influenza and other respiratory viruses update-- 2015strains 1918 1957 1968 1977 1997 1999 2003 h1...
TRANSCRIPT
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Influenza and other Respiratory Viruses Update--
2015
Pete Shult, PhD CDD Director & Emergency Laboratory Response
and
Erik Reisdorf, MPH, M(ASCP)CM
Surveillance and Virology Lab-Team Lead
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Learning Objectives
• Review of the 2013-2014 influenza season.
• Avian influenza
• Emerging diseases impacting community health.
• Review of new point-of-care nucleic acid amplification assays.
• Discuss surveillance strategy for 2015-2016
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Influenza The latest information
www.cdc.gov/flu/index.htm
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What We’re Dealing with Now
Ebola virus
EV-D68
MERS CoV
Dengue fever
Chikungunya
Anthrax
Measles/mumps
… So what’s the big deal with influenza?
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The Changeability of Influenza Antigenic Drift →Seasonal Influenza
www.flu.gov
Antigenic Drift Manifests in HA and NA as a result of continuous and gradual accumulation of point mutations in the HA and NA genes
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Influenza in the U.S.
2014-15
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So what?
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Influenza in WI, 2014-2015
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A Peak (%) was 12/20/14 A Peak (# positives) was 1/3/15
So what?
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Influenza 2014-15
What was expected…
A/Texas/50/2012(H3N2), the vaccine strain
What we got instead…
A/Switzerland/9715293/2013(H3N2)
… a significant antigenic drift!
What were the consequences…
Vaccine ineffectiveness
Difficult virus to work with and characterize
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Seasonal Influenza Vaccines
How effective?
http://www.cdc.gov/flu/professionals/vaccination/ effectivenessqa.htm
http://www.cdc.gov/flu/professionals/vaccination/ effectiveness-studies.htm
9329 23
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Vaccination Rates---2013-14 and 2014-15 General Population
http://www.cdc.gov/flu/professionals/vaccination/
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Influenza in the U.S.
2014-15
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Influenza in the U.S.
2014-15
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H3N2 H3N2
pH1N1
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Influenza Hospitalizations
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H
2014-15
In contrast, 2013-14
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Influenza in the U.S.
Early 2015-16
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Early 2015-2016
Season…. PH Region
Date Received
Influenza type
S 8/7/2015 Flu A (H3)
S 8/18/2015 Flu A (H3)
NE 8/25/2015 Flu A (H3), Flu B
S 8/28/2015 Flu A (H3)
S 9/2/2015 Flu A (H3)
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… plus several other Flu A (H3) reported by clinical labs, not confirmed by WSLH, in S and SE Regions
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The Changeability of Influenza Antigenic Shift
www.flu.gov
Antigenic Shift When a new subtype (a novel HA and/or NA) of influenza A emerges in the host (humans)
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Aquatic birds
Dogs
Humans Pigs Horses Poultry
Cats
Aquatic mammals
Influenza at the Human-Animal Interface
Influenza A H1 - H17 N1 – N10
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WISCONSIN STATE
LABORATORY OF HYGIENE
Potential Pandemic
strains
1918 1957 1968 1977 1997
1999
2003
H1
2009 H1pdm
H2
Avian H7
Avian H5
Avian H9
H3
Type B B/Vic
1940
Type A
Swine H1
H1
Timeline of Influenza Viruses in Humans
B/Yam
2009
2011
Swine H3
2013
19
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Global Influenza Concerns: A(H5N1) and A(H7N9)
http://www.who.int/csr/disease/avian_influenza/en/
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Aquatic birds
Dogs
Humans Pigs Horses Poultry
Cats
Aquatic mammals
Influenza: Emergence of Novel Flu A Subtypes Chickens and turkeys take center stage
Influenza A
H1 - H17
N1 – N10
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Avian Influenza Terminology
• Highly Pathogenic Avian Influenza
• Bird flu
• Pathogenicity refers to avian NOT human
• H5N1, H5N2 and H5N8 are collectively referred to as H5Nx
• H5N2 and H5N8 have both been detected in the US in 2015.
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Emergence of Avian Flu (H5)
• Avian Influenza (H5) emerged in North America (November 2014).
• Many flocks in the area were infected by December including those in the US.
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Data and image courtesy of Hon Ip, USGS, National Wildlife Health Research Center, Madison, WI
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Current Situation
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State Flyway
Confirmed
Detections
Last Detection
Reported Total Birds
Arkansas Mississippi 1 March 11, 2015 40,020
California Pacific 2 February 12, 2015 247,300
Idaho Pacific 1 January 16, 2015 30
Indiana Mississippi 1 May 10, 2015 pending
Iowa Mississippi 75 June 17, 2015 31,723,300
Kansas Central 1 March 13, 2015 10
Minnesota Mississippi 105 June 5, 2015 8,996,050
Missouri Mississippi 3 May 5, 2015 53,100
Montana Central 1 April 2, 2015 40
Nebraska Central 4 June 4, 2015 3,794,100
North Dakota Central 2 April 24, 2015 111,500
Oregon Pacific 2 February 17, 2015 200
South Dakota Central 10 June 1, 2015 1,168,200
Washington Pacific 5 February 3, 2015 6,710
Wisconsin Mississippi 10 May 6, 2015 1,950,733
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Detections by State Since December 2014, the United States Department of Agriculture has confirmed several cases of highly pathogenic avian influenza (HPAI) H5 in
the Pacific, Central, and Mississippi flyways (or migratory bird paths). The disease has been found in wild birds, as well as in a few backyard and
commercial poultry flocks. The Centers for Disease Control and Prevention (CDC) considers the risk to people from these HPAI H5 infections to be
low. No human cases of these HPAI H5 viruses have been detected in the United States, Canada, or internationally.
