Practical guidance for clinical microbiology laboratories: Viruses causing acute respiratory tract infections

Clinical Microbiology Reviews

Volumn 32, Issue 1, 2019, Pages

  Charlton, Carmen L ^a,b   Babady, Esther ^c   Ginocchio, Christine C ^d,e   Hatchette, Todd F ^f   Jerris, Robert C ^g   Li, Yan ^h,i   Loeffelholz, Mike ^j   McCarter, Yvette S ^k,l   Miller, Melissa B ^m   Novak Weekley, Susan ⁿ   Schuetz, Audrey N ^o   Tang, Yi Wei ^c,p   Widen, Ray ^q   Drews, Steven J ^a,b  

^a UNIVERSITY OF ALBERTA   (Canada)

^b PROVINCIAL LABORATORY FOR PUBLIC HEALTH   (Canada)

^c MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

^d DONALD AND BARBARA ZUCKER SCHOOL OF MEDICINE AT HOFSTRA NORTHWELL   (United States)

^e Idaho Technology Inc   (United States)

^f DALHOUSIE UNIVERSITY   (Canada)

^g CHILDREN'S HEALTHCARE OF ATLANTA   (United States)

^h PUBLIC HEALTH AGENCY OF CANADA   (Canada)

ⁱ UNIVERSITY OF MANITOBA   (Canada)

^j University of Texas Medical Branch School of Medicine   (United States)

^k UNIVERSITY OF FLORIDA COLLEGE OF MEDICINE   (United States)

^l UNIVERSITY OF FLORIDA HEALTH JACKSONVILLE   (United States)

^m UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

ⁿ Qvella Corporation   (United States)

^o Mayo Clinic College of Medicine   (United States)

^p WEILL CORNELL MEDICAL COLLEGE   (United States)

^q TAMPA GENERAL HOSPITAL   (United States)

more..

Author keywords

Clinical; Guidance; Laboratory; Respiratory; Virus

Indexed keywords

ANTIGEN DETECTION; CLINICAL FEATURE; COMMUNITY ACQUIRED PNEUMONIA; DISEASE ASSOCIATION; ENVIRONMENTAL FACTOR; HUMAN; IMMUNOASSAY; INFLUENZA; LABORATORY DIAGNOSIS; LABORATORY TEST; MEDICAL SOCIETY; NONHUMAN; PRACTICE GUIDELINE; REVIEW; RHINOSINUSITIS; RISK ASSESSMENT; SYNDROME; VIRAL RESPIRATORY TRACT INFECTION; VIRUS DETECTION; VIRUS IDENTIFICATION; ACUTE DISEASE; LABORATORY TECHNIQUE; MICROBIOLOGICAL EXAMINATION; MOLECULAR DIAGNOSIS; PROCEDURES; RESPIRATORY TRACT INFECTION; STANDARDS; TRENDS; VIROLOGY; VIRUS INFECTION;

ACUTE DISEASE; CLINICAL LABORATORY TECHNIQUES; HUMANS; MICROBIOLOGICAL TECHNIQUES; MOLECULAR DIAGNOSTIC TECHNIQUES; RESPIRATORY TRACT INFECTIONS; VIROLOGY; VIRUS DISEASES;

EID: 85058606176     PISSN: 08938512     EISSN: 10986618     Source Type: Journal    
DOI: 10.1128/CMR.00042-18     Document Type: Review

References (389)

