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1. Clostridioides difficile infection (CDI): A pan-European multi-center cost and resource utilization study, results from the Combatting Bacterial Resistance in Europe CDI (COMBACTE-CDI)

Author

Academic Partners, Bonten, Marc, Davies, Kerrie A., Wilcox, Mark H., Kuijper, Ed, Rupnik, Maja, Wingen-Heimann, Sebastian, Tacconelli, Evelina, Vilken, Tuba, Petrosillo, Nicola, EFPIA Partners, Pfizer Ltd, GlaxoSmithKline, bioMérieux, Pasteur, Sanofi, Da Volterra, The Management Board of COMBACTE-CDI, Cleuziat, Philippe, Webber, Chris, Wingen-Heimann, Sebastian M., Davies, Kerrie, Viprey, Virginie F., Davis, Georgina, Vehreschild, Maria J.G.T., Lurienne, Lise, Bandinelli, Pierre-Alain, Cornely, Oliver A., Hopff, Sina M., and Vehreschild, Jörg Janne

Published
2023
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2. European survey on the current surveillance practices, management guidelines, treatment pathways, and heterogeneity of testing of Clostridioides difficile, 2018-2019: results from The Combatting Bacterial Resistance in Europe CDI (COMBACTE-CDI)

Author

Viprey, Virginie F, Granata, Guido, Vendrik, Karuna Ew, Davis, Georgina L, Petrosillo, Nicola, Kuijper, Ed J, Vilken, Tuba, Lammens, Christine, Schotsman, Joost J, Benson, Anthony D, Cataldo, Maria Adriana, van der Kooi, Tjallie, Wilcox, Mark H, Davies, Kerrie A, Bonten, Marc, Kuijper, Ed, Rupnik, Maja, Wingen-Heimann, Sebastian, Tacconelli, Evelina, Cleuziat, Philippe, Webber, Chris, and Wilcox, Mark

Subjects
treatment, Clostridioides difficile, diagnosis, Clostridium difficile, guidelines awareness
Published
2022

3. A point-prevalence study on community and inpatient Clostridioides difficile infections (CDI): results from Combatting Bacterial Resistance in Europe CDI (COMBACTE-CDI), July to November 2018

Author

Viprey, Virginie F., Davis, Georgina L., Benson, Anthony D., Ewin, Duncan, Spittal, William, Vernon, Jon J., Rupnik, Maja, Banz, Alice, Allantaz, Florence, Cleuziat, Philippe, Novakova, Elena, Matussek, Andreas Albert, Fitzpatrick, Fidelma, Simon, Anne, Macovei, Ioana, Barbut, Frederic, Ramirez, Elena Reigadas, Petinaki, Efi, Kuijper, Ed J., Petrosillo, Nicola, Pituch, Hanna, Wilcox, Mark H., and Davies, Kerrie A.

Subjects
Epidemiology, Virology, Public Health, Environmental and Occupational Health
Abstract

Background There is a paucity of data on community-based Clostridioides difficile infection (CDI) and how these compare with inpatient CDI. Aim To compare data on the populations with CDI in hospitals vs the community across 12 European countries. Methods For this point-prevalence study (July–November 2018), testing sites sent residual diagnostic material on sampling days to a coordinating laboratory for CDI testing and PCR ribotyping (n = 3,163). Information on whether CDI testing was requested at the original site was used to identify undiagnosed CDI. We used medical records to identify differences between healthcare settings in patient demographics and risk factors for detection of C. difficile with or without free toxin. Results The CDI positivity rate was 4.4% (country range: 0–16.2) in hospital samples, and 1.3% (country range: 0–2.2%) in community samples. The highest prevalence of toxinotype IIIb (027, 181 and 176) was seen in eastern European countries (56%; 43/77), the region with the lowest testing rate (58%; 164/281). Different predisposing risk factors were observed (use of broad-spectrum penicillins in the community (OR: 8.09 (1.9–35.6), p = 0.01); fluoroquinolones/cephalosporins in hospitals (OR: 2.2 (1.2–4.3), p = 0.01; OR: 2.0 (1.1–3.7), p = 0.02)). Half of community CDI cases were undetected because of absence of clinical suspicion, accounting for three times more undiagnosed adults in the community compared with hospitals (ca 111,000 vs 37,000 cases/year in Europe). Conclusion These findings support recommendations for improving diagnosis in patients presenting with diarrhoea in the community, to guide good practice to limit the spread of CDI.

