SARS CoV-2:
Rising to the Testing Challenge in the United States
Steven E. Cagas, PhD
Supported by:
- M. Laura Parnas,
PhD, DABCC, FAACC
Speakers:
SARS CoV-2: Rising to the Testing Challenge in the United States - - PowerPoint PPT Presentation
SARS CoV-2: Rising to the Testing Challenge in the United States Speakers: Supported by: Steven E. Cagas, PhD M. Laura Parnas, PhD, DABCC, FAACC SA RS CoV - 2 : R i s i n g t o t h e Te s t i n g C h a l l e n g e i n t h e U n i t e
Steven E. Cagas, PhD
Supported by:
PhD, DABCC, FAACC
Speakers:
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Managers within the non-commercial division of Medical & Scientific Affairs. Data presented is intended for educational use to provide the participant with scientific, evidence-based information in compliance with FDA guidelines. All trademarks, trade names, images, or logos mentioned or used herein are the property of their respective owners and are not used for purposes of promotion or as an indication of affiliation with the provider of any particular good or service.
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Information presented herein is current as of April 18, 2020.
History
cases of pneumonia of unknown origin in Wuhan City, Hubei Province, on 31-Dec-2019.
31-Jan-2020.
The Virus
announced as the causative agent by Chinese authorities on 07-Jan-2020.
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1.World Health Organization (WHO). Coronavirus. Geneva: WHO; 2020 Available from: [Accessed 26 Jan 2020]. 2.World Health Organization (WHO). Coronavirus Disease Outbreak: [Accessed 26 Jan 2020]. 3.Novel Coronavirus(2019-nCoV) Situation Report – 7. Available from: [Accessed 26 Jan 2020]. 4.Lu R, Zhao X, Li J, et al. Genomic characterization and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding ]The Lancet. Published online January 29
viruses
animals and people.
bats, which are the reservoirs for many of these viruses.
and mutation events with expansion of genetic diversity.
are responsible for approximately 5–10% of all upper and lower respiratory tract infections.
– Severe acute respiratory syndrome - SARS-CoV (2002) - China – Middle East respiratory syndrome - MERS-CoV (2012) - Saudi Arabia
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1.Peiris, J., Guan, Y. & Yuen, K. Severe acute respiratory syndrome. Nat Med 10, S88–S97 (2004). https://doi.org/10.1038/nm1143
SARS-CoV MERS-CoV
Focus of Outbreak China (2002) Saudi Arabia (2012), South Korea (2015) Animal source of human infection Civet cats Camels Infected people 8000 2494 % severe cases/mechanical ventilation 35 % 50-89% Deaths (mortality rate) 774 (<10%) 858 (34%) Distribution 29 countries 27 countries Global economy costs 30-120 billion (USD) 30-100 billion (USD) *SARS - Severe acute respiratory syndrome **MERS – Middle East respiratory syndrome
criteria.html?fbclid=IwAR30Pu8d3PT6vAR90E8xu93WryY5F5EIpSaJm6dAFcBAuHhdXi2K52SLGpw.Accesed on March 26, 2020. 2. Wu Z, McGoogan JM. Characteristics of and Important Lessons From the Coronavirus Disease 2019 (COVID-19) Outbreak in China: Summary of a Report of 72 314 Cases From the Chinese Center for Disease Control and Prevention. JAMA (2020).doi:10.1001/jama.2020.2648 3. Burrell C, Howard C & Murphy F. Chapter 31 – Coronavirus. In: Fenner and White’s Medical Virology. (2017) 437-446.
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related to exposure to a live animal market emerged in Wuhan City, China.
coronavirus as causative agent (originally named 2019-nCoV)
Organization (WHO) announced the official name
the virus, COVID-19.
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1 Chen N, Zhou M, Dong X, et al. Epidemiological and clinical characteristics of 99 cases of 2019 novel coronavirus pneumonia in Wuhan, China: a descriptive study. Lancet. 2020;395:507-13. PMID: 32007143. 2. Holshue ML, DeBolt C, Lindquist S, et al. First Case of 2019 Novel Coronavirus in the United States. N Engl J Med. 2020. PMID: 32004427. 3. Huang C, Wang Y, Li X, et al. Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Lancet. 2020;395:497-506. PMID: 31986264. 4. Wang D, Hu B, Hu C, et al. Clinical Characteristics of 138 Hospitalized Patients With 2019 Novel Coronavirus-Infected Pneumonia in Wuhan, China. JAMA. 2020. PMID: 32031570. 5. Centers for Disease Control and Prevention. Coronavirus Disease 2019 (COVID-19)–Evaluating and Reporting Persons Under Investigation (PUI). Accessed March 4, 2020. 6. Joseph T Wu*, Kathy Leung*, Gabriel M Leung, Nowcasting and forecasting the potential domestic and international spread of the 2019-nCoV outbreak originating in Wuhan, China: a modelling study Lancet 2020.