1. Greenberg SB, Krilov LR. 1986. Cumitech 21, Laboratory diagnosis of respiratory disease. Coordinating ed., Drew WL, Rubin SJ. American Society for Microbiology, Washington, DC.
2. Nickbakhsh S, Thorburn F, Von Wissmann B, McMenamin J, Gunson RN, Murcia PR. 2016. Extensive multiplex PCR diagnostics reveal new insights into the epidemiology of viral respiratory infections. Epidemiol Infect 144:2064–2076. https://doi.org/10.1017/S0950268816000339.
3. Terashita GD, Peterson A, Mascola L, Dassey D, Camargo E. 2009. Pseudo-outbreak of respiratory syncytial virus infection in a neonatal intensive care unit due to cross-reactivity of surfactant and a rapid immunoassay. Infect Control Hosp Epidemiol 30:890–892. https://doi.org/10.1086/605545.
4. New Zealand Ministry of Health. 2 October 2016. Community and hospital surveillance: ILI, SARI, influenza and respiratory pathogens. https://surv.esr.cri.nz/PDF_surveillance/Virology/FluWeekRpt/2016/Flu WeekRpt201639.pdf.
5. Public Health Agency of Canada. 6 January 2017. FluWatch report. http://healthycanadians.gc.ca/publications/diseases-conditions-maladies-affections/fluwatch-2016-2017-51-52-surveillance-influenza/index-eng.php#a1.
6. Alberta Health Services. 7 November 2018. Alberta respiratory virus update. https://public.tableau.com/profile/publish/AlbertaHealth ServicesRespiratoryVirusSurveillance/Summary#!/publish-confirm.
7. US Centers for Disease Control and Prevention. 23 August 2018. Flu activity & surveillance. https://www.cdc.gov/flu/weekly/fluactivitysurv.htm.
8. Fathima S, Simmonds K, Invik J, Scott AN, Drews S. 2016. Use of laboratory and administrative data to understand the potential impact of human parainfluenza virus 4 on cases of bronchiolitis, croup, and pneumonia in Alberta, Canada. BMC Infect Dis 16:402. https://doi.org/10.1186/s12879-016-1748-z.
9. Benkouiten S, Charrel R, Belhouchat K, Drali T, Salez N, Nougairede A, Zandotti C, Memish ZA, Al MM, Gaillard C, Parola P, Brouqui P, Gautret P. 2013. Circulation of respiratory viruses among pilgrims during the 2012 Hajj pilgrimage. Clin Infect Dis 57:992–1000. https://doi.org/10.1093/cid/cit446.
10. Benkouiten S, Gautret P, Belhouchat K, Drali T, Nougairede A, Salez N, Memish ZA, Al MM, Raoult D, Brouqui P, Parola P, Charrel RN. 2015. Comparison of nasal swabs with throat swabs for the detection of respiratory viruses by real-time reverse transcriptase PCR in adult Hajj pilgrims. J Infect 70:207–210. https://doi.org/10.1016/j.jinf.2014.08.011.
11. Siegel JD, Rhinehart E, Jackson M, Chiarello L, Healthcare Infection Control Practices Advisory Committee. 2007. Guideline for isolation precautions: preventing transmission of infectious agents in healthcare settings. https://www.cdc.gov/infectioncontrol/pdf/guidelines/isolation-guidelines.pdf.
12. Cunha BA, Connolly JJ, Musta AC, Abruzzo E. 2015. Infection control implications of protracted lengths of stay with noninfluenza viral influenza-like illnesses in hospitalized adults during the 2015 influenza A (H3N2) epidemic. Infect Control Hosp Epidemiol 36:1368–1370. https://doi.org/10.1017/ice.2015.204.
13. Murray CJ, Barber RM, Foreman KJ, Abbasoglu OA, Abd-Allah F, Abera SF, Aboyans V, Abraham JP, Abubakar I, Abu-Raddad LJ, Abu-Rmeileh NM, Achoki T, Ackerman IN, Ademi Z, Adou AK, Adsuar JC, Afshin A, Agardh EE, Alam SS, Alasfoor D, Albittar MI, Alegretti MA, Alemu ZA, Alfonso-Cristancho R, Alhabib S, Ali R, Alla F, Allebeck P, Almazroa MA, Alsharif U, Alvarez E, Alvis-Guzman N, Amare AT, Ameh EA, Amini H, Ammar W, Anderson HR, Anderson BO, Antonio CA, Anwari P, Arnlov J, Arsic Arsenijevic VS, Artaman A, Asghar RJ, Assadi R, Atkins LS, Avila MA, Awuah B, Bachman VF, Badawi A, Bahit MC, Balakrishnan K, Ba-nerjee A, et al. 2015. Global, regional, and national disability-adjusted life years (DALYs) for 306 diseases and injuries and healthy life expectancy (HALE) for 188 countries, 1990-2013: quantifying the epidemiological transition. Lancet 386:2145–2191. https://doi.org/10.1016/S0140-6736(15)61340-X.
14. Woolhouse ME. 2002. Population biology of emerging and re-emerging pathogens. Trends Microbiol 10:S3–S7.
15. Martin LJ, Im C, Dong H, Lee BE, Talbot J, Meurer DP, Mukhi SN, Drews SJ, Yasui Y. 2016. Influenza-like illness-related emergency department visits: Christmas and New Year holiday peaks and relationships with laboratory-confirmed respiratory virus detections, Edmonton, Alberta, 2004–2014. Influenza Other Respir Viruses https://doi.org/10.1111/irv.12416.
16. Rolfes MA, Foppa IM, Garg S, Flannery B, Brammer L, Singleton JA, Burns E, Jernigan D, Olsen SJ, Bresee J, Reed C. 2018. Annual estimates of the burden of seasonal influenza in the United States: a tool for strengthening influenza surveillance and preparedness. Influenza Other Respir Viruses 12:132–137. https://doi.org/10.1111/irv.12486.
17. Hall CB. 2007. The spread of influenza and other respiratory viruses: complexities and conjectures. Clin Infect Dis 45:353–359. https://doi.org/10.1086/519433.
18. Boone SA, Gerba CP. 2007. Significance of fomites in the spread of respiratory and enteric viral disease. Appl Environ Microbiol 73: 1687–1696. https://doi.org/10.1128/AEM.02051-06.
19. Tamerius JD, Shaman J, Alonso WJ, Bloom-Feshbach K, Uejio CK, Com-rie A, Viboud C. 2013. Environmental predictors of seasonal influenza epidemics across temperate and tropical climates. PLoS Pathog 9:e1003194. https://doi.org/10.1371/journal.ppat.1003194.
20. Sooryanarain H, Elankumaran S. 2015. Environmental role in influenza virus outbreaks. Annu Rev Anim Biosci 3:347–373. https://doi.org/10.1146/annurev-animal-022114-111017.
21. Lowen AC, Mubareka S, Steel J, Palese P. 2007. Influenza virus transmission is dependent on relative humidity and temperature. PLoS Pathog 3:1470–1476. https://doi.org/10.1371/journal.ppat.0030151.
22. Chung SJ, Ling ML, Seto WH, Ang BS, Tambyah PA. 2014. Debate on MERS-CoV respiratory precautions: surgical mask or N95 respirators? Singapore Med J 55:294–297.
23. Spires SS, Talbot HK, Pope CA, Talbot TR. 2017. Paramyxovirus outbreak in a long-term care facility: the challenges of implementing infection control practices in a congregate setting. Infect Control Hosp Epidemiol 38:399–404. https://doi.org/10.1017/ice.2016.316.
24. Liao RS, Appelgate DM, Pelz RK. 2012. An outbreak of severe respiratory tract infection due to human metapneumovirus in a long-term care facility for the elderly in Oregon. J Clin Virol 53:171–173. https://doi.org/10.1016/j.jcv.2011.10.010.
25. Fairchok MP, Martin ET, Chambers S, Kuypers J, Behrens M, Braun LE, Englund JA. 2010. Epidemiology of viral respiratory tract infections in a prospective cohort of infants and toddlers attending daycare. J Clin Virol 49:16–20. https://doi.org/10.1016/j.jcv.2010.06.013.
26. Prussin AJ, Vikram A, Bibby KJ, Marr LC. 2016. Seasonal dynamics of the airborne bacterial community and selected viruses in a children’s daycare center. PLoS One 11:e0151004. https://doi.org/10.1371/journal.pone.0151004.
27. Schuez-Havupalo L, Toivonen L, Karppinen S, Kaljonen A, Peltola V. 2017. Daycare attendance and respiratory tract infections: a prospective birth cohort study. BMJ Open 7:e014635. https://doi.org/10.1136/bmjopen-2016-014635.
28. Blanken MO, Paes B, Anderson EJ, Lanari M, Sheridan-Pereira M, Buchan S, Fullarton JR, Grubb E, Notario G, Rodgers-Gray BS, Carbonell-Estrany X. 2018. Risk scoring tool to predict respiratory syncytial virus hospi-talisation in premature infants. Pediatr Pulmonol 53:605–612. https://doi.org/10.1002/ppul.23960.
29. US Centers for Disease Control and Prevention. 19 October 2018. Overview of influenza surveillance in the United States. https://www.cdc.gov/flu/weekly/overview.htm.
30. Kasper MR, Wierzba TF, Sovann L, Blair PJ, Putnam SD. 2010. Evaluation of an influenza-like illness case definition in the diagnosis of influenza among patients with acute febrile illness in Cambodia. BMC Infect Dis 10:320. https://doi.org/10.1186/1471-2334-10-320.
31. US Centers for Disease Control and Prevention, National Center for Immunization and Respiratory Diseases. 19 October 2018. NCIRD overview of influenza surveillance in the United States. https://www.cdc.gov/flu/weekly/overview.htm.
32. Claus JA, Hodowanec AC, Singh K. 2015. Poor positive predictive value of influenza-like illness criteria in adult transplant patients: a case for multiplex respiratory virus PCR testing. Clin Transplant 29:938–943. https://doi.org/10.1111/ctr.12600.
33. Vareille M, Kieninger E, Edwards MR, Regamey N. 2011. The airway epithelium: soldier in the fight against respiratory viruses. Clin Microbiol Rev 24:210–229. https://doi.org/10.1128/CMR.00014-10.
34. Boyton RJ, Openshaw PJ. 2002. Pulmonary defences to acute respiratory infection. Br Med Bull 61:1–12.
35. Harless J, Ramaiah R, Bhananker SM. 2014. Pediatric airway management. Int J Crit Illn Inj Sci 4:65–70. https://doi.org/10.4103/2229-5151.128015.
36. Tregoning JS, Schwarze S. 2010. Respiratory viral infections in infants: causes, clinical symptoms, virology, and immunology. Clin Microbiol Rev 23:74–98. https://doi.org/10.1128/CMR.00032-09.
37. Glezen WP, Paredes A, Allison JE, Taber LH, Frank AL. 1981. Risk of respiratory syncytial virus infection for infants from low-income families in relationship to age, sex, ethnic group, and maternal antibody level. J Pediatr 98:708–715. https://doi.org/10.1016/S0022-3476(81)80829-3.
38. Shi T, Balsells E, Wastnedge E, Singleton R, Rasmussen ZA, Zar HJ, Rath BA, Madhi SA, Campbell S, Vaccari LC, Bulkow LR, Thomas ED, Barnett W, Hoppe C, Campbell H, Nair H. 2015. Risk factors for respiratory syncytial virus associated with acute lower respiratory infection in children under five years: systematic review and meta-analysis. J Glob Health 5. https://doi.org/10.7189/jogh.05.020416.
39. Lanari M, Prinelli F, Adorni F, Di SS, Vandini S, Silvestri M, Musicco M. 2015. Risk factors for bronchiolitis hospitalization during the first year of life in a multicenter Italian birth cohort. Ital J Pediatr 41:40. https://doi.org/10.1186/s13052-015-0149-z.
40. Turner RB. 2010. The common cold, p. 809–814. In Mandell G, Bennett J, Dolin R, (ed), Mandell, Douglas, and Bennett’s principles and practice of infectious diseases, 7th ed. Churchill Livingstone, London, United Kingdom.
41. Skowronski DM, Chambers C, Sabaiduc S, De SG, Winter AL, Dickinson JA, Krajden M, Gubbay JB, Drews SJ, Martineau C, Eshaghi A, Kwindt TL, Bastien N, Li Y. 2016. A perfect storm: impact of genomic variation and serial vaccination on low influenza vaccine effectiveness during the 2014–2015 season. Clin Infect Dis 63:21–32. https://doi.org/10.1093/cid/ciw176.
42. Zlateva KT, de Vries JJ, Coenjaerts FE, van Loon AM, Verheij T, Little P, Butler CC, Goossens H, Ieven M, Claas EC. 2014. Prolonged shedding of rhinovirus and re-infection in adults with respiratory tract illness. Eur Respir J 44:169–177. https://doi.org/10.1183/09031936.00172113.
43. Belongia EA, Simpson MD, King JP, Sundaram ME, Kelley NS, Osterholm MT, McLean HQ. 2016. Variable influenza vaccine effectiveness by subtype: a systematic review and meta-analysis of test-negative design studies. Lancet Infect Dis 16:942–951. https://doi.org/10.1016/S1473-3099(16)00129-8.
44. Cherukuri A, Patton K, Gasser RA, Jr, Zuo F, Woo J, Esser MT, Tang RS. 2013. Adults 65 years old and older have reduced numbers of functional memory T cells to respiratory syncytial virus fusion protein. Clin Vaccine Immunol 20:239–247. https://doi.org/10.1128/CVI.00580-12.
45. de Bree GJ, Heidema J, van Leeuwen EM, van Bleek GM, Jonkers RE, Jansen HM, van Lier RA, Out TA. 2005. Respiratory syncytial virus-specific CD8+ memory T cell responses in elderly persons. J Infect Dis 191:1710–1718. https://doi.org/10.1086/429695.
46. Chemaly RF, Shah DP, Boeckh MJ. 2014. Management of respiratory viral infections in hematopoietic cell transplant recipients and patients with hematologic malignancies. Clin Infect Dis 59:S344–S351. https://doi.org/10.1093/cid/ciu623.
47. Crooks BN, Taylor CE, Turner AJ, Osman HK, Abinun M, Flood TJ, Cant AJ. 2000. Respiratory viral infections in primary immune deficiencies: significance and relevance to clinical outcome in a single BMT unit. Bone Marrow Transplant 26:1097–1102. https://doi.org/10.1038/sj.bmt.1702656.
48. Esposito S, Molteni CG, Giliani S, Mazza C, Scala A, Tagliaferri L, Pelucchi C, Fossali E, Plebani A, Principi N. 2012. Toll-like receptor 3 gene polymorphisms and severity of pandemic A/H1N1/2009 influenza in otherwise healthy children. Virol J 9:270. https://doi.org/10.1186/1743-422X-9-270.
49. Tal G, Mandelberg A, Dalal I, Cesar K, Somekh E, Tal A, Oron A, Itskovich S, Ballin A, Houri S, Beigelman A, Lider O, Rechavi G, Amariglio N. 2004. Association between common Toll-like receptor 4 mutations and severe respiratory syncytial virus disease. J Infect Dis 189:2057–2063. https://doi.org/10.1086/420830.
50. Anderson HM, Lemanske RF, Jr, Evans MD, Gangnon RE, Pappas T, Grindle K, Bochkov YA, Gern JE, Jackson DJ. 2016. Assessment of wheezing frequency and viral etiology on childhood and adolescent asthma risk. J Allergy Clin Immunol https://doi.org/10.1016/j.jaci.2016.07.031.
51. Figueras-Aloy J, Manzoni P, Paes B, Simoes EA, Bont L, Checchia PA, Fauroux B, Carbonell-Estrany X. 2016. Defining the risk and associated morbidity and mortality of severe respiratory syncytial virus infection among preterm infants without chronic lung disease or congenital heart disease. Infect Dis Ther https://doi.org/10.1007/s40121-016-0130-1.
52. Oliveira-Santos M, Santos JA, Soares J, Dias A, Quaresma M. 2016. Influence of meteorological conditions on RSV infection in Portugal. Int J Biometeorol https://doi.org/10.1007/s00484-016-1168-1.
53. Simoes EA, Carbonell-Estrany X. 2003. Impact of severe disease caused by respiratory syncytial virus in children living in developed countries. Pediatr Infect Dis J 22:S13–S18. https://doi.org/10.1097/01.inf.0000053881.47279.d9.
54. Branche AR, Falsey AR. 2016. Parainfluenza virus infection. Semin Respir Crit Care Med 37:538–554. https://doi.org/10.1055/s-0036-1584798.
55. Sande MA, Gwaltney JM. 2004. Acute community-acquired bacterial sinusitis: continuing challenges and current management. Clin Infect Dis 39:S151–S158. https://doi.org/10.1086/421353.
56. DeMuri GP, Wald ER. 2012. Clinical practice. Acute bacterial sinusitis in children. N Engl J Med 367:1128–1134. https://doi.org/10.1056/NEJMcp1106638.
57. Huntzinger A. 2010. Guidelines for the diagnosis and management of hoarseness. Am Fam Physician 81:1292–1296.
58. Alcaide ML, Bisno AL. 2007. Pharyngitis and epiglottitis. Infect Dis Clin North Am 21:449–469. https://doi.org/10.1016/j.idc.2007.03.001.
59. Gerber MA. 2005. Diagnosis and treatment of pharyngitis in children. Pediatr Clin North Am 52:729–747. https://doi.org/10.1016/j.pcl.2005.02.004.