Published
2022
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4. Haem is crucial for medium-dependent metronidazole resistance in clinical isolates of Clostridioides difficile

Author

Boekhoud, Ilse M, Sidorov, Igor, Nooij, Sam, Harmanus, Céline, Bos-Sanders, Ingrid M J G, Viprey, Virginie, Spittal, William, Clark, Emma, Davies, Kerrie, Freeman, Jane, Kuijper, Ed J, Smits, Wiep Klaas, Bonten, Marc, Davies, Kerrie A, Rupnik, Maja, Wingen-Heiman, Sebastian, Tacconelli, Evelina, Wilken, Tuba, Petrosillo, Nicolla, Cleuziat, Philippe, Webber, Chris, and Wilcox, Mark

Subjects
Microbiology (medical), food.ingredient, Antimicrobial susceptibility, Heme, Microbial Sensitivity Tests, Biology, Ribotyping, law.invention, Microbiology, 03 medical and health sciences, Plasmid, food, Clostridioides, law, Metronidazole, medicine, Agar, AcademicSubjects/MED00740, Humans, Pharmacology (medical), Polymerase chain reaction, 030304 developmental biology, Metronidazole resistance, Original Research, Pharmacology, 0303 health sciences, 030306 microbiology, Clostridioides difficile, 3. Good health, Anti-Bacterial Agents, Infectious Diseases, AcademicSubjects/MED00290, Clostridium Infections, Multilocus sequence typing, AcademicSubjects/MED00230, medicine.drug, Multilocus Sequence Typing
Abstract

Background Until recently, metronidazole was the first-line treatment for Clostridioides difficile infection and it is still commonly used. Though resistance has been reported due to the plasmid pCD-METRO, this does not explain all cases. Objectives To identify factors that contribute to plasmid-independent metronidazole resistance of C. difficile. Methods Here, we investigate resistance to metronidazole in a collection of clinical isolates of C. difficile using a combination of antimicrobial susceptibility testing on different solid agar media and WGS of selected isolates. Results We find that nearly all isolates demonstrate a haem-dependent increase in the MIC of metronidazole, which in some cases leads to isolates qualifying as resistant (MIC >2 mg/L). Moreover, we find an SNP in the haem-responsive gene hsmA, which defines a metronidazole-resistant lineage of PCR ribotype 010/MLST ST15 isolates that also includes pCD-METRO-containing strains. Conclusions Our data demonstrate that haem is crucial for medium-dependent metronidazole resistance in C. difficile.

Published
2021

6. Key Differences in Diagnosis and Patient Populations between Community and In-Patient Clostridioides Difficile Infections (CDI): Results from Combatting Bacterial Resistance in Europe CDI (COMBACTE-CDI)

Author

Viprey, Virginie F., primary, Davis, Georgina L., additional, Benson, Anthony D., additional, Ewin, Duncan, additional, Spittal, William, additional, Vernon, Jon, additional, Rupnik, Maja, additional, Banz, Alice, additional, Allantaz, Florence, additional, Cleuziat, Philippe, additional, Coordinators, COMBACTE- CDI National, additional, Wilcox, Mark H., additional, Davies, Kerrie, additional, and Group, COMBACTE-CDI Consortium, additional

Published
2021
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8. Contributors

