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Centre National de Référence pour les Infections Virales Emergentes (National Reference Center for Emerging Viral Infections)

2. Where is it located (include both address and geographical location)?

Centre National de Référence pour les Infections Virales Emergentes, Laboratoire de Virologie, Hôpitaux Universitaires de Genève, Rue Gabrielle Perret-Gentil 4, CH-1205 Genève, Switzerland

N 46° 11' 37.20", E 6° 8' 59.92"

3. Floor area of laboratory areas by containment level
BL 4 , 36.00 SqM
Of note, the BSL4 unit is operational and holds a license for diagnostic purposes only, as follows: “Detection of viruses in clinical samples by molecular and/or serological methods”.
BL 3 , 39.00 SqM
BL 2 , 29.00 SqM
Total laboratory floor area (SqM)
104

4. The organizational structure of each facility

(viii) Briefly describe the publication policy of the facility

Publication in open literature.

(ix) Provide a list of publicly-available papers and reports resulting from the work published during the previous 12 months. (To include authors, titles and full references)

Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4+ T-Cell Decline, and Per-Parasite Pathogenicity. Bertels F, Marzel A, Leventhal G, Mitov V, Fellay J, Günthard HF, Böni J, Yerly S, Klimkait T, Aubert V, Battegay M, Rauch A, Cavassini M, Calmy A, Bernasconi E, Schmid P, Scherrer AU, Müller V, Bonhoeffer S, Kouyos R, Regoes RR; Swiss HIV Cohort Study. Mol Biol Evol. 2018;35(1):27-37.

Performance of genotypic algorithms for predicting tropism for HIV-1 CRF01_AE recombinant. Soulie C, Morand-Joubert L, Cottalorda J, Charpentier C, Bellecave P, Le Guen L, Yerly S, Montes B, Fafi-Kremer S, Dina J, Avettand-Fenoel V, Amiel C, Roussel C, Pallier C, Zafilaza K, Sayon S, Signori-Schmuck A, Mirand A, Trabaud MA, Berger S, Calvez V, Marcelin AG; ANRS AC11 resistance group. J Clin Virol. 2018;99-100:57-60.

Quantifying the drivers of HIV transmission and prevention in men having sex with men: A population model based analysis in Switzerland. Kusejko K, Marzel A, Hampel B, Bachmann N, Nguyen H, Fehr J, Braun DL, Battegay M, Bernasconi E, Calmy A, Cavassini M, Hoffmann M, Böni J, Yerly S, Klimkait T, Perreau M, Rauch A, Günthard HF, Kouyos RD; Swiss HIV Cohort Study. HIV Med. 2018 Jul 26 doi: 10.1111/hiv.12660.

Quantifying the fitness cost of HIV-1 drug resistance mutations through phylodynamics. D Kühnert, R Kouyos, G Shirreff, J Pecerska, A Scherrer, Jürg Boeni, S Yerly, T Klimkait, V Aubert, HF Günthard, T Stadler, S Bonhoeffer, the Swiss HIV Cohort Study. PLoS Pathog 2018 ; 14(2): e1006895.

A community outbreak of Legionnaire’s disease in Geneva, Switzerland, June to September 2017, MC Zanella, S. Yerly, A. CherkaouiI, G. Renzi, A. Mamin, L. Lourenço Cordes, E. Delaporte, Z. Baranczuk-Turska, O. Keiser, J. Schrenzel, S. Harbarth, V. Gaia, L. Kaiser, Swiss Medical Weekly 2018 (in press).

Tracing HIV-1 strains with high capacity to imprint broadly neutralising antibody responses Roger D. Kouyos, P Rusert, C Kadelka, M Huber, A Marzel, H Ebner, M Schanz, O Zagordi, T Liechti, N Friedrich, D Braun, A Scherrer, J Weber, T Uhr, N Baumann, C Leemann, H Kuster, JP Chave, M Cavassini, E Bernasconi, M Hoffmann, A Calmy, M Battegay, A Rauch, S Yerly, V Aubert, T Klimkait, J Böni , KJ Metzner, HF Günthard, A Trkola & the Swiss HIV Cohort Study. Nature 2018 (in press).

Novel human astroviruses in pediatric respiratory samples: A one-year survey in a Swiss tertiary care hospital. Cordey S, Zanella MC, Wagner N, Turin L, Kaiser L. J Med Virol. 2018 Nov;90(11):1775-1778.

Detection of novel astroviruses MLB1 and MLB2 in sera of febrile Tanzanian children Cordey S, Hartley MA, Keitel K, Laubscher F, Brito F, Junier T, Kagoro F, Samaka J, Masimba J, Said Z, Temba H, Mlaganile T, Docquier M, Fellay J, Kaiser L, and V.  D’Acremont. 2018. Emerging Microbes & Infections, 7:27.

Human pegivirus persistence in the human blood virome after allogeneic hematopoietic stem cell transplantation Vu DL, Cordey S, Simonetta F, Brito F, Docquier M, Turin L, van Delden C, Pradier A, Roosnek E, Chalandon Y, Zdobnov E, Masouridi-Levrat S, Kaiser L. Clin Microbiol Infect. 2018; pii: S1198-743X(18)30410-5.

Metagenomics analysis of the virome of 300 concentrates from a Swiss platelet bank Brito F, Cordey S (co-first), Delwart E, Deng X, Tirefort D, Lemoine-Chaduc C, Zdobnov E, Lecompte T, Kaiser L, Waldvogel-Abramowski S, and O. Preynat-Seauve. 2018. Vox Sanguinis, 113, 601–604.