60. Fujishima H, Okamoto Y, Saito I, Tsubota K. 1995. Respiratory syncytial virus and allergic conjunctivitis. J Allergy Clin Immunol 95:663–667. https://doi.org/10.1016/S0091-6749(95)70169-9.
61. Binder AM, Biggs HM, Haynes AK, Chommanard C, Lu X, Erdman DD, Watson JT, Gerber SI. 2017. Human adenovirus surveillance—United States, 2003–2016. MMWR Morb Mortal Wkly Rep 66:1039–1042. https://doi.org/10.15585/mmwr.mm6639a2.
62. Hoyle E, Erez JC, Kirk-Granger HR, Collins E, Tang JW. 2016. An adenovirus 4 outbreak amongst staff in a pediatric ward manifesting as keratoconjunctivitis—a possible failure of contact and aerosol infection control. Am J Infect Control 44:602–604. https://doi.org/10.1016/j.ajic.2015.11.032.
63. Liu Q, Liu DY, Yang ZQ. 2013. Characteristics of human infection with avian influenza viruses and development of new antiviral agents. Acta Pharmacol Sin 34:1257–1269. https://doi.org/10.1038/aps.2013.121.
64. Vabret A, Mourez T, Dina J, van der Hoek L, Gouarin S, Petitjean J, Brouard J, Freymuth F. 2005. Human coronavirus NL63, France. Emerg Infect Dis 11:1225–1229. https://doi.org/10.3201/eid1108.050110.
65. Belser JA, Rota PA, Tumpey TM. 2013. Ocular tropism of respiratory viruses. Microbiol Mol Biol Rev 77:144–156. https://doi.org/10.1128/MMBR.00058-12.
66. Galiano M, Videla C, Puch SS, Martinez A, Echavarria M, Carballal G. 2004. Evidence of human metapneumovirus in children in Argentina. J Med Virol 72:299–303. https://doi.org/10.1002/jmv.10536.
67. Bulut Y, Guven M, Otlu B, Yenisehirli G, Aladag I, Eyibilen A, Dogru S. 2007. Acute otitis media and respiratory viruses. Eur J Pediatr 166: 223–228. https://doi.org/10.1007/s00431-006-0233-x.
68. Meissner HC. 2016. Viral bronchiolitis in children. N Engl J Med 374: 62–72. https://doi.org/10.1056/NEJMra1413456.
69. Hasegawa K, Tsugawa Y, Brown DF, Mansbach JM, Camargo CA, Jr. 2013. Trends in bronchiolitis hospitalizations in the United States, 2000-2009. Pediatrics 132:28–36. https://doi.org/10.1542/peds.2012-3877.
70. Ralston SL, Lieberthal AS, Meissner HC, Alverson BK, Baley JE, Gadomski AM, Johnson DW, Light MJ, Maraqa NF, Mendonca EA, Phelan KJ, Zorc JJ, Stanko-Lopp D, Brown MA, Nathanson I, Rosenblum E, Sayles S, III, Hernandez-Cancio S. 2014. Clinical practice guideline: the diagnosis, management, and prevention of bronchiolitis. Pediatrics 134: e1474–e1502. https://doi.org/10.1542/peds.2014-2742.
71. Xepapadaki P, Psarras S, Bossios A, Tsolia M, Gourgiotis D, Liapi-Adamidou G, Constantopoulos AG, Kafetzis D, Papadopoulos NG. 2004. Human metapneumovirus as a causative agent of acute bronchiolitis in infants. J Clin Virol 30:267–270. https://doi.org/10.1016/j.jcv.2003.12.012.
72. Wenzel RP, Fowler AA, III. 2006. Clinical practice. Acute bronchitis. N Engl J Med 355:2125–2130. https://doi.org/10.1056/NEJMcp061493.
73. Ivanovska V, Hek K, Mantel Teeuwisse AK, Leufkens HG, Nielen MM, van Dijk L. 2016. Antibiotic prescribing for children in primary care and adherence to treatment guidelines. J Antimicrob Chemother 71: 1707–1714. https://doi.org/10.1093/jac/dkw030.
74. Macfarlane J, Holmes W, Gard P, Macfarlane R, Rose D, Weston V, Leinonen M, Saikku P, Myint S. 2001. Prospective study of the incidence, aetiology and outcome of adult lower respiratory tract illness in the community. Thorax 56:109–114. https://doi.org/10.1136/thorax.56.2.109.
75. Dekker AR, Verheij TJ, van der Velden AW. 2015. Inappropriate antibiotic prescription for respiratory tract indications: most prominent in adult patients. Fam Pract 32:401–407. https://doi.org/10.1093/fampra/cmv019.
76. Albert RH. 2010. Diagnosis and treatment of acute bronchitis. Am Fam Physician 82:1345–1350.
77. Scott JA, Wonodi C, Moisi JC, Deloria-Knoll M, DeLuca AN, Karron RA, Bhat N, Murdoch DR, Crawley J, Levine OS, O’Brien KL, Feikin DR. 2012. The definition of pneumonia, the assessment of severity, and clinical standardization in the Pneumonia Etiology Research for Child Health study. Clin. Infect Dis 54(Suppl 2):S109–S116. https://doi.org/10.1093/cid/cir1065.
78. Musher DM, Thorner AR. 2014. Community-acquired pneumonia. N Engl J Med 371:1619–1628. https://doi.org/10.1056/NEJMra1312885.
79. Mandell LA, Wunderink RG, Anzueto A, Bartlett JG, Campbell GD, Dean NC, Dowell SF, File TM, Jr, Musher DM, Niederman MS, Torres A, Whitney CG. 2007. Infectious Diseases Society of America/American Thoracic Society consensus guidelines on the management of community-acquired pneumonia in adults. Clin Infect Dis 44(Suppl 2):S27–S72. https://doi.org/10.1086/511159.
80. Ruuskanen O, Lahti E, Jennings LC, Murdoch DR. 2011. Viral pneumo-nia. Lancet 377:1264–1275. https://doi.org/10.1016/S0140-6736(10) 61459-6.
81. Jain S, Self WH, Wunderink RG. 2015. Community-acquired pneumonia requiring hospitalization. N Engl J Med 373:2382. https://doi.org/10.1056/NEJMc1511751.
82. Capps B, Lederman Z. 2015. One Health and paradigms of public biobank-ing. J Med Ethics 41:258–262. https://doi.org/10.1136/medethics-2013-101828.
83. Memish ZA, Cotten M, Meyer B, Watson SJ, Alsahafi AJ, Al Rabeeah AA, Corman VM, Sieberg A, Makhdoom HQ, Assiri A, Al MM, Aldabbagh S, Bosch BJ, Beer M, Muller MA, Kellam P, Drosten C. 2014. Human infection with MERS coronavirus after exposure to infected camels, Saudi Arabia, 2013. Emerg Infect Dis 20:1012–1015. https://doi.org/10.3201/eid2006.140402.
84. Bowman AS, Walia RR, Nolting JM, Vincent AL, Killian ML, Zentkovich MM, Lorbach JN, Lauterbach SE, Anderson TK, Davis CT, Zanders N, Jones J, Jang Y, Lynch B, Rodriguez MR, Blanton L, Lindstrom SE, Wentworth DE, Schiltz J, Averill JJ, Forshey T. 2017. Influenza A(H3N2) virus in swine at agricultural fairs and transmission to humans, Michigan and Ohio, USA, 2016. Emerg Infect Dis 23:1551–1555. https://doi.org/10.3201/eid2309.170847.
85. Chen M, Chen M, Tan Y. 2017. 2017. An avian influenza A (H7N9) virus with polybasic amino acid insertion was found in human infection in southern China, Guangxi, February 2017. Infect Dis (Lond) 50:71–74. https://doi.org/10.1080/23744235.2017.1355105.
86. Song HD, Tu CC, Zhang GW, Wang SY, Zheng K, Lei LC, Chen QX, Gao YW, Zhou HQ, Xiang H, Zheng HJ, Chern SW, Cheng F, Pan CM, Xuan H, Chen SJ, Luo HM, Zhou DH, Liu YF, He JF, Qin PZ, Li LH, Ren YQ, Liang WJ, Yu YD, Anderson L, Wang M, Xu RH, Wu XW, Zheng HY, Chen JD, Liang G, Gao Y, Liao M, Fang L, Jiang LY, Li H, Chen F, Di B, He LJ, Lin JY, Tong S, Kong X, Du L, Hao P, Tang H, Bernini A, Yu XJ, Spiga O, Guo ZM, Pan HY, He WZ, Manuguerra JC, Fontanet A, Danchin A, Niccolai N, Li YX, Wu CI, Zhao GP. 2005. Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human. Proc Natl Acad Sci USA102:2430–2435. https://doi.org/10.1073/pnas.0409608102.
87. Li W, Wong SK, Li F, Kuhn JH, Huang IC, Choe H, Farzan M. 2006. Animal origins of the severe acute respiratory syndrome coronavirus: insight from ACE2-S-protein interactions. J Virol 80:4211–4219. https://doi.org/10.1128/JVI.80.9.4211-4219.2006.
88. Sleeman JM, DeLiberto T, Nguyen N. 2017. Optimization of human, animal, and environmental health by using the One Health approach. J Vet Sci 18:263–268. https://doi.org/10.4142/jvs.2017.18.S1.263.
89. Gray GC, Trampel DW, Roth JA. 2007. Pandemic influenza planning: shouldn’t swine and poultry workers be included? Vaccine 25: 4376–4381. https://doi.org/10.1016/j.vaccine.2007.03.036.
90. Fanoy EB, van der Sande MA, Kraaij-Dirkzwager M, Dirksen K, Jonges M, van der Hoek W, Koopmans MP, van der Werf D, Sonder G, van der Weijden C, van der Heuvel J, Gelinck L, Bouwhuis JW, van Gageldonk-Lafeber AB. 2014. Travel-related MERS-CoV cases: an assessment of exposures and risk factors in a group of Dutch travellers returning from the Kingdom of Saudi Arabia, May 2014. Emerg Themes Epidemiol 11:16. https://doi.org/10.1186/1742-7622-11-16.
91. Funk AL, Goutard FL, Miguel E, Bourgarel M, Chevalier V, Faye B, Peiris JS, Van Kerkhove MD, Roger FL. 2016. MERS-CoV at the animal-human interface: inputs on exposure pathways from an expert-opinion elici-tation. Front Vet Sci 3:88. https://doi.org/10.3389/fvets.2016.00088.
92. Korean Society of Infectious Diseases and Korean Society for Healthcare-associated Infection Control and Prevention. 2015. An unexpected outbreak of Middle East respiratory syndrome coronavirus infection in the Republic of Korea, 2015. Infect Chemother 47:120–122. https://doi.org/10.3947/ic.2015.47.2.120.
93. Bradley JS, Byington CL, Shah SS, Alverson B, Carter ER, Harrison C, Kaplan SL, Mace SE, McCracken GH, Jr, Moore MR, St Peter SD, Stock-well JA, Swanson JT. 2011. The management of community-acquired pneumonia in infants and children older than 3 months of age: clinical practice guidelines by the Pediatric Infectious Diseases Society and the Infectious Diseases Society of America. Clin Infect Dis 53:e25–e76. https://doi.org/10.1093/cid/cir531.
94. Committee on Infectious Diseases. 2009. From the American Academy of Pediatrics: policy statements—modified recommendations for use of palivizumab for prevention of respiratory syncytial virus infections. Pediatrics 124:1694–1701. https://doi.org/10.1542/peds.2009-2345.
95. Bronchiolitis Guidelines Committee. 2014. Updated guidance for palivizumab prophylaxis among infants and young children at increased risk of hospitalization for respiratory syncytial virus infection. Pediatrics 134:415–420. https://doi.org/10.1542/peds.2014-1665.
96. Harper SA, Bradley JS, Englund JA, File TM, Gravenstein S, Hayden FG, McGeer AJ, Neuzil KM, Pavia AT, Tapper ML, Uyeki TM, Zimmerman RK. 2009. Seasonal influenza in adults and children—diagnosis, treatment, chemoprophylaxis, and institutional outbreak management: clinical practice guidelines of the Infectious Diseases Society of America. Clin Infect Dis 48:1003–1032. https://doi.org/10.1086/598513.
97. Chow AW, Benninger MS, Brook I, Brozek JL, Goldstein EJ, Hicks LA, Pankey GA, Seleznick M, Volturo G, Wald ER, File TM, Jr. 2012. IDSA clinical practice guideline for acute bacterial rhinosinusitis in children and adults. Clin Infect Dis 54:e72–e112. https://doi.org/10.1093/cid/cis370.
98. Blumberg EA, Danziger-Isakov L, Kumar D, Michaels MG, Razonable RR. 2013. Foreword: guidelines 3. Am J Transplant 13(Suppl 4):1–2. https://doi.org/10.1111/ajt.12129.
99. Manuel O, Estabrook M. 2013. RNA respiratory viruses in solid organ transplantation. Am J Transplant 13(Suppl 4):212–219. https://doi.org/10.1111/ajt.12113.
100. Florescu DF, Hoffman JA. 2013. Adenovirus in solid organ transplantation. Am J Transplant 13(Suppl 4):206–211. https://doi.org/10.1111/ajt.12112.
101. Tomblyn M, Chiller T, Einsele H, Gress R, Sepkowitz K, Storek J, Wingard JR, Young JA, Boeckh MJ. 2009. Guidelines for preventing infectious complications among hematopoietic cell transplantation recipients: a global perspective. Biol Blood Marrow Transplant 15: 1143–1238. https://doi.org/10.1016/j.bbmt.2009.06.019.
102. Hirsch HH, Martino R, Ward KN, Boeckh M, Einsele H, Ljungman P. 2013. Fourth European Conference on Infections in Leukaemia (ECIL-4): guidelines for diagnosis and treatment of human respiratory syncytial virus, parainfluenza virus, metapneumovirus, rhinovirus, and coronavirus. Clin Infect Dis 56:258–266. https://doi.org/10.1093/cid/cis844.
103. von Lilienfeld-Toal M, Berger A, Christopeit M, Hentrich M, Heussel CP, Kalkreuth J, Klein M, Kochanek M, Penack O, Hauf E, Rieger C, Silling G, Vehreschild M, Weber T, Wolf HH, Lehners N, Schalk E, Mayer K. 2016. Community acquired respiratory virus infections in cancer patients— guideline on diagnosis and management by the Infectious Diseases Working Party of the German Society for haematology and Medical Oncology. Eur J Cancer 67:200–212. https://doi.org/10.1016/j.ejca.2016.08.015.
104. Abraham MK, Perkins J, Vilke GM, Coyne CJ. 2016. Influenza in the emergency department: vaccination, diagnosis, and treatment: clinical practice paper approved by American Academy of Emergency Medicine Clinical Guidelines Committee. J Emerg Med 50:536–542. https://doi.org/10.1016/j.jemermed.2015.10.013.
105. US Centers for Disease Control and Prevention. 6 March 2018. Unexplained respiratory disease outbreaks (URDO). https://www.cdc.gov/flu/professionals/diagnosis/rapidlab.htm.
106. Mangiri A, Iuliano AD, Wahyuningrum Y, Praptiningsih CY, Lafond KE, Storms AD, Samaan G, Ariawan I, Soeharno N, Kreslake JM, Storey JD, Uyeki TM. 2017. Physician’s knowledge, attitudes, and practices regarding seasonal influenza, pandemic influenza, and highly pathogenic avian influenza A (H5N1) virus infections of humans in Indonesia. Influenza Other Respir Viruses 11:93–99. https://doi.org/10.1111/irv.12428.
107. Xiang N, Li X, Ren R, Wang D, Zhou S, Greene CM, Song Y, Zhou L, Yang L, Davis CT, Zhang Y, Wang Y, Zhao J, Li X, Iuliano AD, Havers F, Olsen SJ, Uyeki TM, Azziz-Baumgartner E, Trock S, Liu B, Sui H, Huang X, Zhang Y, Ni D, Feng Z, Shu Y, Li Q. 2016. Assessing change in avian influenza A(H7N9) virus infections during the fourth epidemic—China, September 2015-August 2016. MMWR Morb Mortal Wkly Rep 65: 1390–1394. https://doi.org/10.15585/mmwr.mm6549a2.
108. Yang L, Zhu W, Li X, Bo H, Zhang Y, Zou S, Gao R, Dong J, Zhao X, Chen W, Dong L, Zou X, Xing Y, Wang D, Shu Y. 2016. Genesis and dissemination of highly pathogenic H5N6 avian influenza viruses. J Virol https://doi.org/10.1128/JVI.02199-16.
109. Bermingham A, Chand MA, Brown CS, Aarons E, Tong C, Langrish C, Hoschler K, Brown K, Galiano M, Myers R, Pebody RG, Green HK, Boddington NL, Gopal R, Price N, Newsholme W, Drosten C, Fouchier RA, Zambon M. 2012. Severe respiratory illness caused by a novel coronavirus, in a patient transferred to the United Kingdom from the Middle East, September 2012. Euro Surveill 17:20290.
110. Peiris JS, Lai ST, Poon LL, Guan Y, Yam LY, Lim W, Nicholls J, Yee WK, Yan WW, Cheung MT, Cheng VC, Chan KH, Tsang DN, Yung RW, Ng TK, Yuen KY. 2003. Coronavirus as a possible cause of severe acute respiratory syndrome. Lancet 361:1319–1325. https://doi.org/10.1016/S0140-6736 (03)13077-2.
111. US Centers for Disease Control and Prevention. 2014. Avian influenza A virus infections in humans. https://www.cdc.gov/flu/avianflu/avian-in-humans.htm.
112. US Centers for Disease Control and Prevention. 14 September 2017. Interim guidelines for collecting, handling, and testing clinical specimens from patients under investigation (PUIs) for Middle East respiratory syndrome coronavirus (MERS-CoV)—version 2.1. https://www.cdc.gov/coronavirus/mers/guidelines-clinical-specimens.html.
113. US Centers for Disease Control and Prevention. January 2014. Interim laboratory biosafety guidelines for handling and processing specimens associated with Middle East respiratory syndrome coronavirus (MERS-CoV)—version 2. https://www.cdc.gov/coronavirus/mers/guidelines-lab-biosafety.html.