Author

Adachi, Hideki, primary, Adachi, Osao, additional, Adam, Zach, additional, Adams, Michael W.W., additional, Adang, Michael J., additional, Adham, Ibrahim M., additional, Aducci, Patrizia, additional, Agard, David A., additional, Agranovsky, Alexey A., additional, Ahn, Kyunghye, additional, Akiyama, Yoshinori, additional, Alejo, Alí, additional, Amberg, Sean M., additional, Amerik, Alexander Y., additional, Andrés, Germán, additional, Andrews, Robert K., additional, Antalis, Toni M., additional, Apte, Suneel S., additional, Arima, Kazunari, additional, Arlaud, Gérard J., additional, Aronson, Nathan N., additional, Asano, Yasuhisa, additional, Ascenzi, Paolo, additional, Assakura, Marina T., additional, Auld, David S., additional, Avilés, Francesc X., additional, Awad, William M., additional, Babé, Lilia M., additional, Badorff, Cornel, additional, Bai, Shan, additional, Baird, Teaster T., additional, Paul Bajaj, S., additional, Baker, Rohan T., additional, Baker, Susan C., additional, Ballinger, Marcus D., additional, Banbula, Agnieszka, additional, Bannikov, Gregory A., additional, Barrett, Alan J., additional, Bartlett, John D., additional, Baskova, Isolda P., additional, Bauer, Karl, additional, Baumann, Ulrich, additional, Baumeister, Wolfgang, additional, Beauvais, Anne, additional, Belas, Robert, additional, Beppu, Teruhiko, additional, Bergmann, Ernst M., additional, Bergo, Martin O., additional, Berndt, Michael C., additional, Berry, Colin, additional, Bertenshaw, Greg P., additional, Betzel, Ch., additional, Bierbaum, Gabriele, additional, Bieth, Joseph G., additional, Bjarnason, Jón B., additional, Blaber, M., additional, Blaber, S.I., additional, Black, Roy A., additional, Blackman, M.J., additional, Blinkovsky, Alexander, additional, Blobel, Carl P., additional, Boatright, Kelly M., additional, Böck, August, additional, Boeke, Jef D., additional, Boileau, Guy, additional, Bolken, Tové C., additional, Bond, Judith S., additional, Bordallo, Javier, additional, Bordusa, Frank, additional, Boucaut, Kerry J., additional, Bouvier, Jacques, additional, Bowman, Barry J., additional, Bradshaw, Ralph A., additional, Braun, Hans-Peter, additional, Breddam, Klaus, additional, Brindley, Paul J., additional, Broadhurst, Anne, additional, Brocklehurst, Keith, additional, Broder, Dan H., additional, Brömme, Dieter, additional, Bron, Sierd, additional, Broom, Murray, additional, Brown, Kenneth D., additional, Brown, Mark A., additional, Bunn, Rhonda, additional, Burleigh, Barbara A., additional, Butler, Michael J., additional, Buttle, David J., additional, Byrd, Chelsea M., additional, Byun, Tony, additional, Cadel, Sandrine, additional, Caffrey, Conor R., additional, Caldentey, Javier, additional, Caprioglio, Daniel R., additional, Carbonell, Juan, additional, Carpentier, Mélanie, additional, Carter, Ruth E., additional, Casey, Patrick J., additional, Castellino, Francis J., additional, Catanese, Joseph J., additional, Caterson, Bruce, additional, Caughey, George H., additional, Cawley, Niamh X., additional, Cawston, Tim E., additional, Jose Cazzulo, Juan, additional, Cercós, Manuel, additional, Chakraborty, Trinad, additional, Chambers, Henry F., additional, Chang, L.S., additional, Chan, Michael K., additional, Chan, Sunney I., additional, Chao, Julie, additional, Chapot-Chartier, Marie-Pierre, additional, Chave, Karen J., additional, Chen, Jian-Min, additional, Chen, Jinq-May, additional, Chesneau, Valérie, additional, Chevrier, Bernard, additional, Chich, Jean-François, additional, Yong Choi, Kwan, additional, Chrétien, Michel, additional, Ha Chung, Chin, additional, Chung, Dominic W., additional, Clamagirand, Christine, additional, Clark, Ian M., additional, Clarke, Adrian K., additional, Clarke, Steven, additional, Cleary, Paul P., additional, Clements, Judith A., additional, Cleuziat, Philippe, additional, Cohen, Paul, additional, Colige, Alain, additional, Collen, D., additional, Collier, Ivan E., additional, Colloms, Sean D., additional, Colman, Robert W., additional, Conner, Gregory E., additional, Conzelmann, Andreas, additional, Coolbear, Tim, additional, Coombs, Graham H., additional, Cooper, Jonathan B., additional, Cooper, Max D., additional, Copeland, Nikki A., additional, Corvol, Pierre, additional, Cottrell, Graeme S., additional, Coyle, Joseph T., additional, Craik, Charles S., additional, Creemers, John W.M., additional, Croce, Jenifer, additional, Cueva, Rosario, additional, Cutting, Simon, additional, d′Enfert, Christophe, additional, D′Orchymont, Hugues, additional, Daenke, S., additional, Dahlbäck, Björn, additional, Dalbey, Ross E., additional, Dalton, John