Wisconsin: • 10 flocks infected • Almost 2 million infected • Last detection in May
2015
Data source: USDA, Animal and Plant Health Inspection Service (Sept. 2, 2015)
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H5Nx Distribution
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H5Nx Diagnostic Testing • Most commercial assays will
NOT be able to differentiate seasonal viruses from novel strains.
• The WSLH and MHDL have PCR tests that can identify H5Nx strains.
• Preferred specimen are combined NP/OP swab in virus transport medium.
• Testing is performed on WDPH approved specimens.
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Key Points • There have been NO human
cases.
• CDC considers general risk is low.
• Risk for people handling sick/dead poultry.
• No risk for eating cooked poultry products.
• Symptoms may be atypical.
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Patients with illness and close contact should contact their LHD or WDPH epidemiologist for follow-up evaluation.
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It’s NOT all about influenza…. other diseases of public health
importance…..
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Enterovirus D68 Current Situation
• August 2014 to Jan. 2015 >1,100 EV D68 cases.
• Majority of cases in children with asthma or a history of wheezing.
• 33% tested positive for rhinovirus or another enterovirus.
• Many experienced severe disease.
• No cases reported this season
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EV Image source: CDC (2015)
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Enterovirus D68
Background
Enteroviruses are very common respiratory viruses (10-15M/year).
Transmission respiratory route (person-to- person)
Cause a wide variety of illnesses.
Sometimes disease can be severe.
There are no vaccines or antiviral therapeutics.
Children with asthma are more vulnerable.
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Enterovirus D68
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MMWR (2006) Enterovirus Surveillance—US, 1983-2005. 55(SS08) 1-20.
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Enterovirus D68
• Large diversity of enteroviruses circulate seasonally.
• EV D68 has been rare
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Enterovirus D68 Diagnostic Testing
Genetically very similar to rhinoviruses.
Most PCR assays cannot accurately discriminate!
Some commercial PCR assays may have variable sensitivities for EV D68.
Testing is limited to cases that are WDPH approved.
Combined NP/OP is the preferred specimen.
WSLH is performing Enterovirus PCR on approved specimens.
Specific EV D68 typing at CDC.
EUA test will be available should the situation warrant.
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http://www.slh.wisc.edu/enterovirus-d68-confirmed-in-wisconsin/
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Emerging Disease Threats
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MERS-Coronavirus
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MERS-Coronavirus
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Republic of Korea (n=166)
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MERS-CoV What we know!
• Virus is different than SARS-Coronavirus and seasonal coronavirues.
• First cases in 2012.
• All cases linked to the Arabian Peninsula.
• Virus does not easily transmit from person-to- person.
• Requires close personal contact.
• Genetically stable.
• Bats and camels play a role in host transmission; dynamics not well understood.
• Healthcare workers at higher risk.
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Influenza Diagnostic Technology
Update
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Rapid Influenza Diagnostic Tests (RIDTs)
A perennial discussion
www.cdc.gov/flu/professionals/diagnosis/clinician_guidance_ridt.htm
www.jointcommission.org/siras.aspx
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Improving RIDT Performance There are new regulations in our future
• New nomenclature proposed:
Influenza Virus Antigen Detection test
https://www.federalregister.gov/articles/2014/05/22#food-and-drug-administration
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If you are an RIDT(IVAD) user… What would the new regulations entail?
• Reclassifying RIDTs from Class I to Class II
• Add “special controls” to ensure device safety and effectiveness
• Set minimum clinical performance criteria for sensitivity and specificity
• Identify appropriate comparator tests for new assays
• Accuracy assessed by manufacturers each year and when novel strain emerges
When will this happen?
Possible impacts:
Better tests? Fewer tests?
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Rapid Influenza Diagnostic Tests The Next Generation
• Incorporates reader instrument
• Reduces subjectivity
• Improved sensitivity
• CLIA-waved
• Data transmission capabilities
• A step in the right direction
Quidel Sofia Influenza A & B
B-D Veritor Influenza A & B
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Quidel Sofia sites within WI Summer 2014-15
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Temte, et al study, 2015 The power of rapid real-time reporting
ICEID meeting, Atlanta, GA
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Rapid Influenza Diagnostic Tests n …
Molecular Results in Minutes!