Symptoms
Fever, respiratory symptoms, abdominal pain, diarrhea, vomiting, headache, myalgia
Clinical presentation
Asymptomatic infection, mild illness, or fatal disease
Transmission
Person-to-person via respiratory secretions
Incubation
Range of 2-14 days (median – 5 days)
Clinical progression
Can cause severe respiratory disease
SARS-CoV-2
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Mild
pneumonia on chest imaging Moderate
Radiologic assessments found signs of pneumonia. Severe
kPa).* Patients whose pulmonary imaging showed significant progression of lesion >50% within 24–48 hours should be treated as severe
12 months old, RR ≥50 beats/min; 1 to 5 years old, RR ≥40 beats/min; >5 years old, RR ≥30 beats/min), excluding the effects of fever and crying
cyanosis, intermittent apnea
Critically Severe
monitoring and treatment
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* At high altitudes (>1000 m), PaO2 / FiO2 should be corrected according to the following formula: PaO2 / FiO2 x [Atmospheric pressure (mmHg)/760]. PaO2 / FiO2, oxygen partial pressure / fraction of inspiration O2.. The Chinese Clinical Guidance for COVID-19 Pneumonia Diagnosis and Treatment (7th Edition) http://kjfy.meetingchina.org/msite/news/show/cn/3337.html
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Source: https://gisanddata.maps.arcgis.com/apps/opsdashboard/index.html#/bda7594740fd40299423467b48e9ecf6 (Accessed 01/27/20)
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https://gisanddata.maps.arcgis.com/apps/opsdashboard/index.html#/bda7594740fd40299423467b48e9ecf6 Accessed 02/23/20
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https://gisanddata.maps.arcgis.com/apps/opsdashboard/index.html#/bda7594740fd40299423467b48e9ecf6 (Accessed 04/18/20)
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https://gisanddata.maps.arcgis.com/apps/opsdashboard/index.html#/bda7594740fd40299423467b48e9ecf6 (Accessed 04/18/20)
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https://covid19.healthdata.org/united-states-of-america(Accessed 04/18/20) https://nextstrain.org/ncov/global (Accessed 4/18/20)
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https://usafacts.org/visualizations/coronavirus-covid-19-spread-map/(Accessed 04/18/20) https://www.google.com/covid19/mobility/(Accessed 4/18/20)
when containment is no longer feasible in order to delay the peak of the epidemic and decrease the peak magnitude to protect healthcare capacity
significantly reduce transmission if consistently performed by the population
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Graph constructed using BCG report as of 20-mar-2020 and data from: [1] Cai et al. 2020 [2] Okba et al. 2020 [3] Long et al. 2020 [4] Amanat et al. 2020 [5] Haveri et al. 2020 [6] Woelfel et al. 2020 [7] Kissler et al. 2020 [8] Li et al. 2020
Dec Jan Feb March
Cluster of unknown pneumonia reported to WHO New Coronavirus Identified . Wuhan city shut down WHO declares coronavirus a public health emergency of international concern Daily new cases
exceeds China numbers WHO declares COVID-19 a pandemic FDA releases Guidance on EUA Procedure for labs First commercially Available real-time PCR RUO assay (US) First commercially available real-time PCR EUA assay (US) FCDC 2019-nCoV EUA assay available (US) WHO testing guidance released Corman, et al. publication on 2019-nCoV real time PCR
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The FDA provides guidance to manufacturers and labs on requirements needed for approval for EUA
*CBRN- Chemical, Biological, Radiological or Nuclear *MCM-Medical Countermeasures
The Emergency Use Authorization (EUA) authority allows FDA to help strengthen the nation’s public health protections against CBRN threats by facilitating the availability and use of MCMs needed during public health emergencies. Under section 564 of the Federal Food, Drug, and Cosmetic Act (FD&C Act), the FDA Commissioner may allow unapproved medical products or unapproved uses of approved medical products to be used in an emergency to diagnose, treat, or prevent serious or life-threatening diseases or conditions caused by CBRN threat agents when there are no adequate, approved, and available alternatives