P., additional, Dando (Deceased), Pamela M., additional, Daniel, R.M., additional, Darke, Paul L., additional, Lagerblad de Oliveira, Pedro, additional, de Vos, Sarah, additional, Deghmane, Ala-Eddine, additional, Dekker, Niek, additional, DeLotto, Robert, additional, DeMartino, George N., additional, den Boon, Johan A., additional, Denison, Mark R., additional, DesGroseillers, Luc, additional, Deussing, Jan, additional, Devi, Lakshmi A., additional, Diamandis, Eleftherios P., additional, Dickson, Robert B., additional, Dingwall, Colin, additional, Dixon, Jack E., additional, Dodt, Johannes, additional, Dolenc, Iztoc, additional, Cat Dong, Tran, additional, Dong, Ying, additional, Dubois, Jean-Yves F., additional, Dudley, Edward G., additional, Dunn, Ben M., additional, Dupuy, Bruno, additional, Conceicão Duque-Magalhães, Maria, additional, Eeckhout, Yves, additional, Egelrud, Torbjörn, additional, Eijsink, Vincent, additional, Ellis, Vincent, additional, Engel, Wolfgang, additional, Erdös, Ervin G., additional, Etscheid, Michael, additional, Evans (Deceased), Herbert J., additional, Everett, Roger D., additional, Eyries, Mélanie, additional, Fahrenholz, Falk, additional, Fenster, Kurt M., additional, Férec, Claude, additional, Henrique Ferreira Sorgine, Marcos, additional, Fink, Doran, additional, Fives-Taylor, Paula M., additional, Foltmann, Bent, additional, Foster, Simon J., additional, Foulon, Thierry, additional, Foundling, Stephen I., additional, Fox, Jay W., additional, Freeze, Hudson H., additional, Frère, Jean-Marie, additional, Frey, Teryl K., additional, Flicker, Lloyd D., additional, Fritsche, Erich, additional, Froelich, Christopher J., additional, Fuhrmann, Cynthia N., additional, Fujimura, Satoshi, additional, Fukushima, J., additional, Fuller, Robert S., additional, Gaboriaud, Christine, additional, Gache, Christian, additional, Galivan, John, additional, Gary, Jonathan D., additional, Gaucher, G.M., additional, Ghuysen, Jean-Marie, additional, Gil, María J., additional, Giller, Thomas, additional, Goffin, Colette, additional, Gohda, Eiichi, additional, Goldberg, Alfred L., additional, Goldberg, Daniel E., additional, Goldberg, Gregory I., additional, Gorbalenya, Alexander E., additional, Gordon, Stuart G., additional, Götz, Friedrich, additional, Gráf, László, additional, Granados, Robert R., additional, Granell, Antonio, additional, Graycar, Thomas P., additional, Green, Jonathan, additional, Greenspan, Daniel S., additional, Grubman, Marvin J., additional, Grunden, Amy M., additional, Guillemain, Bernard, additional, Guinand, Micheline, additional, Gutiérrez, José Maria, additional, Haeggström, Jesper Z., additional, Hageman, James H., additional, Hagmann, Marie-Luise, additional, Halfon, Sherin, additional, Hamilton, Andrew J., additional, Seon Han, Ji, additional, Hara-Nishimura, Ikuko, additional, Harada, Minoru, additional, Hartzell, William O., additional, Hay, Rod J., additional, Hayashi, Kiyoshi, additional, Hendriks, Dirk F., additional, Henrich, Bernhard, additional, Henriet, Patrick, additional, Hernández-Arana, Andrés, additional, Herrera-Camacho, Irma, additional, Heusipp, Gerhard, additional, Hicks, P.M., additional, Hillman, Bradley I., additional, Yukihiro Hiraoka, B., additional, Hiratake, Jun, additional, Ho, Heng-Chien, additional, Thi Hoa, Ngo, additional, Hochstrasser, Mark, additional, Hofmann, Theo, additional, Hohn, Thomas, additional, Hoidal, John R., additional, Holbrook, Joanna D., additional, Höltje, Joachim-Volker, additional, Homma, Koichi J., additional, Hook, Vivian Y.H., additional, Hooper, John D., additional, Hooper, Nigel M., additional, Hosoi, Kazuo, additional, Hospital, Véronique, additional, Howe, Christopher J., additional, Hruby, Dennis E., additional, Huang, H.-C., additional, Huber, Robert, additional, Hughes, Clare E., additional, Ibrahim-Granet, Oumaïma, additional, Ichishima, Eiji, additional, Ikehara, Yukio, additional, Imamura, Takahisa, additional, Inagaki, Noritoshi, additional, Inagami, Tadashi, additional, Isaac, R.E., additional, Isaya, Grazia, additional, Ishihara, Kohji, additional, Ishii, Shin-ichi, additional, Itoh, Yoshifumi, additional, Ito, Kiyoshi, additional, Ito, Koreaki, additional, Iwanaga, Sadaaki, additional, Jack, Ralph W., additional, Jackson, Mel C., additional, James, Michael N.G., additional, Jeffrey (Deceased), John, additional, Jiang, Ping, additional, Johnson, Gary D., additional, Johnson, John E., additional, Johnson, Michael, additional, Albert Johnston, Stephen, additional, Jones, Elizabeth W., additional, Jongbloed, Jan