114. US Centers for Disease Control and Prevention. June 2015. Interim laboratory biosafety guidelines for handling and processing specimens associated with Middle East respiratory syndrome coronavirus (MERS-CoV)—version 2.1. https://www.cdc.gov/coronavirus/mers/downloads/Guidelines-Clinical-Specimens.pdf.
115. Reference deleted.
116. US Centers for Disease Control and Prevention. 8 May 2018. Interim guidance on testing, specimen collection, and processing for patients with suspected infection with novel influenza A viruses with the potential to cause severe disease in humans. https://www.cdc.gov/flu/avianflu/severe-potential.htm.
117. World Health Organization. 22 February 2018. Human infection with avian influenza A(H7N4) virus—China. http://www.who.int/csr/don/22-february-2018-ah7n4-china/en/.
118. LaRocque RC, Ryan ET. 2016. The pre-travel consultation: respiratory infections, p 78–80. In Brunette GW, Kvozarsky PE, Cohen MJ, Gershman MD, Magill AJ, Ostroff SM, Ryan ET, Shlim DR, Weinberg M, Wilson ME, O’Sullivan MC (ed), CDC health information for international travel 2016. Oxford University Press, New York, NY, USA.
119. Epperson S, Bresee J. 2016. Infectious diseases related to travel, p 211–218. In Brunette GW, Kvozarsky PE, Cohen MJ, Gershman MD, Magill AJ, Ostroff SM, Ryan ET, Shlim DR, Weinberg M, Wilson ME, O’Sullivan MC (ed), CDC health information for international travel 2016. Oxford University Press, New York, NY, USA.
120. Cho SY, Kang JM, Ha YE, Park GE, Lee JY, Ko JH, Lee JY, Kim JM, Kang CI, Jo IJ, Ryu JG, Choi JR, Kim S, Huh HJ, Ki CS, Kang ES, Peck KR, Dhong HJ, Song JH, Chung DR, Kim YJ. 2016. MERS-CoV outbreak following a single patient exposure in an emergency room in South Korea: an epidemiological outbreak study. Lancet 388:994–1001. https://doi.org/10.1016/S0140-6736(16)30623-7.
121. Kim SW, Park JW, Jung HD, Yang JS, Park YS, Lee C, Kim KM, Lee KJ, Kwon D, Hur YJ, Choi BY, Ki M. 2016. Risk factors for transmission of Middle East respiratory syndrome coronavirus infection during the 2015 outbreak in South Korea. Clin Infect Dis 64:551–557. https://doi.org/10.1093/cid/ciw768.
122. Kim Y, Lee S, Chu C, Choe S, Hong S, Shin Y. 2016. The characteristics of Middle Eastern respiratory syndrome coronavirus transmission dynamics in South Korea. Osong Public Health Res Perspect 7:49–55. https://doi.org/10.1016/j.phrp.2016.01.001.
123. Ginocchio CC, McAdam AJ. 2011. Current best practices for respiratory virus testing. J Clin Microbiol 49:S44–S48. https://doi.org/10.1128/JCM.00698-11.
124. Hall CB, Geiman JM, Biggar R, Kotok DI, Hogan PM, Douglas GR, Jr. 1976. Respiratory syncytial virus infections within families. N Engl J Med 294:414–419. https://doi.org/10.1056/NEJM197602192940803.
125. Munywoki PK, Koech DC, Agoti CN, Kibirige N, Kipkoech J, Cane PA, Medley GF, Nokes DJ. 2015. Influence of age, severity of infection, and co-infection on the duration of respiratory syncytial virus (RSV) shedding. Epidemiol Infect 143:804–812. https://doi.org/10.1017/S0950268814001393.
126. Talaat KR, Karron RA, Thumar B, McMahon BA, Schmidt AC, Collins PL, Buchholz UJ. 2013. Experimental infection of adults with recombinant wild-type human metapneumovirus. J Infect Dis 208:1669–1678. https://doi.org/10.1093/infdis/jit356.
127. Granados A, Luinstra K, Chong S, Goodall E, Banh L, Mubareka S, Smieja M, Mahony J. 2012. Use of an improved quantitative polymerase chain reaction assay to determine differences in human rhinovirus viral loads in different populations. Diagn Microbiol Infect Dis 74:384–387. https:// doi.org/10.1016/j.diagmicrobio.2012.08.023.
128. Matsuzaki Y, Mizuta K, Takashita E, Okamoto M, Itagaki T, Katsushima F, Katsushima Y, Nagai Y, Nishimura H. 2010. Comparison of virus isolation using the Vero E6 cell line with real-time RT-PCR assay for the detection of human metapneumovirus. BMC Infect Dis 10:170. https://doi.org/10.1186/1471-2334-10-170.
129. Ip DK, Lau LL, Leung NH, Fang VJ, Chan KH, Chu DK, Leung GM, Peiris JS, Uyeki TM, Cowling BJ. 2016. Viral shedding and transmission potential of asymptomatic and pauci-symptomatic influenza virus infections in the community. Clin Infect Dis 64:736–742. https://doi.org/10.1093/cid/ciw841.
130. Kalu SU, Loeffelholz M, Beck E, Patel JA, Revai K, Fan J, Henrickson KJ, Chonmaitree T. 2010. Persistence of adenovirus nucleic acids in nasopharyngeal secretions. A diagnostic conundrum. Pediatr Infect Dis J 29:746–750. https://doi.org/10.1097/INF.0b013e3181d743c8.
131. Loeffelholz MJ, Trujillo R, Pyles RB, Miller AL, Alvarez-Fernandez P, Pong DL, Chonmaitree T. 2014. Duration of rhinovirus shedding in the upper respiratory tract in the first year of life. Pediatrics 134:1144–1150. https://doi.org/10.1542/peds.2014-2132.
132. Okiro EA, White LJ, Ngama M, Cane PA, Medley GF, Nokes DJ. 2010. Duration of shedding of respiratory syncytial virus in a community study of Kenyan children. BMC Infect Dis 10:15. https://doi.org/10.1186/1471-2334-10-15.
133. Han J, Ma XJ, Wan JF, Liu YH, Han YL, Chen C, Tian C, Gao C, Wang M, Dong XP. 2010. Long persistence of EV71 specific nucleotides in respiratory and feces samples of the patients with hand-foot-mouth disease after recovery. BMC Infect Dis 10:178. https://doi.org/10.1186/1471-2334-10-178.
134. Gerna G, Piralla A, Rovida F, Rognoni V, Marchi A, Locatelli F, Meloni F. 2009. Correlation of rhinovirus load in the respiratory tract and clinical symptoms in hospitalized immunocompetent and immunocompromised patients. J Med Virol 81:1498–1507. https://doi.org/10.1002/jmv.21548.
135. Takeyama A, Hashimoto K, Sato M, Kawashima R, Kawasaki Y, Hosoya M. 2016. Respiratory syncytial virus shedding by children hospitalized with lower respiratory tract infection. J Med Virol 88:938–946. https://doi.org/10.1002/jmv.24434.
136. Jartti T, Lehtinen P, Vuorinen T, Koskenvuo M, Ruuskanen O. 2004. Persistence of rhinovirus and enterovirus RNA after acute respiratory illness in children. J Med Virol 72:695–699. https://doi.org/10.1002/jmv.20027.
137. Walsh EE, Peterson DR, Kalkanoglu AE, Lee FE, Falsey AR. 2013. Viral shedding and immune responses to respiratory syncytial virus infection in older adults. J Infect Dis 207:1424–1432. https://doi.org/10.1093/infdis/jit038.
138. Lehners N, Tabatabai J, Prifert C, Wedde M, Puthenparambil J, Weiss-brich B, Biere B, Schweiger B, Egerer G, Schnitzler P. 2016. Long-term shedding of influenza virus, parainfluenza virus, respiratory syncytial virus and nosocomial epidemiology in patients with hematological disorders. PLoS One 11:e0148258. https://doi.org/10.1371/journal.pone.0148258.
139. Richardson L, Brite J, Del CM, Childers T, Sheahan A, Huang YT, Dough-erty E, Babady NE, Sepkowitz K, Kamboj M. 2015. Comparison of respiratory virus shedding by conventional and molecular testing methods in patients with haematological malignancy. Clin Microbiol Infect 22:380.e1–380.e7. https://doi.org/10.1016/j.cmi.2015.12.012.
140. Mubareka S, Lowen AC, Steel J, Coates AL, Garcia-Sastre A, Palese P. 2009. Transmission of influenza virus via aerosols and fomites in the guinea pig model. J Infect Dis 199:858–865.
141. Tran K, Cimon K, Severn M, Pessoa-Silva CL, Conly J. 2012. Aerosol generating procedures and risk of transmission of acute respiratory infections to healthcare workers: a systematic review. PLoS One 7:e35797. https://doi.org/10.1371/journal.pone.0035797.
142. Seto WH. 2015. Airborne transmission and precautions: facts and myths. J Hosp Infect 89:225–228. https://doi.org/10.1016/j.jhin.2014.11.005.
143. Peterson K, Novak D, Stradtman L, Wilson D, Couzens L. 2015. Hospital respiratory protection practices in 6 U.S. states: a public health evaluation study. Am J Infect Control 43:63–71. https://doi.org/10.1016/j.ajic.2014.10.008.
144. Gralton JM, McLaws L. 2010. Protecting healthcare workers from pandemic influenza: N95 or surgical masks? Crit Care Med 38:657–667.
145. Canadian Agency for Drugs and Technologies in Health. 19 August 2014. Respiratory precautions for protection from bioaerosols or infectious agents: a review of the clinical effectiveness and guidelines. https://www.cadth.ca/media/pdf/htis/dec-2014/RC0576 %20Respirator%20Effectiveness%20final.pdf.
146. Lindsley WG, King WP, Thewlis RE, Reynolds JS, Panday K, Cao G, Szalajda JV. 2012. Dispersion and exposure to a cough-generated aerosol in a simulated medical examination room. J Occup Environ Hyg 9:681–690. https://doi.org/10.1080/15459624.2012.725986.
147. US Centers for Disease Control and Prevention. 3 June 2018. Influenza specimen collection. https://www.cdc.gov/flu/pdf/freeresources/health care/flu-specimen-collection-guide.pdf.
148. Baden LR, Drazen JM, Kritek PA, Curfman GD, Morrissey S, Campion EW. 2009. H1N1 influenza A disease—information for health professionals. N Engl J Med 360:2666–2667. https://doi.org/10.1056/NEJMe0903992.
149. Ali M, Han S, Gunst CJ, Lim S, Luinstra K, Smieja M. 2015. Throat and nasal swabs for molecular detection of respiratory viruses in acute pharyngitis. Virol J 12:178. https://doi.org/10.1186/s12985-015-0408-z.
150. Dawood FS, Jara J, Estripeaut D, Vergara O, Luciani K, Corro M, de LT, Saldana R, Castillo Baires JM, Rauda FR, Cazares RA, Brizuela de Fuentes YS, Franco D, Gaitan M, Schneider E, Berman L, Azziz-Baumgartner E, Widdowson MA. 2015. What is the added benefit of oropharyngeal swabs compared to nasal swabs alone for respiratory virus detection in hospitalized children aged <10 years? J Infect Dis 212:1600–1603. https://doi.org/10.1093/infdis/jiv265.
151. de la Tabla VO, Masia M, Antequera P, Martin C, Gazquez G, Bunuel F, Gutierrez F. 2010. Comparison of combined nose-throat swabs with nasopharyngeal aspirates for detection of pandemic influenza A/H1N1 2009 virus by real-time reverse transcriptase PCR. J Clin Microbiol 48:3492–3495. https://doi.org/10.1128/JCM.01105-10.
152. Hammitt LL, Kazungu S, Welch S, Bett A, Onyango CO, Gunson RN, Scott JA, Nokes DJ. 2011. Added value of an oropharyngeal swab in detection of viruses in children hospitalized with lower respiratory tract infection. J Clin Microbiol 49:2318–2320. https://doi.org/10.1128/JCM.02605-10.
153. Kim C, Ahmed JA, Eidex RB, Nyoka R, Waiboci LW, Erdman D, Tepo A, Mahamud AS, Kabura W, Nguhi M, Muthoka P, Burton W, Breiman RF, Njenga MK, Katz MA. 2011. Comparison of nasopharyngeal and oropharyngeal swabs for the diagnosis of eight respiratory viruses by real-time reverse transcription-PCR assays. PLoS One 6:e21610. https://doi.org/10.1371/journal.pone.0021610.
154. Lieberman D, Lieberman D, Shimoni A, Keren-Naus A, Steinberg R, Shemer-Avni Y. 2009. Identification of respiratory viruses in adults: nasopharyngeal versus oropharyngeal sampling. J Clin Microbiol 47: 3439–3443. https://doi.org/10.1128/JCM.00886-09.
155. Spencer S, Gaglani M, Naleway A, Reynolds S, Ball S, Bozeman S, Henkle E, Meece J, Vandermause M, Clipper L, Thompson M. 2013. Consistency of influenza A virus detection test results across respiratory specimen collection methods using real-time reverse transcription-PCR. J Clin Microbiol 51:3880–3882. https://doi.org/10.1128/JCM.01873-13.
156. Zhou J, Li C, Zhao G, Chu H, Wang D, Yan HH, Poon VK, Wen L, Wong BH, Zhao X, Chiu MC, Yang D, Wang Y, Au-Yeung RKH, Chan IH, Sun S, Chan JF, To KK, Memish ZA, Corman VM, Drosten C, Hung IF, Zhou Y, Leung SY, Yuen KY. 2017. Human intestinal tract serves as an alternative infection route for Middle East respiratory syndrome coronavirus. Sci Adv 3:eaao4966. https://doi.org/10.1126/sciadv.aao4966.
157. Kim SY, Park SJ, Cho SY, Cha RH, Jee HG, Kim G, Shin HS, Kim Y, Jung YM, Yang JS, Kim SS, Cho SI, Kim MJ, Lee JS, Lee SJ, Seo SH, Park SS, Seong MW. 2016. Viral RNA in blood as indicator of severe outcome in Middle East respiratory syndrome coronavirus infection. Emerg Infect Dis 22:1813–1816. https://doi.org/10.3201/eid2210.160218.
158. Zhu Z, Liu Y, Xu L, Guan W, Zhang X, Qi T, Shi B, Song Z, Liu X, Wan Y, Tian D, He J, Zhang X, Wu M, Lu H, Lu S, Zhang Z, Yuan Z, Hu Y. 2015. Extra-pulmonary viral shedding in H7N9 avian influenza patients. J Clin Virol 69:30–32. https://doi.org/10.1016/j.jcv.2015.05.013.
159. Meerhoff TJ, Houben ML, Coenjaerts FE, Kimpen JL, Hofland RW, Schel-levis F, Bont LJ. 2010. Detection of multiple respiratory pathogens during primary respiratory infection: nasal swab versus nasopharyngeal aspirate using real-time polymerase chain reaction. Eur J Clin Microbiol Infect Dis 29:365–371. https://doi.org/10.1007/s10096-009-0865-7.
160. Tunsjo HS, Berg AS, Inchley CS, Roberg IK, Leegaard TM. 2015. Comparison of nasopharyngeal aspirate with flocked swab for PCR-detection of respiratory viruses in children. APMIS 123:473–477. https://doi.org/10.1111/apm.12375.
161. Hernes SS, Quarsten H, Hamre R, Hagen E, Bjorvatn B, Bakke PS. 2013. A comparison of nasopharyngeal and oropharyngeal swabbing for the detection of influenza virus by real-time PCR. Eur J Clin Microbiol Infect Dis 32:381–385. https://doi.org/10.1007/s10096-012-1753-0.
162. Rawlinson WD, Waliuzzaman ZM, Fennell M, Appleman JR, Shimasaki CD, Carter IW. 2004. New point of care test is highly specific but less sensitive for influenza virus A and B in children and adults. J Med Virol 74:127–131. https://doi.org/10.1002/jmv.20155.
163. Spyridaki IS, Christodoulou I, de Beer L, Hovland V, Kurowski M, Olszewska-Ziaber A, Carlsen KH, Lodrup-Carlsen K, van Drunen CM, Kowalski ML, Molenkamp R, Papadopoulos NG. 2009. Comparison of four nasal sampling methods for the detection of viral pathogens by RT-PCR-A GA(2)LEN project. J Virol Methods 156:102–106. https://doi.org/10.1016/j.jviromet.2008.10.027.
164. Heikkinen T, Salmi AA, Ruuskanen O. 2001. Comparative study of nasopharyngeal aspirate and nasal swab specimens for detection of influenza. BMJ 322:138.
165. Ipp M, Carson S, Petric M, Parkin PC. 2002. Rapid painless diagnosis of viral respiratory infection. Arch Dis Child 86:372–373.
166. Akmatov MK, Gatzemeier A, Schughart K, Pessler F. 2012. Equivalence of self-and staff-collected nasal swabs for the detection of viral respiratory pathogens. PLoS One 7:e48508. https://doi.org/10.1371/journal.pone.0048508.
167. Abu-Diab A, Azzeh M, Ghneim R, Ghneim R, Zoughbi M, Turkuman S, Rishmawi N, Issa AE, Siriani I, Dauodi R, Kattan R, Hindiyeh MY. 2008. Comparison between pernasal flocked swabs and nasopharyngeal aspirates for detection of common respiratory viruses in samples from children. J Clin Microbiol 46:2414–2417. https://doi.org/10.1128/JCM.00369-08.
168. Daley P, Castriciano S, Chernesky M, Smieja M. 2006. Comparison of flocked and rayon swabs for collection of respiratory epithelial cells from uninfected volunteers and symptomatic patients. J Clin Microbiol 44:2265–2267. https://doi.org/10.1128/JCM.02055-05.
169. Smieja M, Castriciano S, Carruthers S, So G, Chong S, Luinstra K, Mahony JB, Petrich A, Chernesky M, Savarese M, Triva D. 2010. Development and evaluation of a flocked nasal midturbinate swab for self-collection in respiratory virus infection diagnostic testing. J Clin Microbiol 48: 3340–3342. https://doi.org/10.1128/JCM.02235-09.
