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Diagnostics
Antigen-based
- Brihn, A; Chang, J; O. Yong K; Balter, S; et al. Diagnostic Performance of an Antigen Test with RT-PCR for the Detection of SARS-CoV-2 in a Hospital Setting – Los Angeles County, California, June-August 2020. MMWR Morb Mortal Wkly Rep 2021, May 14 (70)19:702-706.
- Chapman, AP; Tang, X.; Lee, JR; Chida, A; Mercer, K; et al. Rapid development of neutralizing and diagnostic SARS-COV-2 mouse monoclonal antibodies. Sci Rep 2021, May 6;(1):9682.
- James AE, Gulley T, Kothari A, Holder K, er al. Performance of the BinaxNOW coronavirus disease 2019 (COVID-19) Antigen Card test relative to the severe acute respiratory coronavirus virus 2 (SARS-CoV-2) real-time reverse transcriptase polymerase chain reaction (rRT-PCR) assay among symptomatic and asymptomatic healthcare employees. Infect Control Hosp Epidemiol. 2021 Jan:1-3.
- Moreno, G. K.; Braun, K. M.; Pray, I. W.; SARS-CoV-2 transmission in intercollegiate athletics not fully mitigated with daily antigen testing. Clin Infect Dis. 2001, May 12; ciab343. doi: 10.1093/cid/ciab343.
- Pray, I. W.; Ford, L.; Cole, D.; et al. Performance of an antigen-based test for asymptomatic and symptomatic SARS-CoV-2 testing at two university campuses – Wisconsin, September-October 2020. MMWR Morb Mortal Wkly Rep 2021 Jan 1;69(5152):1642-1647.
- Shah, M. M.; Salvatore, P. P. et al. Performance of Repeat BinaxNOW Severe Acute Respiratory Syndrome Coronavirus 2 Antigen Testing in a Community Setting, Wisconsin, November 2020-December 2020. Clin Infect Dis. 2021 July 15; (73); S54-s57.
- Pollock, N. R.; Tran, K.; Jacobs, J. R. et al. Performance and Operational Evaluation of the Access Bio CareStart Rapid Antigen Test in a High-Throughput Drive-Through Community Testing Site in Massachusetts. Open Forum Infect Dis. 2021 May 26;8(7).
- Ige, F.; Hamada, Y.; Steinhardt, L.; et al. Validation of commercial SARS-CoV-2 immunoassays in a Nigerian population. Microbiol Spectrum. 2021 Oct.6; doi: 10.1128/Spectrum.00680-21; e0068021
- Ford, L.; Lee, C.; Pray, I. W.; et al. Epidemiologic characteristics associated with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) antigen-based test results, real-time reverse transcription polymerase chain reaction (rRT-PCR) cycle threshold values, subgenomic RNA, and viral culture results from university testing. Clin Infect Dis. 2021 Sept. 15. Doi: 10.1093/cid/ciab303; 73(6) e1348-e1355
- Schulte PA, Piacentino JD, Weissman DN, et al. Proposed Framework for Considering SARS-CoV-2 Antigen Testing of Unexposed Asymptomatic Workers in Selected Workplaces. J Occup Environ Med. 2021 May.
Genetic-based (i.e.,Nucleic Acid Amplification Test (NAAT))
- Kandetu, T. B.; Dziuban, E. J.; Sikuvi, K.; et al. Persistence of positive RT-PCR results for over 70 days in two travelers with COVID-19. Disaster Med Public Health Prep 2020 Nov 19;1-2Patel MR, Carroll D, Ussery E, et al. Performance of oropharyngeal swab testing compared to nasopharyngeal swab testing for diagnosis of COVID-19 -United States, January-February 2020. Clin Infect Dis. 2020 Jun 16;ciaa759.
- Bushman D, Alroy KA, Greene SK, et al. Detection and genetic characterization of community-based SARS-CoV-2 infections—New York City, March 2020external icon. MMWR Morb Mortal Wkly Rep. 2020 Jul 17;69(28):918-922.
- Patel MR, Carroll D, Ussery E, et al. Performance of oropharyngeal swab testing compared to nasopharyngeal swab testing for diagnosis of COVID-19 -United States, January-February 2020. Clin Infect Dis. 2020 Jun 16;ciaa759.
Serological
- Akinbami, L. J.; Petersen, L. R.; Sami, S.; et al. COVID-19 symptoms and SARS-CoV-2 antibody positivity in a large survey of first responders and healthcare personnel, May-July 2020. Clin Infec Dis. 2021 Jan 30. doi: 10.1093/cid/ciab080. Online ahead of print.
- Biggs HM, Harris JB, Breakwell L; et al. Estimated community seroprevalence of SARS-CoV-2 antibodies—Two Georgia counties, April 28-May 3, 2020. MMWR Morb Mortal Wkly Rep. 2020 Jul 24;69(29):965-970.