D.H., additional, Joshua-Tor, Leemor, additional, Joudiou, Carine, additional, Juliano, Luiz, additional, Jupp, Ray, additional, Kaminogawa, Shuichi, additional, Kamio, Yoshiyuki, additional, Kan, Chen-Chen, additional, Kaneda, Makoto, additional, Gyun Kang, Sung, additional, Kania, Mary, additional, Kanjanahaluethai, Amornrat, additional, Kawabata, Shun-ichiro, additional, Kay, John, additional, Keiler, Kenneth C., additional, Kelly, R.M., additional, Kerr, Michael A, additional, Kervinen, Jukka, additional, Kessler, Efrat, additional, Kidd, Simon, additional, Kilian, Mogens, additional, Kim, Do-Hyung, additional, Seop Kim, In, additional, Kimura, Yukio, additional, Kirisako, Takayoshi, additional, Kirschke, Heidrun, additional, Kishi, Tadaaki, additional, Kitamura, Naomi, additional, Kitazono, Ana A., additional, Kleanthous, Colin, additional, Klein, Jürgen R., additional, Kobayashi, Hideyuki, additional, Koelsch, Gerald, additional, Kok, Jan, additional, Kolattukudy, P.E., additional, Kolmar, Harald, additional, Komori, Yumiko, additional, Konvalinka, Jan, additional, Korhonen, Timo K., additional, Kortt, Alexander A., additional, Kräusslich, Hans-Georg, additional, Kress, Lawrence F., additional, Kubo, Takeaki, additional, Kukkonen, Maini, additional, Kumagai, Hidehiko, additional, Kumazaki, Takashi, additional, Kümmerer, Beate M., additional, Kuno, Kouji, additional, Kurachi, Kotoku, additional, Kurkinen, Markku, additional, Lähteenmäki, Kaarina, additional, Laing, Gavin D., additional, Lambkin, Imelda J., additional, Lamppa, Gayle K., additional, Lång, Hannu, additional, Langer, Thomas, additional, Laursen, Richard A., additional, Le Bonniec, Bernard F., additional, Luel Lee, Bok, additional, Joon Lee, Kye, additional, Young Lee, So, additional, Lee, Soohee, additional, Leis, Jonathan, additional, LeMosy, Ellen K., additional, Lepage, Thierry, additional, Leppla, Stephen H., additional, Lessard, Ivan A.D., additional, Lhomond, Guy, additional, Liao, Ta-Hsiu, additional, Lieber, Toby, additional, Lijnen, H.R., additional, Lima, Christopher D., additional, Lin, Chen-Yong, additional, Lin, Xinli, additional, Lindsay, L.L., additional, Lipscomb, William N., additional, Little, Christopher B., additional, Little, John W., additional, Lively, Mark O., additional, Lobel, Peter, additional, Peng Loh, Y., additional, Lohi, Jouko, additional, Lomonossoff, G.P., additional, Looze, Yvan, additional, López-García, Alma, additional, López-Otín, Carlos, additional, Luo, Liu-Ying, additional, Lupas, Andrei, additional, MacKay, Vivian L., additional, Mains, Richard E., additional, Mäkinen, Kauko K., additional, Mäkinen, Pirkko-Liisa, additional, Mandelbaum, Fajga R., additional, Manning, James M., additional, Marcotrigiano, Joseph, additional, Markland, Francis S., additional, Maruyama, M., additional, Maruyama, Sususmu, additional, Masaki, Takeharu, additional, Mathew, Zacharia, additional, Matrisian, Lynn M., additional, Matsuda, Yoshihiro, additional, Matsuka, Yury V., additional, Matsushita, Osamu, additional, Matsuzawa, Hiroshi, additional, Maurizi, Michael R., additional, Mbikay, Majambu, additional, Ken McDonald, J., additional, McKerrow, James H., additional, McMillan, David, additional, Mecham, Robert P., additional, Mehta, Darshini P., additional, Meighan, Paul, additional, Mellors, Alan, additional, Melton, Roger G., additional, Ménard, Armelle, additional, Ménard, Robert, additional, Menéndez-Arias, Luis, additional, Meyer, Diane H., additional, Meyers, Gregor, additional, Michaelis, Susan, additional, Mielicki, Wojciech P., additional, Mierau, Igor, additional, Millán-Pérez-Peña, Lourdes, additional, Miller, Charles G., additional, Mills, John, additional, Mills, Kenneth V., additional, Mistou, Michel-Yves, additional, Misumi, Yoshio, additional, Miyoshi, Shin-ichi, additional, Mizutani, Shigehiko, additional, Mock, William L., additional, Möhrlen, Frank, additional, Moiré, Nathalie, additional, Monnet, Véronique, additional, Monod, Michel, additional, Montecucco, Cesare, additional, Morita, Takashi, additional, Morrissey, James H., additional, Mort, John S., additional, Mortensen, Uffe H., additional, Morty, Rory E., additional, Motoshima, Hidemasa, additional, Mottram, Jeremy C., additional, Mundt, Egbert, additional, Murakami, Kazuo, additional, Murakami-Murofushi, Kimiko, additional, Murao, Sawao, additional, Murata, Christina, additional, Murphy, Gillian, additional, Muta, Tatsushi, additional, Mzhavia, Nino, additional, Nagase, Hideaki, additional, Naik, Rajesh