170. Larios OE, Coleman BL, Drews SJ, Mazzulli T, Borgundvaag B, Green K, McGeer AJ. 2011. Self-collected mid-turbinate swabs for the detection of respiratory viruses in adults with acute respiratory illnesses. PLoS One 6:e21335. https://doi.org/10.1371/journal.pone.0021335.
171. Faden H. 2010. Comparison of midturbinate flocked-swab specimens with nasopharyngeal aspirates for detection of respiratory viruses in children by the direct fluorescent antibody technique. J Clin Microbiol 48:3742–3743. https://doi.org/10.1128/JCM.01520-10.
172. Scansen KA, Bonsu BK, Stoner E, Mack K, Salamon D, Leber A, Marcon MJ. 2010. Comparison of polyurethane foam to nylon flocked swabs for collection of secretions from the anterior nares in performance of a rapid influenza virus antigen test in a pediatric emergency department. J Clin Microbiol 48:852–856. https://doi.org/10.1128/JCM.01897-09.
173. Ng DL, Al HF, Keating MK, Gerber SI, Jones TL, Metcalfe MG, Tong S, Tao Y, Alami NN, Haynes LM, Mutei MA, Abdel-Wareth L, Uyeki TM, Swerd-low DL, Barakat M, Zaki SR. 2016. Clinicopathologic, immunohisto-chemical, and ultrastructural findings of a fatal case of Middle East respiratory syndrome coronavirus infection in the United Arab Emirates, April 2014. Am J Pathol 186:652–658. https://doi.org/10.1016/j.ajpath.2015.10.024.
174. Sung H, Yong D, Ki CS, Kim JS, Seong MW, Lee H, Kim MN. 2016. Comparative evaluation of three homogenization methods for isolating Middle East respiratory syndrome coronavirus nucleic acids from sputum samples for real-time reverse transcription PCR. Ann Lab Med 36:457–462. https://doi.org/10.3343/alm.2016.36.5.457.
175. Gadsby NJ, Russell CD, McHugh MP, Mark H, Conway MA, Laurenson IF, Hill AT, Templeton KE. 2016. Comprehensive molecular testing for respiratory pathogens in community-acquired pneumonia. Clin Infect Dis 62:817–823. https://doi.org/10.1093/cid/civ1214.
176. Hammitt LL, Murdoch DR, Scott JA, Driscoll A, Karron RA, Levine OS, O’Brien KL. 2012. Specimen collection for the diagnosis of pediatric pneumonia. Clin Infect Dis 54(Suppl 2):S132–S139. https://doi.org/10.1093/cid/cir1068.
177. Troxell ML, Lanciault C. 2016. Practical applications in immuno-histochemistry: evaluation of rejection and infection in organ trans-plantation. Arch Pathol Lab Med 140:910–925. https://doi.org/10.5858/arpa.2015-0275-CP.
178. Branche AR, Walsh EE, Formica MA, Falsey AR. 2014. Detection of respiratory viruses in sputum from adults by use of automated multiplex PCR. J Clin Microbiol 52:3590–3596. https://doi.org/10.1128/JCM.01523-14.
179. Jeong JH, Kim KH, Jeong SH, Park JW, Lee SM, Seo YH. 2014. Comparison of sputum and nasopharyngeal swabs for detection of respiratory viruses. J Med Virol 86:2122–2127. https://doi.org/10.1002/jmv.23937.
180. Falsey AR, Formica MA, Walsh EE. 2012. Yield of sputum for viral detection by reverse transcriptase PCR in adults hospitalized with respiratory illness. J Clin Microbiol 50:21–24. https://doi.org/10.1128/JCM.05841-11.
181. Brasel T, Madhusudhan KT, Agans K, Dearen K, Jones SL, Sherwood RL. 2015. Performance evaluation of Puritan(R) universal transport system (UniTranz-RT) for preservation and transport of clinical viruses. J Med Virol 87:1796–1805. https://doi.org/10.1002/jmv.24236.
182. Kanwar N, Hassan F, Nguyen A, Selvarangan R. 2015. Head-to-head comparison of the diagnostic accuracies of BD Veritor System RSV and Quidel(R) Sofia(R) RSV FIA systems for respiratory syncytial virus (RSV) diagnosis. J Clin Virol 65:83–86. https://doi.org/10.1016/j.jcv.2015.02.008.
183. Schlaudecker EP, Heck JP, MacIntyre ET, Martinez R, Dodd CN, McNeal MM, Staat MA, Heck JE, Steinhoff MC. 2014. Comparison of a new transport medium with universal transport medium at a tropical field site. Diagn Microbiol Infect Dis 80:107–110. https://doi.org/10.1016/j.diagmicrobio.2014.05.018.
184. Emerson J, Cochrane E, McNamara S, Kuypers J, Gibson RL, Campbell AP. 2013. Home self-collection of nasal swabs for diagnosis of acute respiratory virus infections in children with cystic fibrosis. J Pediatric Infect Dis Soc 2:345–351. https://doi.org/10.1093/jpids/pit039.
185. Luinstra K, Petrich A, Castriciano S, Ackerman M, Chong S, Carruthers S, Ammons B, Mahony JB, Smieja M. 2011. Evaluation and clinical validation of an alcohol-based transport medium for preservation and inac-tivation of respiratory viruses. J Clin Microbiol 49:2138–2142. https://doi.org/10.1128/JCM.00327-11.
186. Campbell AP, Kuypers J, Englund JA, Guthrie KA, Corey L, Boeckh M. 2013. Self-collection of foam nasal swabs for respiratory virus detection by PCR among immunocompetent subjects and hematopoietic cell transplant recipients. J Clin Microbiol 51:324–327. https://doi.org/10.1128/JCM.02871-12.
187. Mahony JB. 2008. Detection of respiratory viruses by molecular methods. Clin Microbiol Rev 21:716–747. https://doi.org/10.1128/CMR.00037-07.
188. Leland DS, Ginocchio CC. 2007. Role of cell culture for virus detection in the age of technology. Clin Microbiol Rev 20:49–78. https://doi.org/10.1128/CMR.00002-06.
189. Oh DY, Barr IG, Mosse JA, Laurie KL. 2008. MDCK-SIAT1 cells show improved isolation rates for recent human influenza viruses compared to conventional MDCK cells. J Clin Microbiol 46:2189–2194. https://doi.org/10.1128/JCM.00398-08.
190. CLSI. 2006. M41: viral culture. CLSI, Wayne, PA.
191. Freymuth F, Vabret A, Galateau-Salle F, Ferey J, Eugene G, Petitjean J, Gennetay E, Brouard J, Jokik M, Duhamel JF, Guillois B. 1997. Detection of respiratory syncytial virus, parainfluenzavirus 3, adenovirus and rhinovirus sequences in respiratory tract of infants by polymerase chain reaction and hybridization. Clin Diagn Virol 8:31–40. https://doi.org/10.1016/S0928-0197(97)00060-3.
192. Lin C, Ye R, Xia YL. 2015. A meta-analysis to evaluate the effectiveness of real-time PCR for diagnosing novel coronavirus infections. Genet Mol Res 14:15634–15641. https://doi.org/10.4238/2015.December.1.15.
193. Shetty AK, Treynor E, Hill DW, Gutierrez KM, Warford A, Baron EJ. 2003. Comparison of conventional viral cultures with direct fluorescent antibody stains for diagnosis of community-acquired respiratory virus infections in hospitalized children. Pediatr Infect Dis J 22:789–794. https://doi.org/10.1097/01.inf.0000083823.43526.97.
194. Jacobs SE, Lamson DM, St. George K, Walsh TJ. 2013. Human rhinoviruses. Clin Microbiol Rev 26:135–162. https://doi.org/10.1128/CMR.00077-12.
195. Gillim-Ross L, Taylor J, Scholl DR, Ridenour J, Masters PS, Wentworth DE. 2004. Discovery of novel human and animal cells infected by the severe acute respiratory syndrome coronavirus by replication-specific multiplex reverse transcription-PCR. J Clin Microbiol 42:3196–3206. https://doi.org/10.1128/JCM.42.7.3196-3206.2004.
196. Gagliardi TB, Paula FE, Iwamoto MA, Proenca-Modena JL, Santos AE, Camara AA, Cervi MC, Cintra OA, Arruda E. 2013. Concurrent detection of other respiratory viruses in children shedding viable human respiratory syncytial virus. J Med Virol 85:1852–1859. https://doi.org/10.1002/jmv.23648.
197. Gharabaghi F, Hawan A, Drews SJ, Richardson SE. 2011. Evaluation of multiple commercial molecular and conventional diagnostic assays for the detection of respiratory viruses in children. Clin Microbiol Infect 17:1900–1906. https://doi.org/10.1111/j.1469-0691.2011.03529.x.
198. Sadeghi CD, Aebi C, Gorgievski-Hrisoho M, Muhlemann K, Barbani MT. 2011. Twelve years’ detection of respiratory viruses by immunofluorescence in hospitalised children: impact of the introduction of a new respiratory picornavirus assay. BMC Infect Dis 11:41. https://doi.org/10.1186/1471-2334-11-41.
199. Thomas EE, Book LE. 1991. Comparison of two rapid methods for detection of respiratory syncytial virus (RSV) (Testpack RSV and ortho RSV ELISA) with direct immunofluorescence and virus isolation for the diagnosis of pediatric RSV infection. J Clin Microbiol 29:632–635.
200. US Senate Committee on Health, Education, Labor, and Pensions. 2006. S.736, Laboratory Test Improvement Act.
201. Beckmann CH, Hirsch H. 2015. Diagnostic performance of near-patient testing for influenza. J Clin Virol 67:43–46. https://doi.org/10.1016/j.jcv.2015.03.024.
202. Rath B, Tief F, Obermeier P, Tuerk E, Karsch K, Muehlhans S, Adamou E, Duwe S, Schweiger B. 2012. Early detection of influenza A and B infection in infants and children using conventional and fluorescence-based rapid testing. J Clin Virol 55:329–333. https://doi.org/10.1016/j.jcv.2012.08.002.
203. Khanom AB, Velvin C, Hawrami K, Schutten M, Patel M, Holmes MV, Atkinson C, Breuer J, Fitzsimons J, Geretti AM. 2011. Performance of a nurse-led paediatric point of care service for respiratory syncytial virus testing in secondary care. J Infect 62:52–58. https://doi.org/10.1016/j.jinf.2010.11.002.
204. Abels S, Nadal D, Stroehle A, Bossart W. 2001. Reliable detection of respiratory syncytial virus infection in children for adequate hospital infection control management. J Clin Microbiol 39:3135–3139. https://doi.org/10.1128/JCM.39.9.3135-3139.2001.
205. Tanei M, Yokokawa H, Murai K, Sakamoto R, Amari Y, Boku S, Inui A, Fujibayashi K, Uehara Y, Isonuma H, Kikuchi K, Naito T. 2014. Factors influencing the diagnostic accuracy of the rapid influenza antigen detection test (RIADT): a cross-sectional study. BMJ Open 4:e003885. https://doi.org/10.1136/bmjopen-2013-003885.
206. Schutzle H, Weigl J, Puppe W, Forster J, Berner R. 2008. Diagnostic performance of a rapid antigen test for RSV in comparison with a 19-valent multiplex RT-PCR ELISA in children with acute respiratory tract infections. Eur J Pediatr 167:745–749. https://doi.org/10.1007/s00431-007-0581-1.
207. Lucas PM, Morgan OW, Gibbons TF, Guerrero AC, Maupin GM, Butler JL, Canas LC, Fonseca VP, Olsen SJ, MacIntosh VH. 2011. Diagnosis of 2009 pandemic influenza A (pH1N1) and seasonal influenza using rapid influenza antigen tests, San Antonio, Texas, April-June 2009. Clin Infect Dis 52(Suppl 1):S116–S122. https://doi.org/10.1093/cid/ciq027.
208. Federal Register. 2017. Microbiology devices; reclassification of influenza virus antigen detection test systems intended for use directly with clinical specimens. https://www.federalregister.gov/documents/2017/01/12/2017-00199/microbiology-devices-reclassification-of-influenza-virus-antigen-detection-test-systems-intended-for.
209. US Centers for Disease Control and Prevention. 6 March 2018. Rapid diagnostic testing for influenza: information for clinical laboratory directors. https://www.cdc.gov/flu/professionals/diagnosis/rapidlab.htm.
210. Hatchette TF, Bastien N, Berry J, Booth TF, Chernesky M, Couillard M, Drews S, Ebsworth A, Fearon M, Fonseca K, Fox J, Gagnon JN, Guercio S, Horsman G, Jorowski C, Kuschak T, Li Y, Majury A, Petric M, Ratnam S, Smieja M, Van CP. 2009. The limitations of point of care testing for pandemic influenza: what clinicians and public health professionals need to know. Can J Public Health 100:204–207.
211. Leonardi GP, Wilson AM, Mitrache I, Zuretti AR. 2015. Comparison of the Sofia and Veritor direct antigen detection assay systems for identification of influenza viruses from patient nasopharyngeal specimens. J Clin Microbiol 53:1345–1347. https://doi.org/10.1128/JCM.03441-14.
212. Leonardi GP, Wilson AM, Dauz M, Zuretti AR. 2015. Evaluation of respiratory syncytial virus (RSV) direct antigen detection assays for use in point-of-care testing. J Virol Methods 213:131–134. https://doi.org/10.1016/j.jviromet.2014.11.016.
213. Elbadawi LI, Haupt T, Reisdorf E, Danz T, Davis JP. 2015. Use and interpretation of a rapid respiratory syncytial virus antigen detection test among infants hospitalized in a neonatal intensive care unit— Wisconsin, March 2015. MMWR Morb Mortal Wkly Rep 64:857. https://doi.org/10.15585/mmwr.mm6431a6.
214. Schwartz RH, Selvarangan R, Zissman EN. 2015. BD Veritor system respiratory syncytial virus rapid antigen detection test: point-of-care results in primary care pediatric offices compared with reverse transcriptase polymerase chain reaction and viral culture methods. Pediatr Emerg Care 31:830–834. https://doi.org/10.1097/PEC.0000000000000371.
215. Griffiths C, Drews SJ, Marchant DJ. 2017. Respiratory syncytial virus: infection, detection, and new options for prevention and treatment. Clin Microbiol Rev 30:277–319. https://doi.org/10.1128/CMR.00010-16.
216. Fereidouni SR, Starick E, Ziller M, Harder TC, Unger H, Hamilton K, Globig A. 2015. Sample preparation for avian and porcine influenza virus cDNA amplification simplified: boiling vs. conventional RNA extraction. J Virol Methods 221:62–67. https://doi.org/10.1016/j.jviromet.2015.04.021.
217. College of American Pathologists. 18 August 2016. Microbiology checklist. College of American Pathologists, Northfield, IL, USA.
218. Burd EM. 2010. Validation of laboratory-developed molecular assays for infectious diseases. Clin Microbiol Rev 23:550–576. https://doi.org/10.1128/CMR.00074-09.
219. Clark RB, Lewinski MA, Loeffelholz MJ, Tibbetts RJ. 2009. Cumitech 31A, Verification and validation of procedures in the clinical microbiology laboratory. Coordinating ed, Sharp SE. ASM Press, Washington, DC.
220. Jennings L, Van Deerlin VM, Gulley ML. 2009. Recommended principles and practices for validating clinical molecular pathology tests. Arch Pathol Lab Med 133:743–755. https://doi.org/10.1043/1543-2165-133.5.743.
221. Clinical Laboratory Standards Institute. 2015. Molecular diagnostic methods for infectious diseases: MM03-A3. Clinical and Laboratory Standards Institute, Wayne, PA, USA.
222. College of American Pathologists. 2016. Eligability determination for individualized quality control plan (IQCP) option 1. College of American Pathologists, Northfield, IL, USA.
223. College of American Pathologists. 27 September 2016. Individualized quality control plan (IQCP): frequently asked questions. College of American Pathologists, Northfield, IL, USA.
224. US Centers for Disease Control and Prevention. 8 August 2014. Report on the inadvertent cross-contamination and shipment of a laboratory specimen with influenza virus H5N1. https://www.cdc.gov/about/pdf/lab-safety/investigationcdch5n1contaminationeventaugust15.pd.
225. Wan GH, Huang CG, Chung FF, Lin TY, Tsao KC, Huang YC. 2016. Detection of common respiratory viruses and Mycoplasma pneu-moniae in patient-occupied rooms in pediatric wards. Medicine (Balti-more, MD) 95:e3014. https://doi.org/10.1097/MD.0000000000003014.
226. Pang J, Modlin J, Yolken R. 1992. Use of modified nucleotides and uracil-DNA glycosylase (UNG) for the control of contamination in the PCR-based amplification of RNA. Mol Cell Probes 6:251–256. https://doi.org/10.1016/0890-8508(92)90024-R.
227. Longo MC, Berninger MS, Hartley JL. 1990. Use of uracil DNA glycosylase to control carry-over contamination in polymerase chain reactions. Gene 93:125–128. https://doi.org/10.1016/0378-1119(90)90145-H.
