number of factors, we considered that harmonization of semi-quantitative PCR results across laboratories would avoid potential divergent interpretations, particularly in the absence of clinical or serological information. A proposal to harmonize reporting of test results was drafted by the National Reference Centre (NRC) UZ/KU Leuven, distinguishing four categories of positivity based on RNA copies/mL. Pre-quantified control material was shipped to 124 laboratories with instructions to setup a standard curve to define thresholds per assay. For each assay, the mean Ct value and corresponding standard deviation was calculated per target gene, for the three concentrations (10(7), 10(5) and 10(3) copies/mL) that determine the classification. The results of 17 assays are summarized. This harmonization effort allowed to ensure that all Belgian laboratories would report positive PCR results in the same semi-quantitative manner to clinicians and to the national database which feeds contact tracing interventions. UZ/KU Leuven: as National Reference Center for Respiratory Pathogens, is supported by Sciensano, which is gratefully acknowledged. We would like to acknowledge additional staff members of the participating laboratories that contributed to this study: Jean-Luc Gala, Benoit Kabamba, Elsa Wiam, Valentin Coste, Paul Blanpain, Jean Ruelle, Ari Serbetciyan, Nicolas Pinte, Ophélie Simon and the entire UCLouvain federal testing platform COVID-19 team (all affiliation 4), Aurore Demars (affiliation 7), Laura Vanden Daele (affiliation 9), Hanne Valgaeren (affiliation 22), Guillaume Bayon-Vicente (affiliation 23), Fabrice Bureau, Claire Gourzonès and Joey Schyns (affiliation 28), Stéphanie Evrard (affiliation 42), Clara Ceyssens (affiliation 58), Jorn Hellemans (affiliation 77), Bram Slechten (affiliation 86) and the entire team of the laboratory of microbiology of UZA (affiliation 89) and of the UZA Federal testing platform COVID-19 (affiliation 85) for their boundless dedication.

Published
2022

24. Revisiting the Environmental Impact of Inappropriate Clinical Laboratory Testing: A Comprehensive Overview of Sustainability, Economic, and Quality of Care Outcomes.

Author

Devis L, Closset M, Degosserie J, Lessire S, Modrie P, Gruson D, Favaloro EJ, Lippi G, Mullier F, and Catry E

Abstract

Background: The use of laboratory resources has seen a substantial increase in recent years, driven by automation and emerging technologies. However, inappropriate use of laboratory testing, encompassing both overuse and underuse, poses significant challenges., Content: This review explores the complex interplay between patient safety, economic, and environmental factors-known as the "triple bottom line" or "3Ps" for people, profit, and planet-associated with inappropriate use of laboratory resources. The first part of the review outlines the impact of inappropriate laboratory testing on patient safety and economic outcomes. Then the review examines the available literature on the environmental impact of laboratory activities. Several practical solutions for mitigating the environmental impact of laboratories are discussed. Finally, this review emphasizes how decreasing unnecessary laboratory testing results in cost savings and environmental benefits, as evidenced by interventional studies, without compromising patient safety., Summary: The implementation of sustainable practices in laboratories can create a virtuous circle in which reduced testing enhances cost-efficiency, reduces the environmental footprint, and ensures patient safety, thereby benefiting the 3Ps. This review highlights the critical need for appropriate laboratory resource utilization in achieving sustainability in healthcare., (© Association for Diagnostics & Laboratory Medicine 2024. All rights reserved. For commercial re-use, please contact reprints@oup.com for reprints and translation rights for reprints. All other permissions can be obtained through our RightsLink service via the Permissions link on the article page on our site—for further information please contact journals.permissions@oup.com.)

Published
2024
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