D. Lieberman, A. Shimoni, Y. Shemer-avni, A. Keren-naos, R. Shtainberg et al., Respiratory Viruses in Adults With Community-Acquired Pneumonia, Chest, vol.138, issue.4, pp.811-816, 2010.
DOI : 10.1378/chest.09-2717

L. C. Jennings, T. P. Anderson, K. A. Beynon, A. Chua, R. T. Laing et al., Incidence and characteristics of viral community-acquired pneumonia in adults, Thorax, vol.63, issue.1, pp.42-48, 2008.
DOI : 10.1136/thx.2006.075077

S. Jain, W. H. Self, R. G. Wunderink, S. Fakhran, R. Balk et al., Community-Acquired Pneumonia Requiring Hospitalization among U.S. Adults, New England Journal of Medicine, vol.373, issue.5, pp.373-415, 2015.
DOI : 10.1056/NEJMoa1500245

D. Das, H. L. Floch, N. Houhou, L. Epelboin, P. Hausfater et al., Viruses detected by systematic multiplex polymerase chain reaction in adults with suspected community-acquired pneumonia attending emergency departments in France, Clinical Microbiology and Infection, vol.21, issue.6, pp.1-8, 2015.
DOI : 10.1016/j.cmi.2015.02.014

S. S. Weigt, A. L. Gregson, J. C. Deng, J. P. Lynch, and J. A. Belperio, Respiratory Viral Infections in Hematopoietic Stem Cell and Solid Organ Transplant Recipients, Seminars in Respiratory and Critical Care Medicine, vol.32, issue.04, pp.471-493, 2011.
DOI : 10.1055/s-0031-1283286

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4209842

C. Renaud and A. P. Campbell, Changing epidemiology of respiratory viral infections in hematopoietic cell transplant recipients and solid organ transplant recipients, Current Opinion in Infectious Diseases, vol.24, issue.4, pp.333-343, 2011.
DOI : 10.1097/QCO.0b013e3283480440

M. J. Richards, J. R. Edwards, D. H. Culver, and R. P. Gaynes, Nosocomial infections in medical intensive care units in the United States, Critical Care Medicine, vol.27, issue.5, pp.887-892, 1999.
DOI : 10.1097/00003246-199905000-00020

M. H. Kollef, Prevention of hospital-associated pneumonia and ventilator-associated pneumonia, Critical Care Medicine, vol.32, issue.6, pp.1396-1405, 2004.
DOI : 10.1097/01.CCM.0000128569.09113.FB

C. Daubin, S. Vincent, A. Vabret, D. Du-cheyron, J. Parienti et al., Nosocomial viral ventilator-associated pneumonia in the intensive care unit: a prospective cohort study, Intensive Care Medicine, vol.56, issue.8, pp.31-1116, 2005.
DOI : 10.1007/s00134-005-2706-1

F. S. Nolte, D. J. Marshall, C. Rasberry, S. Schievelbein, G. G. Banks et al., MultiCode-PLx System for Multiplexed Detection of Seventeen Respiratory Viruses, Journal of Clinical Microbiology, vol.45, issue.9, pp.45-2779, 2007.
DOI : 10.1128/JCM.00669-07

H. Kim, S. Oh, K. A. Yun, H. Sung, and M. Kim, Comparison of Anyplex II RV16 with the xTAG Respiratory Viral Panel and Seeplex RV15 for Detection of Respiratory Viruses, Journal of Clinical Microbiology, vol.51, issue.4, pp.51-1137, 2013.
DOI : 10.1128/JCM.02958-12

V. Luchsinger, M. Ruiz, E. Zunino, M. A. Martinez, C. Machado et al., Community-acquired pneumonia in Chile: the clinical relevance in the detection of viruses and atypical bacteria, Thorax, vol.63, issue.11, pp.1000-1006, 2013.
DOI : 10.1136/thoraxjnl-2013-203551

P. Loubet, Impact of respiratory viruses in hospital-acquired pneumonia in the intensive care unit: A single-center retrospective study, Journal of Clinical Virology, vol.91, pp.52-57, 2017.
DOI : 10.1016/j.jcv.2017.04.001

URL : https://hal.archives-ouvertes.fr/inserm-01526283

G. Voiriot, B. Visseaux, J. Cohen, L. B. Nguyen, M. Neuville et al., Viral-bacterial coinfection affects the presentation and alters the prognosis of severe community-acquired pneumonia, Critical Care, vol.371, issue.8, p.375, 2016.
DOI : 10.1186/s13054-016-1517-9

URL : https://hal.archives-ouvertes.fr/inserm-01398171

H. Hong, S. Hong, G. Ko, J. W. Huh, H. Sung et al., Viral Infection Is Not Uncommon in Adult Patients with Severe Hospital-Acquired Pneumonia, PLoS ONE, vol.65, issue.4, p.95865, 2014.
DOI : 10.1371/journal.pone.0095865.s004

URL : http://doi.org/10.1371/journal.pone.0095865

M. Seki, K. Kosai, K. Yanagihara, Y. Higashiyama, S. Kurihara et al., Disease Severity in Patients with Simultaneous Influenza and Bacterial Pneumonia, Internal Medicine, vol.46, issue.13, pp.46-953, 2007.
DOI : 10.2169/internalmedicine.46.6364

D. M. Morens, J. K. Taubenberger, and A. S. Fauci, Predominant Role of Bacterial Pneumonia as a Cause of Death in Pandemic Influenza: Implications for Pandemic Influenza Preparedness, The Journal of Infectious Diseases, vol.198, issue.7, pp.198-962, 2008.
DOI : 10.1086/591708

T. W. Rice, L. Rubinson, T. M. Uyeki, F. L. Vaughn, B. B. John et al., Critical illness from 2009 pandemic influenza A (H1N1) virus and bacterial coinfection in the United States, Crit. Care Med, pp.40-1487, 2012.