228. Aslanzadeh J. 2004. Preventing PCR amplification carryover contamination in a clinical laboratory. Ann Clin Lab Sci 34:389–396.
229. Ching NS, Kotsanas D, Easton ML, Francis MJ, Korman TM, Buttery JP. 2018. Respiratory virus detection and co-infection in children and adults in a large Australian hospital in 2009-2015. J Paediatr Child Health https://doi.org/10.1111/jpc.14076.
230. Lees EA, Carrol ED, Gerrard C, Hardiman F, Howel G, Timmis A, Thorburn K, Guiver M, McNamara PS. 2014. Characterisation of acute respiratory infections at a United Kingdom paediatric teaching hospital: observational study assessing the impact of influenza A (2009 pdmH1N1) on predominant viral pathogens. BMC Infect Dis 14:343. https://doi.org/10.1186/1471-2334-14-343.
231. Chatzis O, Darbre S, Pasquier J, Meylan P, Manuel O, Aubert JD, Beck-Popovic M, Masouridi-Levrat S, Ansari M, Kaiser L, Posfay-Barbe KM, Asner SA. 2018. Burden of severe RSV disease among immunocompromised children and adults: a 10 year retrospective study. BMC Infect Dis 18:111. https://doi.org/10.1186/s12879-018-3002-3.
232. Schlaberg R, Mitchell MJ, Taggart EW, She RC. 2012. Verification of performance specifications for a US Food and Drug Administration-approved molecular microbiology test: Clostridium difficile cyto-cyto-toxin B using the Becton, Dickinson and Company GeneOhm Cdiff assay. Arch Pathol Lab Med 136:20–25. https://doi.org/10.5858/arpa.2011-0138-OA. toxin
233. van Elden LJ, van Kraaij MG, Nijhuis M, Hendriksen KA, Dekker AW, Rozenberg-Arska M, van Loon AM. 2002. Polymerase chain reaction is more sensitive than viral culture and antigen testing for the detection of respiratory viruses in adults with hematological cancer and pneumonia. Clin Infect Dis 34:177–183. https://doi.org/10.1086/338238.
234. Van WL, Meeuws H, Van IA, Ispas G, Schmidt K, Houspie L, Van RM, Stuyver L. 2013. Comparison of the FilmArray RP, Verigene RV+, and Prodesse ProFLU+/FAST+ multiplex platforms for detection of influenza viruses in clinical samples from the 2011-2012 influenza season in Belgium. J Clin Microbiol 51:2977–2985. https://doi.org/10.1128/JCM.00911-13.
235. Hindiyeh M, Hillyard DR, Carroll KC. 2001. Evaluation of the Prodesse Hexaplex multiplex PCR assay for direct detection of seven respiratory viruses in clinical specimens. Am J Clin Pathol 116:218–224. https://doi.org/10.1309/F1R7-XD6T-RN09-1U6L.
236. Babady NE, Mead P, Stiles J, Brennan C, Li H, Shuptar S, Stratton CW, Tang YW, Kamboj M. 2012. Comparison of the Luminex xTAG RVP Fast assay and the Idaho Technology FilmArray RP assay for detection of respiratory viruses in pediatric patients at a cancer hospital. J Clin Microbiol 50:2282–2288. https://doi.org/10.1128/JCM.06186-11.
237. Ko F, Drews SJ. 2017. The impact of commercial rapid respiratory virus diagnostic tests on patient outcomes and health system utilization. Expert Rev Mol Diagn https://doi.org/10.1080/14737159.2017.1372195.
238. Muller MP, Junaid S, Matukas LM. 2016. Reduction in total patient isolation days with a change in influenza testing methodology. Am J Infect Control 44:1346–1349. https://doi.org/10.1016/j.ajic.2016.03.019.
239. Rappo U, Schuetz AN, Jenkins SG, Calfee DP, Walsh TJ, Wells MT, Hollenberg JP, Glesby MJ. 2016. Impact of early detection of respiratory viruses by multiplex PCR assay on clinical outcomes in adult patients. J Clin Microbiol 54:2096–2103. https://doi.org/10.1128/JCM.00549-16.
240. Chu HY, Englund JA, Huang D, Scott E, Chan JD, Jain R, Pottinger PS, Lynch JB, Dellit TH, Jerome KR, Kuypers J. 2015. Impact of rapid influenza PCR testing on hospitalization and antiviral use: a retrospective cohort study. J Med Virol 87:2021–2026. https://doi.org/10.1002/jmv.24279.
241. Rogers BB, Shankar P, Jerris RC, Kotzbauer D, Anderson EJ, Watson JR, O’Brien LA, Uwindatwa F, McNamara K, Bost JE. 2015. Impact of a rapid respiratory panel test on patient outcomes. Arch Pathol Lab Med 139:636–641. https://doi.org/10.5858/arpa.2014-0257-OA.
242. Clark TW, Ewings S, Medina MJ, Batham S, Curran MD, Parmar S, Nicholson KG. 2016. Viral load is strongly associated with length of stay in adults hospitalised with viral acute respiratory illness. J Infect 73: 598–606. https://doi.org/10.1016/j.jinf.2016.09.001.
243. Xiao Q, Zheng S, Zhou L, Ren L, Xie X, Deng Y, Tian D, Zhao Y, Fu Z, Li T, Huang A, Liu E. 2015. Impact of human rhinovirus types and viral load on the severity of illness in hospitalized children with lower respiratory tract infections. Pediatr Infect Dis J 34:1187–1192. https://doi.org/10.1097/INF.0000000000000879.
244. Gu L, Qu J, Sun B, Yu X, Li H, Cao B. 2016. Sustained viremia and high viral load in respiratory tract secretions are predictors for death in immunocompetent adults with adenovirus pneumonia. PLoS One 11: e0160777. https://doi.org/10.1371/journal.pone.0160777.
245. van de Pol AC, Wolfs TF, van Loon AM, Tacke CE, Viveen MC, Jansen NJ, Kimpen JL, Rossen JW, Coenjaerts FE. 2010. Molecular quantification of respiratory syncytial virus in respiratory samples: reliable detection during the initial phase of infection. J Clin Microbiol 48:3569–3574. https://doi.org/10.1128/JCM.00097-10.
246. El Saleeby CM, Bush AJ, Harrison LM, Aitken JA, Devincenzo JP. 2011. Respiratory syncytial virus load, viral dynamics, and disease severity in previously healthy naturally infected children. J Infect Dis 204: 996–1002. https://doi.org/10.1093/infdis/jir494.
247. Mahony JB, Hatchette T, Ojkic D, Drews SJ, Gubbay J, Low DE, Petric M, Tang P, Chong S, Luinstra K, Petrich A, Smieja M. 2009. Multiplex PCR tests sentinel the appearance of pandemic influenza viruses including H1N1 swine influenza. J Clin Virol 45:200–202. https://doi.org/10.1016/j.jcv.2009.05.031.
248. Haines FJ, Hofmann MA, King DP, Drew TW, Crooke HR. 2013. Development and validation of a multiplex, real-time RT PCR assay for the simultaneous detection of classical and African swine fever viruses. PLoS One 8:e71019. https://doi.org/10.1371/journal.pone.0071019.
249. Klein D. 2002. Quantification using real-time PCR technology: applica-tions and limitations. Trends Mol Med 8:257–260. https://doi.org/10.1016/S1471-4914(02)02355-9.
250. Cho CH, Chulten B, Lee CK, Nam MH, Yoon SY, Lim CS, Cho Y, Kim YK. 2013. Evaluation of a novel real-time RT-PCR using TOCE technology compared with culture and Seeplex RV15 for simultaneous detection of respiratory viruses. J Clin Virol 57:338–342. https://doi.org/10.1016/j.jcv.2013.04.014.
251. Chen JH, Lam HY, Yip CC, Wong SC, Chan JF, Ma ES, Cheng VC, Tang BS, Yuen KY. 2016. Clinical evaluation of the new high-throughput Luminex NxTAG respiratory pathogen panel assay for multiplex respiratory pathogen detection. J Clin Microbiol 54:1820–1825. https://doi.org/10.1128/JCM.00517-16.
252. Beckmann CH, Hirsch H. 2016. Comparing Luminex NxTAG respiratory pathogen panel and RespiFinder-22 for multiplex detection of respiratory pathogens. J Med Virol 88:1319–1324. https://doi.org/10.1002/jmv.24492.
253. Babady NE, England MR, Jurcic Smith KL, He T, Wijetunge DS, Tang YW, Chamberland RR, Menegus M, Swierkosz EM, Jerris RC, Greene W. 2018. Multicenter evaluation of the ePlex respiratory pathogen panel for the detection of viral and bacterial respiratory tract pathogens in nasopharyngeal swabs. J Clin Microbiol 56:e01658-17. https://doi.org/10.1128/JCM.01658-17.
254. Green DA, Hitoaliaj L, Kotansky B, Campbell SM, Peaper DR. 2016. Clinical utility of on-demand multiplex respiratory pathogen testing among adult outpatients. J Clin Microbiol 54:2950–2955. https://doi.org/10.1128/JCM.01579-16.
255. Kumar D, Husain S, Chen MH, Moussa G, Himsworth D, Manuel O, Studer S, Pakstis D, McCurry K, Doucette K, Pilewski J, Janeczko R, Humar A. 2010. A prospective molecular surveillance study evaluating the clinical impact of community-acquired respiratory viruses in lung transplant recipients. Transplantation 89:1028–1033. https://doi.org/10.1097/TP.0b013e3181d05a71.
256. Magnusson J, Westin J, Andersson LM, Brittain-Long R, Riise GC. 2013. The impact of viral respiratory tract infections on long-term morbidity and mortality following lung transplantation: a retrospective cohort study using a multiplex PCR panel. Transplantation 95:383–388. https://doi.org/10.1097/TP.0b013e318271d7f0.
257. Koch RM, Kox M, de Jonge MI, van der Hoeven JG, Ferwerda G, Pickkers P. 2017. Patterns in bacterial-and viral-induced immunosuppression and secondary infections in the ICU. Shock 47:5–12. https://doi.org/10.1097/SHK.0000000000000731.
258. van Someren GF, Ong DS, Cremer OL, Bonten MJ, Bos LD, de Jong MD, Schultz MJ, Juffermans NP. 2016. Clinical practice of respiratory virus diagnostics in critically ill patients with a suspected pneumonia: a prospective observational study. J Clin Virol 83:37–42. https://doi.org/10.1016/j.jcv.2016.08.295.
259. Rao S, Messacar K, Torok MR, Rick AM, Holzberg J, Montano A, Bagdure D, Curtis DJ, Oberste MS, Nix WA, de MG, Robinson CC, Dominguez SR. 2016. Enterovirus D68 in critically ill children: a comparison with pandemic H1N1 influenza. Pediatr Crit Care Med 17:1023–1031. https://doi.org/10.1097/PCC.0000000000000922.
260. Cousin M, Molinari N, Foulongne V, Caimmi D, Vachier I, Abely M, Chiron R. 2016. Rhinovirus-associated pulmonary exacerbations show a lack of FEV1 improvement in children with cystic fibrosis. Influenza Other Respir Viruses 10:109–112. https://doi.org/10.1111/irv.12353.
261. Hickner J, Thompson PJ, Wilkinson T, Epner P, Sheehan M, Pollock AM, Lee J, Duke CC, Jackson BR, Taylor JR. 2014. Primary care physicians’ challenges in ordering clinical laboratory tests and interpreting results. J Am Board Fam Med 27:268–274. https://doi.org/10.3122/jabfm.2014.02.130104.
262. Taylor JR, Thompson PJ, Genzen JR, Hickner J, Marques MB. 2016. Opportunities to enhance laboratory professionals’ role on the diagnostic team. Lab Med https://doi.org/10.1093/labmed/lmw048.
263. Nakao A, Hisata K, Matsunaga N, Fujimori M, Yoshikawa N, Komatsu M, Kikuchi K, Takahashi H, Shimizu T. 2014. The clinical utility of a near patient care rapid microarray-based diagnostic test for influenza and respiratory syncytial virus infections in the pediatric setting. Diagn Microbiol Infect Dis 78:363–367. https://doi.org/10.1016/j.diagmicrobio.2013.11.005.
264. McCulloh RJ, Andrea S, Reinert S, Chapin K. 2014. Potential utility of multiplex amplification respiratory viral panel testing in the management of acute respiratory infection in children: a retrospective analysis. J Pediatric Infect Dis Soc 3:146–153. https://doi.org/10.1093/jpids/pit073.
265. Landes MB, Neil RB, McCool SS, Mason BP, Woron AM, Garman RL, Smalley DL. 2013. The frequency and seasonality of influenza and other respiratory viruses in Tennessee: two influenza seasons of surveillance data, 2010-2012. Influenza Other Respir Viruses 7:1122–1127. https://doi.org/10.1111/irv.12145.
266. Dundas NE, Ziadie MS, Revell PA, Brock E, Mitui M, Leos NK, Rogers BB. 2011. A lean laboratory: operational simplicity and cost effectiveness of the Luminex xTAG respiratory viral panel. J Mol Diagn 13:175–179. https://doi.org/10.1016/j.jmoldx.2010.09.003.
267. Mahony JB, Blackhouse G, Babwah J, Smieja M, Buracond S, Chong S, Ciccotelli W, O’Shea T, Alnakhli D, Griffiths-Turner M, Goeree R. 2009. Cost analysis of multiplex PCR testing for diagnosing respiratory virus infections. J Clin Microbiol 47:2812–2817. https://doi.org/10.1128/JCM.00556-09.
268. Torres JP, De la Maza V, Kors L, Villarroel M, Piemonte P, Izquierdo G, Salgado C, Tordecilla J, Contardo V, Farfan MJ, Mejias A, Ramilo O, Santolaya ME. 2016. Respiratory viral infections and coinfections in children with cancer, fever and neutropenia: clinical outcome of infections caused by different respiratory viruses. Pediatr Infect Dis J 35: 949–954. https://doi.org/10.1097/INF.0000000000001209.
269. Brotons P, Henares D, Latorre I, Cepillo A, Launes C, Munoz-Almagro C. 2016. Comparison of NxTAG respiratory pathogen panel and Anyplex II RV16 tests for multiplex detection of respiratory pathogens in hospitalized children. J Clin Microbiol 54:2900–2904. https://doi.org/10.1128/JCM.01243-16.
270. Kumar P, Medigeshi GR, Mishra VS, Islam M, Randev S, Mukherjee A, Chaudhry R, Kapil A, Ram JK, Lodha R, Kabra SK. 2017. Etiology of acute respiratory infections in infants: a prospective birth cohort study. Pediatr Infect Dis J 36:25–30. https://doi.org/10.1097/INF.0000000000001359.
271. Cui D, Feng L, Chen Y, Lai S, Zhang Z, Yu F, Zheng S, Li Z, Yu H. 2016. Clinical and epidemiologic characteristics of hospitalized patients with laboratory-confirmed respiratory syncytial virus infection in eastern China between 2009 and 2013: a retrospective study. PLoS One 11: e0165437. https://doi.org/10.1371/journal.pone.0165437.
272. Falsey AR, Becker KL, Swinburne AJ, Nylen ES, Formica MA, Hennessey PA, Criddle MM, Peterson DR, Baran A, Walsh EE. 2013. Bacterial complications of respiratory tract viral illness: a comprehensive evaluation. J Infect Dis 208:432–441. https://doi.org/10.1093/infdis/jit190.
273. Kim KY, Han SY, Kim HS, Cheong HM, Kim SS, Kim DS. 2017. Human coronavirus in the 2014 winter season as a cause of lower respiratory tract infection. Yonsei Med J 58:174–179. https://doi.org/10.3349/ymj.2017.58.1.174.
274. Mazur NI, Bont L, Cohen AL, Cohen C, von GA, Groome MJ, Hellferscee O, Klipstein-Grobusch K, Mekgoe OT, Naby F, Moyes J, Tempia S, Treurnicht FK, Venter M, Walaza S, Wolter N, Madhi SA. 2016. Severity of respiratory syncytial virus lower respiratory tract infection with viral coinfection in HIV-uninfected children. Clin Infect Dis https://doi.org/10.1093/cid/ciw756.
275. Banerji A, Panzov V, Young M, Robinson J, Lee B, Moraes T, Mamdani M, Giles BL, Jiang D, Bisson D, Dennis M, Morel J, Hall J, Hui C, Paes B, Mahony JB. 2016. Hospital admissions for lower respiratory tract infections among infants in the Canadian Arctic: a cohort study. CMAJ Open 4:E615–E622. https://doi.org/10.9778/cmajo.20150051.
276. Lee HJ, Seo YE, Han SB, Jeong DC, Kang JH. 2016. Clinical impact of mixed respiratory viral infection in children with adenoviral infection. Infect Chemother 48:309–316. https://doi.org/10.3947/ic.2016.48.4.309.
277. Voiriot G, Visseaux B, Cohen J, Nguyen LB, Neuville M, Morbieu C, Burdet C, Radjou A, Lescure FX, Smonig R, Armand-Lefevre L, Mourvil-lier B, Yazdanpanah Y, Soubirou JF, Ruckly S, Houhou-Fidouh N, Timsit JF. 2016. Viral-bacterial coinfection affects the presentation and alters the prognosis of severe community-acquired pneumonia. Crit Care 20:375. https://doi.org/10.1186/s13054-016-1517-9.
278. Hatchette TF, Drews SJ, Grudeski E, Booth T, Martineau C, Dust K, Garceau R, Gubbay J, Karnauchow T, Krajden M, Levett PN, Mazzulli T, McDonald RR, McNabb A, Mubareka S, Needle R, Petrich A, Richardson S, Rutherford C, Smieja M, Tellier R, Tipples G, LeBlanc JJ. 2015. Detection of enterovirus D68 in Canadian laboratories. J Clin Microbiol 53:1748–1751. https://doi.org/10.1128/JCM.03686-14.