R., additional, Nakajima, Nobuyoshi, additional, Nakamura, Hiroyuki, additional, Nakamura, Yukio, additional, Nasmyth, Kim, additional, Navarro-García, Fernando, additional, Netzel-Arnett, Sarah, additional, Nguyen-Distéche, Martine, additional, Nicholson, Donald, additional, Nikai, Toshiaki, additional, Nirasawa, Satoru, additional, Nishii, Wataru, additional, Nishiyama, Makoto, additional, Niven, Gordon W., additional, Nomura, Seiji, additional, Norioka, Shigemi, additional, North, Michael J., additional, Nuss, Donald L., additional, O′Connor, Michael B., additional, Oberst, Michael, additional, Oda, Kohei, additional, Odorico, Dimitri M., additional, Oetjen, Joyce, additional, Ogura, Teru, additional, Ohkubo, Iwao, additional, Ohlendorf, Douglas H., additional, Ohman, Dennis E., additional, Ohsumi, Yoshinori, additional, Okabe, Akinobu, additional, Okuda, K., additional, Olesen, Kjeld, additional, Oroszlan, Stephen, additional, Orth, Kim, additional, Ota, Nobuyuki, additional, Ovadia, Michael, additional, Overgaard, Michael T., additional, O-Wang, Jiyang, additional, Oxvig, Claus, additional, Packer, Jeremy C.L., additional, Paetzel, Mark, additional, Paine, Mark J.I., additional, Park, John E., additional, Woo Park, Pyong, additional, Soo Park, Sung, additional, Parkin, Kirk L., additional, Parks, William C., additional, Pascall, John C., additional, Paschos, Athanasios, additional, Paul, Sudhir, additional, Pearce, David A., additional, Pei, Duanqing, additional, Pemberton, Alan D., additional, Peters, Jan-Michael, additional, Phylip, Lowri H., additional, Pichová, Iva, additional, Pieper, Michael, additional, Piesse, Christophe, additional, Pike, Rob, additional, Pinck, Lothaire, additional, Pirzad, Ramin, additional, Pitot, Henry C., additional, Plaut, Andrew G., additional, Polgár, László, additional, Postina, Rolf, additional, Potempa, Jan, additional, Poulsen, Knud, additional, Pritchard, David G., additional, Pshezhetsky, Alexey V., additional, Abul Qasim, M., additional, Rader, Stephen D., additional, Rando, Robert R., additional, Rao, Mala, additional, Rao, Narayanam V., additional, Ratnoff, Oscar D., additional, Rawlings, Neil D., additional, Rawson, Robert B., additional, Reddy, Vijay, additional, Redman, Colvin M., additional, Reichl (Deceased), Antonia P., additional, Reid, Julian R., additional, Reid, Kenneth B.M., additional, Remaut, Han, additional, James Remington, S., additional, Rettig, Wolfgang J., additional, Rholam, Mohamed, additional, Rice, Charles M., additional, Richter, Stefan, additional, Riezman, Howard, additional, Ritchie, Alison, additional, Ro, Hyo-Sung, additional, Robert-Baudouy, Janine, additional, Michael Roberts, R., additional, Robinson, Michael, additional, Rodríguez-Romero, Adela, additional, Rogers, John C., additional, Rosenthal, Philip J., additional, Rose, A.M., additional, Rosing, J., additional, Rossetto, Ornella, additional, Rossi, Cesare, additional, Rossi, Véronique, additional, Roth, Richard A., additional, Rowan, Andrew D., additional, Rozanov, Mikhail, additional, Rucavado, Alexandra, additional, Rul, Françoise, additional, Rümenapf, Tillmann, additional, Ryan, Martin D., additional, Ryan, Thomas J., additional, Sacco, Elena, additional, Evan Sadler, J., additional, Saenger, W., additional, Sahl, Hans-Georg, additional, Sajid, Mohammed, additional, Sakiyama, Fumio, additional, Salas, María L., additional, Salter, Jason P., additional, Salvesen, Guy S., additional, Sanchez, Eladio F., additional, Sang, Qing-Xiang Amy, additional, Sankaran, Krishnan, additional, Sarras, Michael P., additional, Sasagawa, Yoshikiyo, additional, Satoh, Kimiyuki, additional, Sauer, Robert T., additional, Sawada, Hitoshi, additional, Scarisbrick, I.A., additional, Schauer-Vukasinovic, Vesna, additional, Schlievert, Patrick M., additional, Schlösser, Manfred, additional, Schmidt, Amy E., additional, Schmidt, Brian F., additional, Schmidt, Walter K., additional, Schmitz, Udo K., additional, Schneemann, Anette, additional, Scholze, Henning, additional, Schomburg, Lutz, additional, Schwaeble, Wilhelm J., additional, Sedlacek, Radislav, additional, Seemüller, Erika, additional, Seidah, Nabil G., additional, Seiki, Motoharu, additional, Selistre de Araujo, Heloisa S., additional, Senior, Robert M., additional, Sik Seong, Ihn, additional, Serpe, Mihaela, additional, Serrano, Solange M.T., additional, Setlow, Peter, additional, Shanks, M., additional, Shao, Feng, additional, Shapiro, Steven D., additional, Shen, Lei, additional, Sherwood (Deceased), Roger F., additional, Shi, Yun-Bo, additional, Shimoi, Hitoshi, additional, Shinoda, Sumio, additional, Siigur, Ene, additional, Siigur, Jüri, additional, Sim, Robert B., additional, Simmer, James P., additional, Simmons, William H., additional, Sirakova, Tatiana D., additional, Skern, Tim, additional, Skidgel, Randal