E. Estenssoro, F. G. Ríos, C. Apezteguía, R. Reina, J. Neira et al., Pandemic 2009 Influenza A in Argentina, American Journal of Respiratory and Critical Care Medicine, vol.182, issue.1, pp.41-48, 2010.
DOI : 10.1164/201001-0037OC

K. Ampofo, J. Bender, X. Sheng, K. Korgenski, J. Daly et al., Seasonal Invasive Pneumococcal Disease in Children: Role of Preceding Respiratory Viral Infection, PEDIATRICS, vol.122, issue.2, pp.229-237, 2008.
DOI : 10.1542/peds.2007-3192

T. R. Talbot, K. A. Poehling, T. V. Hartert, P. G. Arbogast, N. B. Halasa et al., Seasonality of invasive pneumococcal disease: Temporal relation to documented influenza and respiratory syncytial viral circulation, The American Journal of Medicine, vol.118, issue.3, pp.285-291, 2005.
DOI : 10.1016/j.amjmed.2004.09.016

S. Ishizuka, M. Yamaya, T. Suzuki, H. Takahashi, S. Ida et al., Effects of rhinovirus infection on the adherence of Streptococcus pneumoniae to cultured human airway epithelial cells, J. Infect. Dis, pp.188-1928, 2003.

C. M. Smith, S. Sandrini, P. Datta, S. Freestone, P. Shafeeq et al., by Binding to Penicillin Binding Protein 1a. A New Paradigm in Respiratory Infection, American Journal of Respiratory and Critical Care Medicine, vol.190, issue.2, pp.196-207, 2014.
DOI : 10.1164/rccm.201311-2110OC

]. N. Wolter, S. Tempia, C. Cohen, S. A. Madhi, M. Venter et al., High Nasopharyngeal Pneumococcal Density, Increased by Viral Coinfection, Is Associated With Invasive Pneumococcal Pneumonia, Journal of Infectious Diseases, vol.210, issue.10, pp.210-1649, 2014.
DOI : 10.1093/infdis/jiu326

A. T. Pavia, What is the Role of Respiratory Viruses in Community-Acquired Pneumonia?, Infectious Disease Clinics of North America, vol.27, issue.1, pp.157-175, 2013.
DOI : 10.1016/j.idc.2012.11.007

B. M. Diederen, M. M. Eerden, F. Vlaspolder, W. G. Boersma, J. A. Kluytmans et al., Detection of respiratory viruses and Legionella spp. by real-time polymerase chain reaction in patients with community acquired pneumonia, Scand, J. Infect. Dis, pp.41-45, 2009.

K. T. Zlateva, J. J. De-vries, F. E. Coenjaerts, A. M. Van-loon, T. Verheij et al., Prolonged shedding of rhinovirus and re-infection in adults with respiratory tract illness, European Respiratory Journal, vol.44, issue.1, pp.44-169, 2014.
DOI : 10.1183/09031936.00172113

L. Kaiser, J. Aubert, J. Pache, C. Deffernez, T. Rochat et al., Chronic Rhinoviral Infection in Lung Transplant Recipients, American Journal of Respiratory and Critical Care Medicine, vol.174, issue.12, pp.1392-1399, 2006.
DOI : 10.1164/rccm.200604-489OC

URL : http://dx.doi.org/10.1016/s1201-9712(06)80024-x

P. L. Molyneaux, P. Mallia, M. J. Cox, J. Footitt, S. A. Willis-owen et al., Outgrowth of the Bacterial Airway Microbiome after Rhinovirus Exacerbation of Chronic Obstructive Pulmonary Disease, American Journal of Respiratory and Critical Care Medicine, vol.188, issue.10, pp.1224-1231, 2013.
DOI : 10.1164/rccm.201302-0341OC

S. Choi, J. W. Huh, S. Hong, J. Y. Lee, S. Kim et al., Clinical characteristics and outcomes of severe rhinovirus-associated pneumonia identified by bronchoscopic bronchoalveolar lavage in adults: Comparison with severe influenza virus-associated pneumonia, Journal of Clinical Virology, vol.62, pp.62-103, 2015.
DOI : 10.1016/j.jcv.2014.11.010

G. Boivin, G. D. Serres, M. Hamelin, S. Côté, M. Argouin et al., An Outbreak of Severe Respiratory Tract Infection Due to Human Metapneumovirus in a Long-Term Care Facility, Clinical Infectious Diseases, vol.44, issue.9, pp.44-1152, 2007.
DOI : 10.1086/513204

C. Aitken and D. J. Jeffries, Nosocomial Spread of Viral Disease, Clinical Microbiology Reviews, vol.14, issue.3, pp.528-546, 2001.
DOI : 10.1128/CMR.14.3.528-546.2001

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC88988

J. Lessler, N. G. Reich, R. Brookmeyer, T. M. Perl, K. E. Nelson et al., Incubation periods of acute respiratory viral infections: a systematic review, The Lancet Infectious Diseases, vol.9, issue.5, pp.291-300, 2009.
DOI : 10.1016/S1473-3099(09)70069-6

P. Loubet, Impact of respiratory viruses in hospital-acquired pneumonia in the intensive care unit: A single-center retrospective study, Journal of Clinical Virology, vol.91, pp.52-57, 2017.
DOI : 10.1016/j.jcv.2017.04.001

URL : https://hal.archives-ouvertes.fr/inserm-01526283