279. Parker J, Fowler N, Walmsley ML, Schmidt T, Scharrer J, Kowaleski J, Grimes T, Hoyos S, Chen J. 2015. Analytical sensitivity comparison between Singleplex real-time PCR and a multiplex PCR platform for detecting respiratory viruses. PLoS One 10:e0143164. https://doi.org/10.1371/journal.pone.0143164.
280. Andersson ME, Olofsson S, Lindh M. 2014. Comparison of the FilmArray assay and in-house real-time PCR for detection of respiratory infection. Scand J Infect Dis 46:897–901. https://doi.org/10.3109/00365548.2014.951681.
281. Butt SA, Maceira VP, McCallen ME, Stellrecht KA. 2014. Comparison of three commercial RT-PCR systems for the detection of respiratory viruses. J Clin Virol 61:406–410. https://doi.org/10.1016/j.jcv.2014.08.010.
282. Drews SJ, Simmonds K, Usman HR, Yee K, Fathima S, Tipples G, Tellier R, Pabbaraju K, Wong S, Talbot J. 2015. Characterization of enterovirus activity, including that of enterovirus D68, in pediatric patients in Alberta, Canada, in 2014. J Clin Microbiol 53:1042–1045. https://doi.org/10.1128/JCM.02982-14.
283. Song E, Wang H, Salamon D, Jaggi P, Leber A. 2016. Performance characteristics of FilmArray respiratory panel v1.7 for detection of adenovirus in a large cohort of pediatric nasopharyngeal samples: one test may not fit all. J Clin Microbiol 54:1479–1486. https://doi.org/10.1128/JCM.00143-16.
284. Song E, Wang H, Kajon AE, Salamon D, Dong S, Ramilo O, Leber A, Jaggi P. 2016. Diagnosis of pediatric acute adenovirus infections: is a positive PCR sufficient? Pediatr Infect Dis J 35:827–834. https://doi.org/10.1097/INF.0000000000001119.
285. Ling L, Kaplan SE, Lopez JC, Stiles J, Lu X, Tang YW. 2018. Parallel validation of three molecular devices for simultaneous detection and identification of influenza A and B and respiratory syncytial viruses. J Clin Microbiol 56. https://doi.org/10.1128/JCM.01691-17.
286. Nie S, Roth RB, Stiles J, Mikhlina A, Lu X, Tang YW, Babady NE. 2014. Evaluation of Alere i Influenza A&B for rapid detection of influenza viruses A and B. J Clin Microbiol 52:3339–3344. https://doi.org/10.1128/JCM.01132-14.
287. Chapin KC, Flores-Cortez EJ. 2015. Performance of the molecular Alere I influenza A&B test compared to that of the xpert flu A/B assay. J Clin Microbiol 53:706–709. https://doi.org/10.1128/JCM.02783-14.
288. Hazelton B, Gray T, Ho J, Ratnamohan VM, Dwyer DE, Kok J. 2015. Detection of influenza A and B with the Alere i Influenza A&B:anovel isothermal nucleic acid amplification assay. Influenza Other Respir Viruses 9:151–154. https://doi.org/10.1111/irv.12303.
289. Binnicker MJ, Espy MJ, Irish CL, Vetter EA. 2015. Direct detection of influenza A and B viruses in less than 20 minutes using a commercially available rapid PCR assay. J Clin Microbiol 53:2353–2354. https://doi.org/10.1128/JCM.00791-15.
290. Drain PK, Garrett NJ. 2015. The arrival of a true point-of-care molecular assay-ready for global implementation? Lancet Glob Health 3:e663–e664. https://doi.org/10.1016/S2214-109X(15)00186-2.
291. Abel G. 2015. Current status and future prospects of point-of-care testing around the globe. Expert Rev Mol Diagn 15:853–855. https://doi.org/10.1586/14737159.2015.1060126.
292. Cohen-Bacrie S, Halfon P. 2012. Prospects for molecular point-of-care diagnosis of lower respiratory infections at the hospital’s doorstep. Future Virol 8. https://doi.org/10.2217/fvl.12.124.
293. Levinson W, Kallewaard M, Bhatia RS, Wolfson D, Shortt S, Kerr EA. 2015. ’Choosing Wisely’: a growing international campaign. BMJ Qual Saf 24:167–174. https://doi.org/10.1136/bmjqs-2014-003821.
294. Schreckenberger PC, McAdam AJ. 2015. Point-counterpoint: large multiplex PCR panels should be first-line tests for detection of respiratory and intestinal pathogens. J Clin Microbiol 53:3110–3115. https://doi.org/10.1128/JCM.00382-15.
295. Adcock PM, Stout GG, Hauck MA, Marshall GS. 1997. Effect of rapid viral diagnosis on the management of children hospitalized with lower respiratory tract infection. Pediatr Infect Dis J 16:842–846. https://doi.org/10.1097/00006454-199709000-00005.
296. Aramburo A, van Schaik S, Louie J, Boston E, Messenger S, Wright C, Lawrence DW. 2011. Role of real-time reverse transcription polymerase chain reaction for detection of respiratory viruses in critically ill children with respiratory disease: is it time for a change in algorithm? Pediatr Crit Care Med 12:e160–e165. https://doi.org/10.1097/PCC.0b013e3181f36e86.
297. Barenfanger J, Drake C, Leon N, Mueller T, Troutt T. 2000. Clinical and financial benefits of rapid detection of respiratory viruses: an outcomes study. J Clin Microbiol 38:2824–2828.
298. Blaschke AJ, Shapiro DJ, Pavia AT, Byington CL, Ampofo K, Stockmann C, Hersh AL. 2014. A national study of the impact of rapid influenza testing on clinical care in the emergency department. J Pediat Infect Dis Soc 3:112–118. https://doi.org/10.1093/jpids/pit071.
299. Bonner AB, Monroe KW, Talley LI, Klasner AE, Kimberlin DW. 2003. Impact of the rapid diagnosis of influenza on physician decision-making and patient management in the pediatric emergency department: results of a randomized, prospective, controlled trial. Pediatrics 112:363–367. https://doi.org/10.1542/peds.112.2.363.
300. Esposito S, Marchisio P, Morelli P, Crovari P, Principi N. 2003. Effect of a rapid influenza diagnosis. Arch Dis Child 88:525–526.
301. Mulpuru S, Aaron SD, Ronksley PE, Lawrence N, Forster AJ. 2015. Hospital resource utilization and patient outcomes associated with respiratory viral testing in hospitalized patients. Emerg Infect Dis 21: 1366–1371. https://doi.org/10.3201/eid2108.140978.
302. Nelson RE, Stockmann C, Hersh AL, Pavia AT, Korgenksi K, Daly JA, Couturier MR, Ampofo K, Thorell EA, Doby EH, Robison JA, Blaschke AJ. 2015. Economic analysis of rapid and sensitive polymerase chain reaction testing in the emergency department for influenza infections in children. Pediatr Infect Dis J 34:577–582. https://doi.org/10.1097/INF.0000000000000703.
303. Oosterheert JJ, van Loon AM, Schuurman R, Hoepelman AI, Hak E, Thijsen S, Nossent G, Schneider MM, Hustinx WM, Bonten MJ. 2005. Impact of rapid detection of viral and atypical bacterial pathogens by real-time polymerase chain reaction for patients with lower respiratory tract infection. Clin Infect Dis 41:1438–1444. https://doi.org/10.1086/497134.
304. Soto M, Sampietro-Colom L, Vilella A, Pantoja E, Asenjo M, Arjona R, Hurtado JC, Trilla A, Alvarez-Martinez MJ, Mira A, Vila J, Marcos MA. 2016. Economic impact of a new rapid PCR assay for detecting influenza virus in an emergency department and hospitalized patients. PLoS One 11:e0146620. https://doi.org/10.1371/journal.pone.0146620.
305. Molecular Diagnostics Europe. May 2018. How will the new regulation change the IVD landscape in Europe. http://www.healthtech.com/mdxe_content.aspx?id=146318.
306. Caliendo AM. 2011. Multiplex PCR and emerging technologies for the detection of respiratory pathogens. Clin Infect Dis 52(Suppl 4): S326–S330. https://doi.org/10.1093/cid/cir047.
307. Anonymous. 19 October 2016. BioFire POC respiratory panel waived, cleared. http://captodayonline.com/biofire-poc-respiratory-panel-waived-cleared/.
308. Tang YW, Gonsalves S, Sun JY, Stiles J, Gilhuley KA, Mikhlina A, Dunbar SA, Babady NE, Zhang H. 2016. Clinical evaluation of the Luminex NxTAG respiratory pathogen panel. J Clin Microbiol 54:1912–1914. https://doi.org/10.1128/JCM.00482-16.
309. Pebody RG, Chand MA, Thomas HL, Green HK, Boddington NL, Carvalho C, Brown CS, Anderson SR, Rooney C, Crawley-Boevey E, Irwin DJ, Aarons E, Tong C, Newsholme W, Price N, Langrish C, Tucker D, Zhao H, Phin N, Crofts J, Bermingham A, Gilgunn-Jones E, Brown KE, Evans B, Catchpole M, Watson JM. 2012. The United Kingdom public health response to an imported laboratory confirmed case of a novel coronavirus in September 2012. Euro Surveill 17:20292.
310. US Food and Drug Administration. 3 October 2014. Draft guidance for industry, food and drug administration staff, and clinical laboratories: Framework for regulatory oversight of laboratory developed sests (LDTs). http://www.fda.gov/downloads/medicaldevices/deviceregulationand guidance/guidancedocuments/ucm416685.pdf.
311. Caliendo AM, Hanson KE. 2016. Point-Counterpoint: The FDA has a role in regulation of laboratory-developed tests. J Clin Microbiol 54: 829–833. https://doi.org/10.1128/JCM.00063-16.
312. European Commission. 8 January 2017. Directive 93/42/EEC. http://ec.europa.eu/growth/single-market/european-standards/harmonised-standards/medical-devices/.
313. Blaney R. 2012. Proposed EU rules impact commercial testing laboratories. Covington & Burling LLP, Washington, DC.
314. US Food and Drug Administration. 1998. Palivizumab product approval information—licensing action. https://www.accessdata.fda.gov/drugs atfda_docs/appletter/1998/palimed061998L.htm.
315. Pickering LK, Baker CJ, Kimberlin DW, Long S. 2012. Red book, 29th ed. American Academy of Pediatrics, Atlanta, GA.
316. Shah JN, Chemaly RF. 2011. Management of RSV infections in adult recipients of hematopoietic stem cell transplantation. Blood 117: 2755–2763. https://doi.org/10.1182/blood-2010-08-263400.
317. Pinana JL, Hernandez-Boluda JC, Calabuig M, Ballester I, Marin M, Madrid S, Teruel A, Terol MJ, Navarro D, Solano C. 2017. A risk-adapted approach to treating respiratory syncytial virus and human parainfluenza virus in allogeneic stem cell transplantation recipients with oral ribavirin therapy: a pilot study. Transpl Infect Dis 19 https://doi.org/10.1111/tid.12729.
318. Trang TP, Whalen M, Hilts-Horeczko A, Doernberg SB, Liu C. 2018. Comparative effectiveness of aerosolized versus oral ribavirin for the treatment of respiratory syncytial virus infections: a single-center retrospective cohort study and review of the literature. Transpl Infect Dis https://doi.org/10.1111/tid.12844.
319. Li TC, Chan MC, Lee N. 2015. Clinical implications of antiviral resistance in influenza. Viruses 7:4929–4944. https://doi.org/10.3390/v7092850.
320. Bolotin S, Robertson AV, Eshaghi A, De LC, Lombos E, Chong-King E, Burton L, Mazzulli T, Drews SJ. 2009. Development of a novel real-time reverse-transcriptase PCR method for the detection of H275Y positive influenza A H1N1 isolates. J Virol Methods 158:190–194. https://doi.org/10.1016/j.jviromet.2009.01.016.
321. Wang B, Taylor J, Ratnamohan M, McPhie K, Kesson A, Dixit R, Booy R, Hurt A, Saksena N, Dwyer DE. 2012. Frequency of oseltamivir resistance in Sydney, during the Newcastle outbreak of community transmitted oseltamivir-resistant influenza A(H1N1)pdm09 virus, Australia, June to August 2011. Euro Surveill 17:20210.
322. Public Health Agency of Canada. 31 August 2018. FluWatch report: July 22, 2018 to August 25, 2018 (weeks 30-34). https://www.canada.ca/en/public-health/services/publications/diseases-conditions/fluwatch/2017-2018/week30-34-july-22-august-25-2018.html.
323. Pozo F, Lina B, Andrade HR, Enouf V, Kossyvakis A, Broberg E, Daniels R, Lackenby A, Meijer A, Community Network of Reference Laboratories for Human Influenza in Europe. 2013. Guidance for clinical and public health laboratories testing for influenza virus antiviral drug susceptibility in Europe. J Clin Virol 57:5–12. https://doi.org/10.1016/j.jcv.2013.01.009.
324. Babady NE, Laplante JM, Tang Y-W, St. George K. 2015. Detection of a transient R292K mutation in influenza A/H3N2 viruses shed for several weeks by an immunocompromised patient. J Clin Microbiol 53: 1415–1418. https://doi.org/10.1128/JCM.02845-14.
325. Chaudhry A, Bastien N, Li Y, Scott A, Pabbaraju K, Stewart D, Wong S, Drews SJ. 2016. Oseltamivir resistance in an influenza A (H3N2) virus isolated from an immunocompromised patient during the 2014-2015 influenza season in Alberta, Canada. Influenza Other Respir Viruses 10:532–535. https://doi.org/10.1111/irv.12415.
326. Tisdale M. 2000. Monitoring of viral susceptibility: new challenges with the development of influenza NA inhibitors. Rev Med Virol 10:45–55. https://doi.org/10.1002/(SICI)1099-1654(200001/02) 10:1<45::AID-RMV265>3.0.CO;2-R.
327. Mishin VP, Sleeman K, Levine M, Carney PJ, Stevens J, Gubareva LV. 2014. The effect of the MDCK cell selected neuraminidase D151G mutation on the drug susceptibility assessment of influenza A(H3N2) viruses. Antiviral Res 101:93–96. https://doi.org/10.1016/j.antiviral.2013.11.001.
328. Anonymous. 2012. Meetings of the WHO working group on surveillance of influenza antiviral susceptibility. Wkly Epidemiol Rec 87: 369–374.
329. Government of Canada. December 2015. Laboratory guidelines. Canadian pandemic influenza preparedness: planning guidance for the health sector. https://www.canada.ca/en/public-health/services/flu-influenza/canadian-pandemic-influenza-preparedness-planning-guidance-health-sector/laboratory-annex.html.
330. US Centers for Medicare & Medicaid Services. 2017. Regulations and guidance: advisory committees: panel on clinical diagnostic laboratory tests.
331. US Centers for Medicare & Medicaid Services. 19 October 2018. Medicare: clinical laboratory fee schedule: annual laboratory public meetings. https://www.cms.gov/Medicare/Medicare-Fee-for-Service-Payment/ClinicalLabFeeSched/Laboratory_Public_Meetings.html.
332. American Clinical Laboratory Association. 11 December 2017. Issues: CMS ignored congressional intent in implementing new clinical lab payment system under PAMA, ACLA charges in suit. https://www.acla.com/cms-ignored-congressional-intent-in-implementing-new-clinical-lab-payment-system-under-pama-acla-charges-in-suit/.
333. Adams MJ, Lefkowitz EJ, King AMQ, Harrach B, Harrison RL, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Mushegian AR, Nibert M, Sa-banadzovic S, Sanfacon H, Siddell SG, Simmonds P, Varsani A, Zerbini FM, Gorbalenya AE, Davison AJ. 2017. Changes to taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2017). Arch Virol 162:2505–2538. https://doi.org/10.1007/s00705-017-3358-5.
334. Robinson CC. 2009. Respiratory viruses, p. 209–231. In Specter S, Hodinka RL, Yooung SA, Wiedbrauk DL (ed), Clinical virology manual, 4th ed. ASM Press, Washington, DC.
335. Edmond MB, Wenzel RP. 2010. Isolation, p 3673–3676. In Mandell GL, Bennett JE, Dolin R (ed), Principles and practices of infectious diseases. Churchill Livingston Elsevier, Philadelphia, PA.
336. Casanova LM, Jeon S, Rutala WA, Weber DJ, Sobsey MD. 2010. Effects of air temperature and relative humidity on coronavirus survival on surfaces. Appl Environ Microbiol 76:2712–2717. https://doi.org/10.1128/AEM.02291-09.
337. US Centers for Disease Control and Prevention. 8 January 2004. Severe acute respiratory syndrome notice, CDC, 2004, supplement I: infection control in healthcare, home, and community settings. https://www.cdc.gov/sars/guidance/i-infection/healthcare.pdf.