- Havers FP, Reed C, Lim T, et al. Seroprevalence of antibodies to SARS-CoV-2 in 10 sites in the United States, March 23-May 12, 2020. JAMA Intern Med. 2020 Jul 21. doi: 10.1001/jamainternmed.2020.4130. Online ahead of print.
- Payne DC, Smith-Jeffcoat SE, owak G, et al. SARS-CoV-2 infections and serologic responses from a sample of U.S. Navy Service members – USS Theodore Roosevelt, April 2020. MMWR Morb Mortal Wkly Rep. 2020 Jun 12;69(23):714-721.
- Self WH, Tenforde MW, Stubblefield WB, et al. Seroprevalence of SARS-CoV-2 among frontline health care personnel in a multistate hospital network – 13 Academic Medical Centers, April-June 2020. MMWR Morb Mortal Wkly Rep. 2020 Sep 4;69(35):1221-1226.
- Stubblefield WB, Talbot HK, Feldstein LR, et al. Seroprevalence of SARS-CoV-2 among frontline healthcare personnel during the first month of caring for COVID-19 patients – Nashville, Tennessee. Clin Infect Dis. 2020 Jul 6;ciaa936.
- Stubblefield, WB; Talbot, HK; Feldstein, LR; et al. Seroprevalence of SARS-CoV-2 Among Frontline Healthcare Personnel During the First Month of Caring for Patients With COVID-19-Nashville, Tennessee. Clin Infect Dis. 2021, May 4;72(9):1645-1648.
Sampling/Collection Methods
- English, K.; Lei, U.; Shipman-Amuwo, F.; et al. Community-Based Testing for SARS-CoV-2 – Chicago, Illinois, May-November 2020. MMWR Morb Mortal Wkly Rep 2021 May 14; 70(19):701-711.
- Flannery, B.; Meece, J. K.; Williams, J. V.; et al. Systematic Testing for Influenza and Coronavirus Disease 2019 Among Patients With Respiratory Illness. Clin Infect Dis. 2021 May 4;72(9): e426-e428.
- Salvatore PP, Bhattacharyya S, Christensen K, et al. Reduced sensitivity of SARS-CoV-2 PCR testing with single-nostril nasal swabs. J Clin Virol. 2021 Jun;140:104852.
- Schulte, P. A.; Weissman, D. N.; Luckhaupt, S. E.; et al. Considerations for pooled testing of employees for SARS-CoV-2. J Occup Environ Med 2021 Jan 1;63(1):1-9.
- Lane MA, Brownsword EA, Morgan JS, et al. Bioaerosol sampling of a ventilated patient with COVID-19. Am J Infect Control. 2020 Aug 4;S0196-6553(20)30760-4.
- Đỗ, T. H.; Nguyễn, V. T.; Đinh, T.; et al. Environmental sampling for SARS-CoV-2 at a reference laboratory and provincial hospital in central Vietnam, 2020. Western Pac Surveill Response J. 2021 Jul-Sept. 12(3); 47-55; DOI: 10.5365/wpsar.2020.11.4.002
- Grijalva, C. G.; Rolfes, M.; Zhu, Y.; et al. Performance of self-collected anterior nasal swabs and saliva specimens for detection of SARS-CoV-2 during symptomatic and asymptomatic periods. Open Forum Infect Dis; 2021 Nov.8(11);ofab484;DOI: 10.1093/ofid/ofab484
- Sahni, L. C.; Avadhanula, V.; Ortiz, C. S.; Feliz, K. E.; John, R. E.; Brown, C. A.; Lively, J. Y.; Rha, B.; Munoz, F. M.; Piedra, P. A.; Dunn, J. J.; Boom, J. A. Comparison of Mid-Turbinate and Nasopharyngeal Specimens for Molecular Detection of SARS-CoV-2 Among Symptomatic Outpatients at a Pediatric Drive-Through Testing Site. J Pediatric Infect Dis Soc. 2021 Jun 26; doi: 10.1093.
Epidemiology
- Bushman D, Alroy KA, Greene SK, et al. Detection and genetic characterization of community-based SARS-CoV-2 infections—New York City, March 2020. MMWR Morb Mortal Wkly Rep. 2020 Jul 17;69(28):918-922.
- Chung E, Chow EJ, Wilcox NC, et al. Comparison of Symptoms and RNA Levels in Children and Adults With SARS-CoV-2 Infection in the Community Setting.. JAMA Pediatr. 2021 Jun.
- Dawson, P; Worrell, MC; Malone, S; et al. Pilot Investigation of SARS-CoV-2 Secondary Transmission in Kindergarten Through Grade 12 Schools Implementing Mitigation Strategies – St. Louis County and City of Springfield, Missouri, December 2020. MMWR Morb Mortal Wkly Rep 2021 Mar 26; 70(12):449-455.