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https://www.fda.gov/emergency-preparedness-and-response/mcm-legal-regulatory-and-policy-framework/emergency-use-authorization
*-Not intended to be fully inclusive; Please read full guidance for all assay development
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https://www.fda.gov/media/135659/download
Criteria to Guide Evaluation and Laboratory Testing for COVID-19 Laboratory Testing Strategy Recommendations for COVID-19 In Summary:
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Collection Materials PPE Testing Medical Personnel
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https://www.copanusa.com/sample-collection-transport-processing/utm-viral-transport/ https://www.nejm.org/doi/full/10.1056/NEJMvcm1412105?query=featured_ebola https://usafacts.org/visualizations/coronavirus-covid-19-spread-map https://pointofview.net/viewpoints/exploiting-medical-professionals/
High Throughput Molecular Systems Rapid Lateral Flow Immunoassay
*Instruments and Devices shown here are only representatives of the category. As of April 18, 2020 a total of 39 assays have been granted EUA authorization. See FDA website link: https://www.fda.gov/medical-devices/emergency-situations-medical-devices/emergency-use-authorizations#covid19ivd
Point of Care Molecular
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https://www.alere.com/en/home/product-details/id-now-covid-19.html https://cellexcovid.com/
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Biomarker Utility in COVID-19 Levels
Lymphocyte count (CBC) Immunological response to virus
↓
D-Dimer Activation of blood coagulation and/or disseminated coagulopathy
↑
Lactate Dehydrogenase (LDH) LDH levels may be useful to predict disease severity. May indicate organ damage
↑
Mild changes in biomarkers – Non-specific
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Biomarker Utility in COVID-19 Levels
AST and ALT Monitoring of liver function. Indicate liver injury. Potential prognostic indicators
↑
Procalcitonin Marker of bacterial infection Can be elevated if bacterial co-infection present
N or ↑
CRP Marker of inflammation/response to infection
N or ↑
Ferritin Acute phase protein
N or ↑
Lactate Marker of tissue hypoperfusion. Indicates organ damage
↑
Mild-moderate changes in biomarkers Inflammatory state
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Biomarker Utility in COVID-19 Levels
CRP Marker of inflammation/severe response to infection
↑↑
Ferritin Acute phase protein. Potential prognosis for disease severity and progression
↑↑
IL-6 Marker of inflammation. Potential prognosis for disease severity and
↑↑
Procalcitonin Marker of bacterial infection Can be elevated if bacterial co-infection present and sepsis develops
N or ↑↑
TnT-hs Diagnosis of AMI, risk stratification for ACS. Indicates cardiac injury
↑
NT-Pro BNP Diagnosis of HF in acute and non acute setting
↑
Lactate Marker of tissue hypoperfusion. Indicates widespread organ damage
↑↑
Hyperinflammatory host response
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The Chinese Clinical Guidance for COVID-19 Pneumonia Diagnosis and Treatment (7th Edition):
inflammatory biomarkers, such as IL-6 and CRP is included as a warning signal for severe and critically severe COVID-19 disease types
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CRP, C-reactive protein; IL-6, interleukin-6. The Chinese Clinical Guidance for COVID-19 Pneumonia Diagnosis and Treatment (7th Edition) http://kjfy.meetingchina.org/msite/news/show/cn/3337.html
hospitalized patients with confirmed COVID-19 (died n=68; discharged n=82)
greater in patients that died compared to discharged patients (p<0.001 for all)
Laboratory parameters for patients with COVID-19 by
CRP (mg/L) IL-6 (ng/mL) cTn (pg/mL) Myoglobin (ng/mL) p<0.001 p<0.001 p<0.001 p<0.001 400 350 300 250 200 150 100 50 600 500 400 300 200 100 300 250 200 150 100 50 30 25 20 15 10 5 Died Discharged
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CRP, C-reactive protein; cTn, cardiac troponin; IL-6, interleukin-6.
p://kjfy.meetingchina.org/msite/news/show/cn/3337.html
associated with a variety of infectious diseases2
– A cytokine storm is also a common treatment-related toxicity associated with CAR-T cell therapy3,4
CAR-T, chimeric antigen receptor T cell.