338. Perry KA, Coulliette AD, Rose LJ, Shams AM, Edwards JR, Noble-Wang JA. 2016. Persistence of influenza A (H1N1) virus on stainless steel surfaces. Appl Environ Microbiol 82:3239–3245. https://doi.org/10.1128/AEM.04046-15.
339. Thomas Y, Vogel G, Wunderli W, Suter P, Witschi M, Koch D, Tapparel C, Kaiser L. 2008. Survival of influenza virus on banknotes. Appl Environ Microbiol 74:3002–3007. https://doi.org/10.1128/AEM.00076-08.
340. Greatorex JS, Digard P, Curran MD, Moynihan R, Wensley H, Wreghitt T, Varsani H, Garcia F, Enstone J, Nguyen-Van-Tam JS. 2011. Survival of influenza A(H1N1) on materials found in households: implications for infection control. PLoS One 6:e27932. https://doi.org/10.1371/journal.pone.0027932.
341. Mukherjee DV, Cohen B, Bovino ME, Desai S, Whittier S, Larson EL. 2012. Survival of influenza virus on hands and fomites in community and laboratory settings. Am J Infect Control 40:590–594. https://doi.org/10.1016/j.ajic.2011.09.006.
342. Brady MT, Evans J, Cuartas J. 1990. Survival and disinfection of parainfluenza viruses on environmental surfaces. Am J Infect Control 18: 18–23. https://doi.org/10.1016/0196-6553(90)90206-8.
343. Kulkarni H, Smith CM, Lee DH, Hirst RA, Easton AJ, O’Callaghan C. 2016. Evidence of respiratory syncytial virus spread by aerosol. Time to revisit infection control strategies? Am J Respir Crit Care Med 194:308–316. https://doi.org/10.1164/rccm.201509-1833OC.
344. Hall CB, Douglas RG, Jr, Geiman JM. 1980. Possible transmission by fomites of respiratory syncytial virus. J Infect Dis 141:98–102.
345. Lee YJ, Palomino-Guilen P, Babady NE, Lamson DM, St GK, Tang YW, Papanicolaou GA. 2014. Disseminated adenovirus infection in cancer patients presenting with focal pulmonary consolidation. J Clin Microbiol 52:350–353. https://doi.org/10.1128/JCM.01893-13.
346. Chmielewicz B, Nitsche A, Schweiger B, Ellerbrok H. 2005. Development of a PCR-based assay for detection, quantification, and genotyping of human adenoviruses. Clin Chem 51:1365–1373. https://doi.org/10.1373/clinchem.2004.045088.
347. Leruez-Ville M, Minard V, Lacaille F, Buzyn A, Abachin E, Blanche S, Freymuth F, Rouzioux C. 2004. Real-time blood plasma polymerase chain reaction for management of disseminated adenovirus infection. Clin Infect Dis 38:45–52. https://doi.org/10.1086/380450.
348. Anderson TP, Werno AM, Barratt K, Mahagamasekera P, Murdoch DR, Jennings LC. 2013. Comparison of four multiplex PCR assays for the detection of viral pathogens in respiratory specimens. J Virol Methods 191:118–121. https://doi.org/10.1016/j.jviromet.2013.04.005.
349. Ko DH, Kim HS, Hyun J, Kim HS, Kim JS, Park KU, Song W. 2017. Comparison of the Luminex xTAG respiratory viral panel Fast v2 assay with Anyplex II RV16 detection kit and AdvanSure RV real-time RT-PCR assay for the detection of respiratory viruses. Ann Lab Med 37: 408–414. https://doi.org/10.3343/alm.2017.37.5.408.
350. van Elden LJ, van Loon AM, van Alphen F, Hendriksen KA, Hoepelman AI, van Kraaij MG, Oosterheert JJ, Schipper P, Schuurman R, Nijhuis M. 2004. Frequent detection of human coronaviruses in clinical specimens from patients with respiratory tract infection by use of a novel real-time reverse-transcriptase polymerase chain reaction. J Infect Dis 189: 652–657. https://doi.org/10.1086/381207.
351. Memish ZA, Zumla AI, Al-Hakeem RF, Al-Rabeeah AA, Stephens GM. 2013. Family cluster of Middle East respiratory syndrome coronavirus infections. N Engl J Med 368:2487–2494. https://doi.org/10.1056/NEJMoa1303729.
352. Lu X, Whitaker B, Sakthivel SK, Kamili S, Rose LE, Lowe L, Mohareb E, Elassal EM, Al-Sanouri T, Haddadin A, Erdman DD. 2014. Real-time reverse transcription-PCR assay panel for Middle East respiratory syn-drome coronavirus. J Clin Microbiol 52:67–75. https://doi.org/10.1128/JCM.02533-13.
353. de Groot RJ, Baker SC, Baric RS, Brown CS, Drosten C, Enjuanes L, Fouchier RA, Galiano M, Gorbalenya AE, Memish ZA, Perlman S, Poon LL, Snijder EJ, Stephens GM, Woo PC, Zaki AM, Zambon M, Ziebuhr J. 2013. Middle East respiratory syndrome coronavirus (MERS-CoV): announcement of the Coronavirus Study Group. J Virol 87:7790–7792. https://doi.org/10.1128/JVI.01244-13.
354. Li H, McCormac MA, Estes RW, Sefers SE, Dare RK, Chappell JD, Erdman DD, Wright PF, Tang YW. 2007. Simultaneous detection and high-throughput identification of a panel of RNA viruses causing respiratory tract infections. J Clin Microbiol 45:2105–2109. https://doi.org/10.1128/JCM.00210-07.
355. Drosten C, Gunther S, Preiser W, van der Werf S, Brodt HR, Becker S, Rabenau H, Panning M, Kolesnikova L, Fouchier RA, Berger A, Burguiere AM, Cinatl J, Eickmann M, Escriou N, Grywna K, Kramme S, Manuguerra JC, Muller S, Rickerts V, Sturmer M, Vieth S, Klenk HD, Osterhaus AD, Schmitz H, Doerr HW. 2003. Identification of a novel coronavirus in patients with severe acute respiratory syndrome. N Engl J Med 348: 1967–1976. https://doi.org/10.1056/NEJMoa030747.
356. Ng EK, Hui DS, Chan KC, Hung EC, Chiu RW, Lee N, Wu A, Chim SS, Tong YK, Sung JJ, Tam JS, Lo YM. 2003. Quantitative analysis and prognostic implication of SARS coronavirus RNA in the plasma and serum of patients with severe acute respiratory syndrome. Clin Chem 49: 1976–1980. https://doi.org/10.1373/clinchem.2003.024125.
357. Midgley CM, Watson JT, Nix WA, Curns AT, Rogers SL, Brown BA, Conover C, Dominguez SR, Feikin DR, Gray S, Hassan F, Hoferka S, Jackson MA, Johnson D, Leshem E, Miller L, Nichols JB, Nyquist AC, Obringer E, Patel A, Patel M, Rha B, Schneider E, Schuster JE, Selvarangan R, Seward JF, Turabelidze G, Oberste MS, Pallansch MA, Gerber SI. 2015. Severe respiratory illness associated with a nationwide outbreak of enterovirus D68 in the USA (2014): a descriptive epidemiological investigation. Lancet Respir Med 3:879–887. https://doi.org/10.1016/S2213-2600(15)00335-5.
358. Tapparel C, Cordey S, Van BS, Turin L, Lee WM, Regamey N, Meylan P, Muhlemann K, Gobbini F, Kaiser L. 2009. New molecular detection tools adapted to emerging rhinoviruses and enteroviruses. J Clin Microbiol 47:1742–1749. https://doi.org/10.1128/JCM.02339-08.
359. Edwards KM, Zhu Y, Griffin MR, Weinberg GA, Hall CB, Szilagyi PG, Staat MA, Iwane M, Prill MM, Williams JV. 2013. Burden of human metapneumovirus infection in young children. N Engl J Med 368:633–643. https://doi.org/10.1056/NEJMoa1204630.
360. Walsh EE, Peterson DR, Falsey AR. 2008. Human metapneumovirus infections in adults: another piece of the puzzle. Arch Intern Med 168:2489–2496. https://doi.org/10.1001/archinte.168.22.2489.
361. Jain S, Self WH, Wunderink RG, Fakhran S, Balk R, Bramley AM, Reed C, Grijalva CG, Anderson EJ, Courtney DM, Chappell JD, Qi C, Hart EM, Carroll F, Trabue C, Donnelly HK, Williams DJ, Zhu Y, Arnold SR, Ampofo K, Waterer GW, Levine M, Lindstrom S, Winchell JM, Katz JM, Erdman D, Schneider E, Hicks LA, McCullers JA, Pavia AT, Edwards KM, Finelli L. 2015. Community-acquired pneumonia requiring hospitalization among U.S. adults. N Engl J Med 373:415–427. https://doi.org/10.1056/NEJMoa1500245.
362. Peltola V, Waris M, Osterback R, Susi P, Ruuskanen O, Hyypia T. 2008. Rhinovirus transmission within families with children: incidence of symptomatic and asymptomatic infections. J Infect Dis 197:382–389. https://doi.org/10.1086/525542.
363. Piralla A, Rovida F, Campanini G, Rognoni V, Marchi A, Locatelli F, Gerna G. 2009. Clinical severity and molecular typing of human rhinovirus C strains during a fall outbreak affecting hospitalized patients. J Clin Virol 45:311–317. https://doi.org/10.1016/j.jcv.2009.04.016.
364. Brendish NJ, Schiff HF, Clark TW. 2015. Point-of-care testing for respiratory viruses in adults: the current landscape and future potential. J Infect 71:501–510. https://doi.org/10.1016/j.jinf.2015.07.008.
365. Lee N, Chan PK, Hui DS, Rainer TH, Wong E, Choi KW, Lui GC, Wong BC, Wong RY, Lam WY, Chu IM, Lai RW, Cockram CS, Sung JJ. 2009. Viral loads and duration of viral shedding in adult patients hospitalized with influenza. J Infect Dis 200:492–500. https://doi.org/10.1086/600383.
366. Duchamp MB, Casalegno JS, Gillet Y, Frobert E, Bernard E, Escuret V, Billaud G, Valette M, Javouhey E, Lina B, Floret D, Morfin F. 2010. Pandemic A(H1N1)2009 influenza virus detection by real time RT-PCR: is viral quantification useful? Clin Microbiol Infect 16:317–321. https://doi.org/10.1111/j.1469-0691.2010.03169.x.
367. Falsey AR, Formica MA, Treanor JJ, Walsh EE. 2003. Comparison of quantitative reverse transcription-PCR to viral culture for assessment of respiratory syncytial virus shedding. J Clin Microbiol 41:4160–4165. https://doi.org/10.1128/JCM.41.9.4160-4165.2003.
368. Falsey AR, Hennessey PA, Formica MA, Cox C, Walsh EE. 2005. Respiratory syncytial virus infection in elderly and high-risk adults. N Engl J Med 352:1749–1759. https://doi.org/10.1056/NEJMoa043951.
369. Hall CB, Weinberg GA, Iwane MK, Blumkin AK, Edwards KM, Staat MA, Auinger P, Griffin MR, Poehling KA, Erdman D, Grijalva CG, Zhu Y, Szilagyi P. 2009. The burden of respiratory syncytial virus infection in young children. N Engl J Med 360:588–598. https://doi.org/10.1056/NEJMoa0804877.
370. Seo S, Waghmare A, Scott EM, Xie H, Kuypers JM, Hackman RC, Campbell AP, Choi SM, Leisenring WM, Jerome KR, Englund JA, Boeckh M. 2017. Human rhinovirus detection in the lower respiratory tract of hematopoietic cell transplant recipients: association with mortality. Haematologica 102:1120–1130. https://doi.org/10.3324/haematol.2016.153767.
371. Wolff BJ, Bramley AM, Thurman KA, Whitney CG, Whitaker B, Self WH, Arnold SR, Trabue C, Wunderink RG, McCullers J, Edwards KM, Jain S, Winchell JM. 2017. Improved detection of respiratory pathogens by use of high-quality sputum with TaqMan array card technology. J Clin Microbiol 55:110–121. https://doi.org/10.1128/JCM.01805-16.
372. Li L, Chen QY, Li YY, Wang YF, Yang ZF, Zhong NS. 2013. Comparison among nasopharyngeal swab, nasal wash, and oropharyngeal swab for respiratory virus detection in adults with acute pharyngitis. BMC Infect Dis 13:281. https://doi.org/10.1186/1471-2334-13-281.
373. Ohrmalm L, Wong M, Rotzen-Ostlund M, Norbeck O, Broliden K, Tolfvenstam T. 2010. Flocked nasal swab versus nasopharyngeal aspirate for detection of respiratory tract viruses in immunocompromised adults: a matched comparative study. BMC Infect Dis https://doi.org/10.1186/1471-2334-10-340.
374. Heikkinen T, Marttila J, Salmi AA, Ruuskanen O. 2002. Nasal swab versus nasopharyngeal aspirate for isolation of respiratory viruses. J Clin Microbiol 40:4337–4339.
375. Moesker FM, van Kampen JJ, Aron G, Schutten M, van de Vijver DA, Koopmans MP, Osterhaus AD, Fraaij PL. 2016. Diagnostic performance of influenza viruses and RSV rapid antigen detection tests in children in tertiary care. J Clin Virol 79:12–17. https://doi.org/10.1016/j.jcv.2016.03.022.
376. Nam MH, Jang JW, Lee JH, Cho CH, Lim CS, Kim WJ. 2014. Clinical performance evaluation of the BD Veritor System Flu A+B assay. J Virol Methods 204:86–90. https://doi.org/10.1016/j.jviromet.2014.04.009.
377. Koul PA, Mir H, Bhat MA, Khan UH, Khan MM, Chadha MS, Lal RB. 2015. Performance of rapid influenza diagnostic tests (QuickVue) for influenza A and B infection in India. Indian J Med Microbiol 33(Suppl): 26–31. https://doi.org/10.4103/0255-0857.148831.
378. Stebbins S, Stark JH, Prasad R, Thompson WW, Mitruka K, Rinaldo C, Vukotich CJ, Jr, Cummings DA. 2011. Sensitivity and specificity of rapid influenza testing of children in a community setting. Influenza Other Respir Viruses 5:104–109. https://doi.org/10.1111/j.1750-2659.2010.00171.x.
379. Kuroiwa Y, Nagai K, Okita L, Ukae S, Mori T, Hotsubo T, Tsutsumi H. 2004. Comparison of an immunochromatography test with multiplex reverse transcription-PCR for rapid diagnosis of respiratory syncytial virus infections. J Clin Microbiol 42:4812–4814. https://doi.org/10.1128/JCM.42.10.4812-4814.2004.
380. Jung BK, Choi SH, Lee JH, Lee J, Lim CS. 2016. Performance evaluation of four rapid antigen tests for the detection of respiratory syncytial virus. J Med Virol 88:1720–1724. https://doi.org/10.1002/jmv.24522.
381. Bruning AH, van Dijk K, van Eijk HWM, Koen G, van Woensel JBM, Kruisinga FH, Pajkrt D, Wolthers KC. 2014. Evaluation of a rapid antigen detection point-of-care test for respiratory syncytial virus and influenza in a pediatric hospitalized population in the Netherlands. Diagn Microbiol Infect Dis 80:292–293. https://doi.org/10.1016/j.diagmicrobio.2014.08.010.
382. Tuttle R, Weick A, Schwarz WS, Chen X, Obermeier P, Seeber L, Tief F, Muehlhans S, Karsch K, Peiser C, Duwe S, Schweiger B, Rath B. 2015. Evaluation of novel second-generation RSV and influenza rapid tests at the point of care. Diagn Microbiol Infect Dis 81:171–176. https://doi.org/10.1016/j.diagmicrobio.2014.11.013.
383. Jonckheere S, Verfaillie C, Boel A, VanVaerenbergh K, Vanlaere E, Vankeerberghen A, De Beenhouwer H. 2015. Multicenter evaluation of BD Veritor system and RSV K-SeT for rapid detection of respiratory syncytial virus in a diagnostic laboratory setting. Diagn Microbiol Infect Dis 83:37–40. https://doi.org/10.1016/j.diagmicrobio.2015.05.012.
384. Bell J, Bonner A, Cohen DM, Birkhahn R, Yogev R, Triner W, Cohen J, Palavecino E, Selvarangan R. 2014. Multicenter clinical evaluation of the novel Alere i Influenza A&B isothermal nucleic acid amplification test. J Clin Virol 61:81–86. https://doi.org/10.1016/j.jcv.2014.06.001.
385. Chen L, Tian Y, Chen S, Liesenfeld O. 2015. Performance of the Co-bas((R)) Influenza A/B Assay for rapid PCR-based detection of influenza compared to Prodesse ProFlu+ and viral culture. Eur J Microbiol Immunol 5:236–245. https://doi.org/10.1556/1886.2015.00046.
386. Department of Health and Human Services. 9 February 2017. K162331 trade/device name:Xpert® Xpress Flu/RSV. https://www.accessdata.fda.gov/cdrh_docs/pdf16/k162331.pdf.
387. Salez N, Nougairede A, Ninove L, Zandotti C, de Lamballerie X, Charrel RN. 2015. Prospective and retrospective evaluation of the Cepheid Xpert(R) Flu/RSV XC assay for rapid detection of influenza A, influenza B, and respiratory syncytial virus. Diagn Microbiol Infect Dis 81:256–258. https:// doi.org/10.1016/j.diagmicrobio.2015.01.008.
388. US Food and Drug Administration. 12 November 2018. 510(k) pre-market notification: respiratory virus panel nucleic acid assay system. https://www.accessdata.fda.gov/scripts/cdrh/cfdocs/cfpmn/pmn.cfm?ID=K152579.
389. Phillips CL, Scullion M, Chonmaitree T, Hobson WL, Myers CA, Swain G, Barrett B, Holmberg K, Gilbreath JJ, Bourzac KM, Kanac K. May 2015. Pursuit of a CLIA-waived FilmArray® system for detection of multiple respiratory pathogens from a single specimen. http://www.biofire defense.com/media/CLIA-waived-FilmArray-for-Detection-of-Multi-Respiratory-Path.-from-Single-Specimen.pdf.