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http://www.alere.com/us/en.html
https://usdiagnostics.roche.com/en/cobas-liat-lab.html#overview
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Influenza Molecular Tests - PCR Commercially Available - FDA Cleared
• CDC periodically updates list
• More and more clinical labs using these
• Literature in general indicates high level of performance
• Concerns:
• Detection of novel influenza A’s
• Variable subtyping capabilities
http://www.cdc.gov/flu/professionals/diagnosis/molecular-assays.htm
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Douglas
Bayfield
Ashland Saywer
Washburn
Burnett
Polk Barron Rusk
Price
Iron
Vilas
Oneida
Lincoln
Taylor
Chippewa St. Croix
Pierce
Dunn
Pepin
Eau Claire
Buffalo
Trempealeau
Jackson
Monroe
Clark Marathon
Wood Portage
Juneau
Adams
Sauk
LaCrosse
Vernon
Crawford
Richland
Grant
LaFayette Green
Rock
Dane
Iowa
Columbia Dodge
Jefferson Waukesha
Walworth
Kenosha
Racine
Ozaukee
Sheboygan Fond du Lac
Green Lake
Marquette
Waushara Winnebago
Calumet
Manitowoc
Kewaunee
Brown
Outagamie
Waupaca
Shawano
Menominee
Oconto Langlade
Forest
Marinette
Florence
Door
Milwaukee
Washington
Wisconsin Labs with Flu PCR Capacity, 2015
6 8
Influenza PCR Labs (n=48)
3
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U.S. Influenza Surveillance www.cdc.gov/flu/weekly
CDC
Health Departments Virologic
Surveillance
Mortality Surveillance
Morbidity Surveillance
State-level data to state surveillance coordinators
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“Right-Sizing” Influenza Virologic Surveillance The Importance of “Alternative Data”
Right Size Roadmap
http://www.aphl.org/aphlprograms/infectious/influenza/Pages/Influenza-Virologic-
Surveillance-Right-Size-Roadmap.aspx
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Alternative data is existing virologic data from non-PHL sources that can be used to supplement PHL data for improved situational awareness
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Influenza Virologic Surveillance Increasing Role for the Clinical Lab
• Provide situational awareness • Clinical lab testing data CDC
Detect novel or reassortant viruses
• Inform vaccine strain selection
Detect and monitor antiviral resistance • Specimens/isolates → WSLH → CDC
from clinical labs
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Via WSLH or directly
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Laboratory Surveillance Plan, 2015-2016
What YOU need to know!
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Influenza Surveillance in Wisconsin
Multi-element approach
1. Rapid Influenza Diagnostic Testing (RIDT) Sites
>50% of Influenza testing in WI.
Confirmatory testing during periods of low prevalence!
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WSLH can provide confirmatory testing for out-of-season positives and the first two positive influenza A and influenza B specimens.
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Influenza Surveillance in Wisconsin
Multi-element approach
2. Enrolled Surveillance Sites
18 labs in 5 public health regions.
Provide randomized specimens weekly.
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Request to continue to submit the first 3 specimens per week with influenza test requests to WSLH.
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Influenza Surveillance in Wisconsin
Multi-element approach
3. PCR Labs
“Gold Standard” testing.
Provide weekly testing data summary reports.
48 WI PCR labs!
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Request to report both the number positive and the number tested weekly. **Send Flu A unsubtypable specimens when subtyping for both 2009 H1N1 and seasonal H3 were attempted (Ct<35).
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Laboratory-based Surveillance
All Clinical Laboratories performing influenza diagnostic testing
All Labs: •Send those with international travel histories •Sampling of influenza-related hospitalizations •Unusual presentations/results •Contact with swine/ sick or dead poultry •Antiviral treatment failure
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Other Pathogens of Public Health Importance to Report
• B. pertussis/ parapertussis
• RSV
• Non-influenza respiratory viruses
• Grp A Strep
• VZV
• Rotavirus
NEW! Gastropathogen PCR
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Reporting Lab Results
There are two options…..
1. Web-based reporting
2. FAX reporting
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What is the WSLH able to provide to support participating labs?
Specimen collection supplies.
Specimen shippers & packaging supplies.
NO cost specimen transport.
Influenza confirmatory testing.
Influenza PCR validation specimen panel.
Weekly updated surveillance data (B. pertussis, Influenza, RSV & others).
Laboratory Surveillance Reports
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Educational Opportunities
WCLN Regional Meeting (2015)
• Laboratory preparedness and biosafety
• P.A.C.E® approved.
Locations Date
• Rice Lake, WI Oct. 13
• Kimberly, WI Oct. 14
• Wisconsin Dells, WI Oct. 16
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Your participation in the Wisconsin surveillance system is vital to monitor for emerging novel strains with pandemic potential and other pathogens that impact community health.
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WSLH Surveillance Coordinators 1. Erik Reisdorf Virology Lab-Team Lead Ph: 608-262-1021 [email protected] 2. Mary Wedig Electronic Reporting Coordinator Ph: 608-890-0353 [email protected]