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Graph constructed using BCG report as of 20-mar-2020 and data from: [1] Cai et al. 2020 [2] Okba et al. 2020 [3] Long et al. 2020 [4] Amanat et al. 2020 [5] Haveri et al. 2020 [6] Woelfel et al. 2020 [7] Kissler et al. 2020 [8] Li et al. 2020
days after symptom onset1
at a similar time period2
than those of IgM against SARS-CoV-21
days or longer after symptom onset, the rate of seropositivity was 94% for anti-NP IgG, 88% for anti-NP IgM, 100% for anti-RBD IgG, and 94% for anti-RBD IgM1
clinical severity1
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Type of test Measure Value Beneficiary
Nucleic acid amplification test for viral RNA
(Nasopharyngeal swab,
sputum, bronchoalveolar lavage fluid, others)
Direct detection of infection i.e. Current infection with SARS-CoV-2
Inform individual of infections status so they can anticipate course of illness and take action to prevent transmission Individual Inform patient management and actions needed to prevent transmission Healthcare or long term care facility Inform actions needed to prevent transmission Public health
Antibody detection Detection of immune response i.e. Past exposure to SARS-CoV-2
Detect susceptible individuals (antibody negative) and those previously infected Identify those potentially immune to SARS-CoV-2 (if tests can detect protective immunity individuals could return to work Identify individuals with neutralizing antibodies Healthcare facilities: experimental therapy Facilitate contact tracing and surveillance Public health
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Robin Patel et al. mBio 2020; doi:10.1128/mBio.00722-20
– Seroprevalence studies
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Robin Patel et al. mBio 2020; doi:10.1128/mBio.00722-20
– How long will the vaccine be protective for?
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Device Pathway and Specifics FDA Notification Type/Distribution
Serology (IgM, IgG)
inform infection status”
reports (therefore built into the method sheet) Email Notice of Distribution to FDA. Start distributing immediately. Serology (IgM, IgG) EUA* Pre-EUA EUA Antigen (detects SARS-CoV-2 antigens directly from clinical specimens) EUA* Pre-EUA EUA
*EUA products can be distributed prior to EUA authorization after validation of the test and while the EUA request is being prepared. After notification of validation, FDA feels 15 business days is a reasonable timeframe for submitting the EUA. As with non-EUA path, the manufacturer should notify FDA of intent to distribute. FDA doesn’t have a formal EUA clock (i.e. can’t state how long it will take to grant authorization of EUA).
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Source: FDA Guidance-Policy for Diagnostic Tests for Coronavirus Disease-2019 during the Public Health Emergency (16-March-2020)
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Source: FDA Guidance-Policy for Diagnostic Tests for Coronavirus Disease-2019 during the Public Health Emergency (16-March-2020)
Device Minimum Validation Studies Recommended by FDA Notes
Serology (IgM, IgG)
not listed in the 16 March guidance, but has been communicated by FDA as an additional requirement) FDA recommends that clinical accuracy should be established on human specimens from patients with microbiologically confirmed COVID-19 infection. Antigen
For devices claiming multiple clinical matrices, the most challenging matrix should be used in your validation studies.
For both, Clinical Agreement Studies are intended to establish the performance characteristics (e.g., sensitivity/PPA, specificity/NPA) of the test.
Drug name Manufacturer Mechanism of Action Preliminary antiviral evidence
Repurposed agents Kaletra (Ritonavir+ Lopinavir) Abbvie HIV protease inhibitors Approved for HIV treatment. No strong evidence from China but used
(https://www.nejm.org/doi/full/10.1056/NEJMoa2001282) Chloroquine / Hydroxychloroquine Many Endosomal acidification fusion inhibitor Approved for malaria. In vitro studies showed encouraging
Arbidol (Umifenovir) S protein/ACE2, membrane fusion inhibitor Investigational agents Remdesivir Gilead Sciences RNA polymerase inhibitor Originally intended for Ebola but not effective, preliminary effectiveness against MERS. Data from China
Favipiravir Toyama Chemical of Japan inhibits RdRp https://www.ncbi.nlm.nih.gov/pubmed/28769016 Adjunctive therapies Actemra (Tocilizumab) Roche IL-6 inhibitor (immuno-modulator) Approved for rheumatoid arthritis. Encouraging evidence from China. (https://www.roche.com/media/releases/med-cor-2020-03-19.htm) Deferoxamine Regenerative Medicine Research Center, Iran Iron chelator (Desferal) https://www.nature.com/articles/nrmicro1930
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Sanders JM, et. al. JAMA. Published online April 13, 2020. doi:10.1001/jama.2020.6019
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Sanders JM, et. al. JAMA. Published online April 13, 2020. doi:10.1001/jama.2020.6019
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