Investigation of the plasma virome from cases of unexplained febrile illness in Tanzania, 2013-2014: a comparative analysis between unbiased and VirCapSeq-VERT high-throughput sequencing approaches Williams S, Cordey S (co-first), Bhuva N, Laubscher F, Hartley MA, Boillat-Blanco N, Mbarack Z, Samaka J, Mlaganile T, Jain K, d'Acremont V, Kaiser L, and W. Ian Lipkin. 2018. mSphere, 3(4):e00311-18.

Influenza A Virus Genetic Tools: From Clinical Sample to Molecular Clone Anchisi S, Goncalves AR, Mazel-Sanchez B, Cordey S, and M. Schmolke. 2018. Methods Molecular Biology, 1836:33-58.

Outbreak analytics: a developing data science for informing the response to emerging pathogens. J. Polonsky, A. Baidjoe, Z. Kammvar, A. Cori, Kara Durski, J. Edmunds, R. Eggo, S. Funk, L. Kaiser, P. Keating, O. le Polain de Waroux, P. Moranga, O. Moraga, O. Morgan, P. Nouvellet, R. Ratnayake, C. Roberts, J. Whitworth, T. Jombart. Submitted. 2018. Phil. Trans. R. Soc. B.

Multimodal safety assessment of measles-mumps-rubella vaccination after pediatric liver transplantation. LF. Pittet, CM Verolet, VA McLin, BE Wildhaber, M. Rodriguez, P. Cherpillod, L. Kaiser, CA Siegrist, KM. Posfay-Barbe. 2018. Am. J. Transplant. In Press.

Prognostic Value of quickSOFA as a Predictor of 28-day Mortality Among Febrile Adult Patients Presenting to Emergency Departments in Dar es Salaam, Tanzania. N. Boillat-Blanco, Zainab, Samaka, Mlaganile, A. Mamin, B. Genton, L. Kaiser, T. Calandra and V. D'Acremont. Plos One. Jun 2018; 13(6):e0197982.

Dengue fever in Dar es Salaam, Tanzania: clinical features and outcome in populations of black and non-black ethnicity. N. Boillat Blanco, V. D'Acremont, B. Genton, L. Kaiser. Jun 2018. In Press.

Low-dose CT for the diagnosis of pneumonia in elderly patients: a prospective, interventional cohort study. V. Prendki, M. Scheffler, B. Huttner, N. Garin, F. Herrmann, J-P. Janssens, C. Marti, S. Carballo, X. Roux, C. Serratrice, J. Serratrice, T. Agoritsas, C. Becker, L. Kaiser, S. Rosset-Zufferey, V. Soulier, A. Perrier, J-L Reny, X. Montet, J. Stirnemann. European Respiratory Journal. May 2018; 51(5): pii:1702375.

Viral chimeras decrypt the role of enterovirus capsid proteins in viral tropism, acid sensitivity and optimal growth temperature. L. Royston, M. Essaidi-Laziosi, F. J. Pérez-Rodríguez, I. Piuz, J. Geiser, K-H. Krause, S. Huang, S. Constant, L. Kaiser, D. Garcin, C. Tapparel. Plos Pathogen. Apr. 2018 ; 14(4) ; e1006962.

Usutu virus in cerebrospinal fluid: A 2-year survey in a Tertiary Care Hospital, Geneva, Switzerland. S. Cordey, G. Vieille, L. Turin, L. Kaiser. J. Med. Virol. Mar 2018; 90 (3):609-611.

Anti-apolipoprotein A-1 autoantibodies are associated with immunodeficiency and systemic inflammation in HIV patients corresponding. N. Satta, S. Pagano, F. Montecucco, B. Gencer, F. Mach, L. Kaiser, A. Calmy, N. Vuilleumier. Journal of Infection. Feb. 2018; 76 (2):186-195.

Broad spectrum non toxic antiviral nanoparticles with a virucidal inhibition mechanism. V. Cagno, P. Andreozzi, M. D’Alicarnasso, PJ Silva, M. Mueller, M. Galloux, R. Le Goffic, ST Jones, M. Vallino, J. Hodek, J. Weber, S. Sen, EM Janeček, A. Bekdemir, B. Sanavio, C. Martinelli, M. Donalisio, MA Rameix Wetli, JF Eleouet, Y. Han, L. Kaiser, L. Vukovic, C. Tapparel, P. Král, S. Krol, D. Lembo, F. Stellacci. Nature Materials. Feb. 2018; 17 (2): 195-203.

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5. Briefly describe the biological defence work carried out at the facility, including type(s) of micro-organisms(9) and/or toxins studied, as well as outdoor studies of biological aerosols.

The National Reference Center for Emerging Viral Diseases (CRIVE/NAVI) is a national reference laboratory by order of the Federal Office of Public Health. Its task is the detection of emerging and re-emerging viruses of all biosafety levels, especially hemorrhagic fever viruses and smallpox virus. The BSL4 unit is approved for diagnostic purposes only, which does not allow any culturing or enrichment of such viruses. The National Reference Center for Emerging Viral Diseases is part of the Laboratory of Virology at the University Hospitals of Geneva. Since the 1st January 2018, the CRIVE acts also as WHO National Center for Measles and Rubella.

The Laboratory of Virology (LV) performs the analysis of many viruses impacting the human health as done in most of the hospitals (HIV, Hepatitis, CMV, EBV, respiratory and enteric viruses, etc.). LV does most of the viral analysis needed by a university hospital. LV also hosts the Swiss National Center for Influenza.

For further information please visit (website in French):
https://www.hug-ge.ch/laboratoire-virologie

(9) Including viruses and prions.