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Martin A, Étienne MP, Gloaguen P, Le Corff S, Olsson J. Backward importance sampling for online estimation of state space models. J Comput Graph Stat 2023. [DOI: 10.1080/10618600.2023.2174125] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
Affiliation(s)
- Alice Martin
- École Polytechnique, et Samovar, Télécom SudParis, Institut Polytechnique de Paris, 91120, Palaiseau, France
| | | | - Pierre Gloaguen
- Université Paris-Saclay, AgroParisTech, INRAE, UMR MIA Paris-Saclay, 91120, Palaiseau, France
| | - Sylvain Le Corff
- LPSM, Sorbonne Université, UMR CNRS 8001, 4 Place Jussieu, 75005, Paris, France
| | - Jimmy Olsson
- Department of Mathematics, KTH Royal Institute of Technology, Stockholm, Sweden
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Julien C, Anakok E, Treton X, Nachury M, Nancey S, Buisson A, Fumery M, Filippi J, Maggiori L, Panis Y, Zerbib P, François Y, Dubois A, Sabbagh C, Rahili A, Seksik P, Allez M, Lefevre JH, Le Corff S, Bonnet A, Beyer-Berjot L, Sokol H. Impact of the Ileal Microbiota on Surgical Site Infections in Crohn's Disease: A Nationwide Prospective Cohort. J Crohns Colitis 2022; 16:1211-1221. [PMID: 35218661 DOI: 10.1093/ecco-jcc/jjac026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 12/24/2021] [Accepted: 02/25/2022] [Indexed: 02/08/2023]
Abstract
BACKGROUND AND AIMS Surgery is performed in 50-70% of Crohn's disease [CD] patients, and its main risk is surgical site infection [SSI]. The microbiota has been extensively assessed in CD but not as a potential risk factor for septic morbidity. The objective of this study was to assess the impact of the gut microbiota on SSI in CD. METHODS We used the multicentric REMIND prospective cohort to identify all patients who experienced SSI after ileocolonic resection for CD, defined as any postoperative local septic complication within 90 days after surgery: wound abscess, intra-abdominal collection, anastomotic leakage or enterocutaneous fistula. The mucosa-associated microbiota of the ileal resection specimen was analysed by 16S gene sequencing in 149 patients. The variable selection and prediction were performed with random forests [R package VSURF] on clinical and microbiotal data. The criterion of performance that we considered was the area under the Receiver Operating Characteristic [ROC] curve [AUC]. RESULTS SSI occurred in 24 patients [16.1%], including 15 patients [10.1%] with major morbidity. There were no significant differences between patients with or without SSI regarding alpha and beta diversity. The top selected variables for the prediction of SSI were all microbiota-related. The maximum AUC [0.796] was obtained with a model including 14 genera, but an AUC of 0.78 had already been obtained with a model including only six genera [Hungatella, Epulopiscium, Fusobacterium, Ruminococcaceae_ucg_009, Actinomyces and Ralstonia]. CONCLUSION The gut microbiota has the potential to predict SSI after ileocolonic resection for CD. It might play a role in this frequent postoperative complication.
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Affiliation(s)
- Clément Julien
- Department of Gastrointestinal Surgery, Hôpital Nord, Assistance Publique - Hôpitaux de Marseille, Aix-Marseille Univ., Chemin des Bourrely, 13015 Marseille, France
| | - Emré Anakok
- Sorbonne Université, UMR CNRS 8001, LPSM, 75005 Paris, France.,Sorbonne Université, INSERM, Centre de Recherche Saint-Antoine, CRSA, AP-HP, Saint Antoine Hospital, Gastroenterology Department, F-75012 Paris, France
| | - Xavier Treton
- Gastroenterology Department Hôpital Beaujon, MICI et Assistance Nutritive, Clichy, France
| | - Maria Nachury
- Univ. Lille, Inserm, CHU Lille, U1286 - INFINITE - Institute for Translational Research in Inflammation, F-59000 Lille, France
| | - Stéphane Nancey
- Gastroenterology Department, Lyon Sud Hospital, Hospices Civils de Lyon, and INSERM U1111, CIRI, Lyon, France
| | - Anthony Buisson
- Gastroenterology Department, CHU Clermont-Ferrand, Clermont-Ferrand, France
| | - Mathurin Fumery
- Hepatogastroenterology Department, Amiens University Hospital, Amiens, France
| | - Jérôme Filippi
- Gastroenterology Department, Hopital Archet 2, Nice, France
| | - Léon Maggiori
- Digestive, Oncologic, and Endocrine Surgery Department, Hôpital Saint-Louis, AP-HP, Université de Paris, Paris, France
| | - Yves Panis
- Department of Colorectal Surgery, Beaujon Hospital and University of Paris, France
| | - Philippe Zerbib
- Digestive Surgery and Transplantation, Claude Huriez Hospital, CHRU de Lille, Lille Université Nord de France, Lille, France
| | - Yves François
- Surgery Department, Lyon Sud Hospital, Hospices Civils de Lyon , Lyon, France
| | - Anne Dubois
- Surgery Department, CHU Clermont-Ferrand, Clermont-Ferrand, France
| | - Charles Sabbagh
- Surgery Department, Amiens University Hospital, Amiens, France
| | - Amine Rahili
- Surgery Department, Hopital Archet 2, Nice, France
| | - Philippe Seksik
- Sorbonne Université, INSERM, Centre de Recherche Saint-Antoine, CRSA, AP-HP, Saint Antoine Hospital, Gastroenterology Department, F-75012 Paris, France.,Paris Center for Microbiome Medicine (PaCeMM) FHU, Paris, France
| | - Matthieu Allez
- Gastroenterology Department, AP-HP, Hôpital Saint-Louis, Paris, France
| | - Jérémie H Lefevre
- Paris Center for Microbiome Medicine (PaCeMM) FHU, Paris, France.,Sorbonne Université, Department of Digestive Surgery, AP-HP, Hôpital Saint Antoine, F-75012, Paris, France
| | | | - Sylvain Le Corff
- Paris Center for Microbiome Medicine (PaCeMM) FHU, Paris, France.,Samovar, Télécom SudParis, Institut Polytechnique de Paris , Paris, France
| | - Anna Bonnet
- Sorbonne Université, UMR CNRS 8001, LPSM, 75005 Paris, France.,Paris Center for Microbiome Medicine (PaCeMM) FHU, Paris, France
| | - Laura Beyer-Berjot
- Department of Gastrointestinal Surgery, Hôpital Nord, Assistance Publique - Hôpitaux de Marseille, Aix-Marseille Univ., Chemin des Bourrely, 13015 Marseille, France.,Laboratoire de biomécanique appliquée (LBA), UMR T24, Aix-Marseille Univ/Université Gustave Eiffel, Boulevard Pierre Dramard, Marseille, France.,Centre for Surgical Teaching and Research (CERC), Aix-Marseille Univ, Boulevard Pierre Dramard, Marseille, France
| | - Harry Sokol
- Sorbonne Université, INSERM, Centre de Recherche Saint-Antoine, CRSA, AP-HP, Saint Antoine Hospital, Gastroenterology Department, F-75012 Paris, France.,Paris Center for Microbiome Medicine (PaCeMM) FHU, Paris, France.,INRA, UMR1319 Micalis & AgroParisTech, Jouy en Josas, France
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