A., additional, Slack, Jeffrey, additional, Sleat, David E., additional, Smith, Janet L., additional, Smyth, Mark J., additional, Snijder, Eric J., additional, Söderhäll, Kenneth, additional, Sohar, Istvan, additional, Sorimachi, Hiroyuki, additional, Sottrup-Jensen, Lars, additional, Soubrier, Florent, additional, Soukhodolets, Karen E., additional, Springman, Eric B., additional, Geme, Joseph W. St., additional, Leger, Raymond J. St., additional, Steele, James L., additional, Steinkühler, Christian, additional, Stenberg, Leisa M., additional, Stenflo, Johan, additional, Stennicke, Henning R., additional, Stepanov (Deceased), Valentin M., additional, Steven, Frank, additional, Stevenson, Kenneth J., additional, Stewart, David J., additional, Storer, Andrew C., additional, Stover, Cordula, additional, Sträter, Norbert, additional, Strauss, Ellen G., additional, Strauss, James H., additional, Stöcker, Walter, additional, Stříšovský, Kvido, additional, Suárez-Rendueles, Paz, additional, Sugimoto, Manabu, additional, Sulea, Traian, additional, Suzuki, Fumiaki, additional, Suzuki, Hideyuki, additional, Swenson, Stephen, additional, Szecsi, Pal B., additional, Szilágyi, László, additional, Taha, Muhamed-Kheir, additional, Takahashi, Kenji, additional, Takio, Koji, additional, Tamura, Tomohiro, additional, Tan, Fulong, additional, Hong Tan, Nget, additional, Tanase, Carmen, additional, Tang, Jordan, additional, Tanizaki, Martha M., additional, Tannich, Egbert, additional, Tans, G., additional, Tarentino (Deceased), Anthony L., additional, Tatnell, Peter J., additional, Tatsumi, Hiroki, additional, Tautz, Norbert, additional, Templin, Markus F., additional, Terada, Shigeyuki, additional, Thacker, C., additional, Theodoratou, Ekaterini, additional, Thiel, Heinz-Jürgen, additional, Thielens, Nicole M., additional, Thierry, Gonzales, additional, Thomas, Mark D., additional, Thornberry, Nancy A., additional, Thorsness, Mary K., additional, Thorsness, Peter E., additional, Tigue, Natalie J., additional, Tjalsma, Harold, additional, Tomkinson, Birgitta, additional, Tonello, Fiorella, additional, Toogood, H.S., additional, Toombs, Christopher, additional, Tortora, Paolo, additional, Tözsér, József, additional, Travis, James, additional, Tschesche, Harald, additional, Tsujimoto, Masafumi, additional, Tsunasawa, Susumu, additional, Tsu, Christopher A., additional, Tu, Anthony T., additional, Turk, Boris, additional, Turk, Dusan, additional, Turk, Vito, additional, Turner, Anthony J., additional, Uchikoba, Tetsuya, additional, Uitto, Veli-Jukka, additional, Ullmann, Dirk, additional, Valdenaire, Olivier, additional, Van Beeumen, Jozef, additional, Van de Ven, Wim J.M., additional, van den Burg, Bertus, additional, Maarten van Dijl, Jan, additional, van Roosmalen, Maarten L., additional, Van Wart, Harold E., additional, Vanoni, Marco, additional, Vath, Gregory M., additional, Velasco, Gloria, additional, Vendrell, Josep, additional, Venekei, István, additional, Vera, Pablo, additional, Verchot-Lubicz, Jeanmarie, additional, Vines, Richard R., additional, Volanakis, John E., additional, Wagner, Fred W., additional, Wainwright, Shane W., additional, Walker, Kenneth W., additional, Walker, Stephen J., additional, Wallach, Jean, additional, Walling, Linda L., additional, Walsh, Peter N., additional, Wang, P., additional, May Wang, Q., additional, Wassenaar, Alfred L.M., additional, Watts, Aaron B., additional, Weber, Joseph M., additional, Webster, Daniel R., additional, Weiss, Stephen J., additional, Wells, James A., additional, Wenzel, Herbert, additional, Wewer, Ulla M., additional, White, Judith M., additional, Wilk, Sherwin, additional, Wilkin, Jean-Marc, additional, Wilkins, Tracy D., additional, Wilkinson, Keith D., additional, Winther, Jakob R., additional, Wlodawer, Alexander, additional, Fred Woessner, J., additional, Wolfe, Michael S., additional, Wolfsberg, Tyra G., additional, Woodgate, Roger, additional, Wright, G.D., additional, Wu, Qingyu, additional, Xie, Sancai, additional, Yamagami, Kenjiro, additional, Yamaguchi, Nozomi, additional, Yamakawa, Yoshio, additional, Yamamoto, Kei, additional, Yamamoto, Shigeo, additional, Yana, Ikuo, additional, Yang, Maozhou, additional, Yasuda, Noriko, additional, Yasuhara, Toshimasa, additional, Yasumasu, Shigeki, additional, Yi, Elizabeth, additional, Yiallouros, Irene, additional, Yonezawa, Hiroo, additional, Ji Yoo, Soon, additional, Yoshimoto, Tadashi, additional, Young, Michael W., additional, Young, Stephen G., additional, Zavalova, Ludmila L., additional, Zdanov, Alexander, additional, and Zhang, Hong-Zhong, additional

Published
2004
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13. Detection of Single-Nucleotide Polymorphisms in Cancer-Related Genes by Minisequencing on a Microelectronic DNA Chip.

Author

Walker, John M., Rampal, Jang B., Ho-Pun-Cheung, Alexandre, Abaibou, Hafid, Cleuziat, Philippe, and Lopez-Crapez, Evelyne

Abstract

The ability to realize simultaneous genotyping of multiple single-nucleotide polymorphisms or mutations is valuable in DNA samples from complex multigenic pathologies such as cancer. In this way, the complexity (number of hybridization units per chip) of the developed MICAM? DNA chip, and the orientation of the grafted pyrrole oligonucleotides, make it particularly well adapted to the analysis of single-nucleotide polymorphisms/mutations in multiple potential tumoral markers. The proposed genotyping methodology is based on solid-phase minisequencing, where oligonucleotides are designed to anneal immediately upstream of the polymorphism sites, and labeled dideoxynucleotides are used as substrates for polymerase extension. The developed assay was applied to the analysis of the TP53 codon 72 polymorphism on DNA from cell lines and human colorectal samples. [ABSTRACT FROM AUTHOR]

Published
2007
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15. Specific detection of Escherichia coli and Shigella species using fragments of genes coding for {beta}-glucuronidase

Author

Cleuziat, Philippe and Robert-Baudouy, Janine

Abstract

The occurrence of β-glucuronidase activity, a main characteristic of Escherichia coli and the presence of the uid chromosomal region of E. coli, coding for this enzyme, were tested on representative members of enteric bacteria. DNA hybridization techniques using uid probes and ampplification experiments of uidA gene by the polymerase chain reaction (PCR) confirmed the specificity of uid genes fro E. coli and Shigella spp. (i.e., S. boydii, S. dysenteriae, S. flexneri and S. sonnei), independent of the β-glucuronidase phenotype of bacterial strains. This specificity seemed to be conserved when studies were extended to a wide range of bacteria. It was not possible to distinguish E. coli from Shigella spp. The detection sensitivity using double stranded DNA radiolabeled probes was 3 × 104 bacteria and could be brought down to 8 bacteria by PCR. Thus, the uid genes appeared to be ideal candidates for DNA probes technology to detect E. coli-Shigella species.

Published
1990
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16. Distribution of Clostridioides difficile ribotypes and sequence types across humans, animals and food in 13 European countries.

Author

Rupnik M, Viprey V, Janezic S, Tkalec V, Davis G, Sente B, Devos N, Muller BH, Santiago-Allexant E, Cleuziat P, Wilcox M, and Davies K

Subjects
Adult, Aged, Animals, Female, Humans, Male, Middle Aged, Europe epidemiology, Genome, Bacterial, Phylogeny, Observational Studies as Topic, Clostridioides difficile genetics, Clostridioides difficile classification, Clostridioides difficile isolation & purification, Clostridium Infections microbiology, Clostridium Infections epidemiology, Clostridium Infections transmission, Food Microbiology, Ribotyping, Whole Genome Sequencing
Abstract

Clostridioides difficile is a One Health pathogen found in humans, animals, and the environment, with food representing a potential transmission route. One Health studies are often limited to a single country or selected reservoirs and ribotypes. This study provides a varied and accessible collection of C. difficile isolates and sequencing data derived from human, animal, and food sources across 13 European countries. A total of 441 strains (human hospital- and community-associated cases n  = 280, animal n  = 96, food n  = 65) were analysed by ribotyping, toxinotyping and whole-genome sequencing (WGS). We detected 83 sequence types (STs), with ST11 ( n  = 80 isolates) and ST1 ( n  = 54 isolates) being the most represented. Several STs included strains originating from all source combinations. Further genomic analysis confirmed close genetic relatedness in some of the STs. Additionally, the genomic analysis identified 10 strains from cryptic clades (C-I to C-III) and 4 of them were mono-toxigenic possessing only a variant form of tcd A gene. Amongst 106 ribotypes, 10 were shared between all 3 sources and 68 were source-specific. Some ribotypes were only found at the intersection of human and food source (RT023, RT027), or between human and animal source (RT009, RT045, RT046). C. difficile ribotypes and STs in Europe were diverse. In this collection, some ribotypes showed potential association with food or animal transmission routes. C. difficile strains from divergent clades CI-III, currently emerging in the human population, were rare and mostly food-associated. Trial registration: ClinicalTrials.gov identifier: NCT03503474.

Published
2024
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