- Guagliardo, S. A. J.; Prasad, P. V.; Rodriguez, A.; et al. Cruise ship travel in the era of COVID-19: A summary of outbreaks and a model of public health interventions. Clin Infect Dis. 2021 May 12; ciab433. doi: 10.1093/cid/ciab433. Online ahead of print.
- Hakim, A. J.; Victory, K. R.; Chevinsky, J. R.; Mitigation policies, community mobility, and COVID-19 case counts in Australia, Japan, Hong Kong, and Singapore. Public Health. 2021 Feb 12;194:238-244.
- Hamer, SA; Ghai, RR; Zecca, I. B; et al. SARS-CoV-2 B.1.1.7 variant of concern detected in a pet dog and cat after exposure to a person with COVID-19, USA. Transbound Emerg Dis. 2021, May 6; doi: 10.1111/tbed.14122. Online ahead of print.
- Hershow, RB; Wu, K; Lewis, NM; et. al. Low SARS-CoV-2 Transmission in Elementary Schools – Salt Lake County, Utah, December 3, 2020-January 31, 2021. MMWR Morb Mortal Wkly Rep 2021 Mar 26; 70(12):442-448.
- Howard-Anderson, J.; Adams, C.; Sherman, A; et al. Occupational risk factors for SARS-CoV-2 infection among healthcare personnel: A cross-sectional analysis of subjects enrolled in the COPE Study. JAMA Intern Med 2021 Feb 9; 1-20.
- Barrios, L. C.; Green, R. F.; Honein, M. A. The role of testing in reducing SARS-CoV-2 transmission on college campuses. J Adolesc Health 2021 Jan;68(1):1-2.
- Romero, L.; Pao, L. Z.; Clark, H.; et al. Health center testing for SARS-CoV-2 during the COVID-19 pandemic – United States, June 5-October 2, 2020. MMWR Morb Mortal Wkly Rep 2020 Dec 18;69(50):1895-1901.
- Hobbs, C. V.; Martin, L. M.; Kim, S. S.; et al. Factors associated with positive SARS-CoV-2 test results in outpatient health facilities and emergency departments among children and adolescents aged <18 years – Mississippi, September-November 2020. MMWR Morb Mortal Wkly Rep 2020 Dec 18;69(50):1925-1929.
- Schrodt, CA; Malenfant, JH; Hunter, JC; et al. Investigation of a Suspect SARS-CoV-2 and Influenza A Mixed Outbreak: Lessons Learned for Long-Term Care Facilities Nationwide. Clin Infect Dis. 2021 May 6; doi: 10.1093/cid/ciab372. Online ahead of print.
- Lutrick K, Ellingson KD, Baccam Z, et al. COVID-19 Infection, Reinfection, and Vaccine Effectiveness in a Prospective Cohort of Arizona Frontline/Essential Workers: The AZ HEROES Research Protocol. JMIR Res Protoc. 2021 May.
- Salvatore PP, Dawson P, Wadhwa A, et al. Epidemiological Correlates of Polymerase Chain Reaction Cycle Threshold Values in the Detection of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2). Clin Infect Dis. 2021 Jun;72(11):e761-e7.
- Holden TM, Richardson RAK, Arevalo P, et al. Geographic and demographic heterogeneity of SARS-CoV-2 diagnostic testing in Illinois, USA, March to December 2020.. BMC Public Health. 2021 Jun;21(1):1105.
- Wang L, Fan X, Bonenfant G, et al. Susceptibility to SARS-CoV-2 of Cell Lines and Substrates Commonly Used to Diagnose and Isolate Influenza and Other Viruses. Emerg Infect Dis. 2021 May;27(5):1380-92.
- Lendvay TS, Chen J, Harcourt BH, et al. Addressing personal protective equipment (PPE) decontamination: Methylene blue and light inactivates severe acute respiratory coronavirus virus 2 (SARS-CoV-2) on N95 respirators and medical masks with maintenance of integrity and fit. Infect Control Hosp Epidemiol. 2021 May:1-10.
- Lindsley WG, Blachere FM, Beezhold DH, et al. A comparison of performance metrics for cloth face masks as source control devices for simulated cough and exhalation aerosols. medRxiv. 2021 Feb. Preprint
- Paul P, France AM, Aoki Y, et al. Genomic Surveillance for SARS-CoV-2 Variants Circulating in the United States, December 2020-May 2021. MMWR Morb Mortal Wkly Rep. 2021 Jun;70(23):846-50.
Clinical
- CDC COVID-19 Vaccine Breakthrough Case Investigations Team. COVID-19 Vaccine Breakthrough Infections Reported to CDC – United States, January 1-April 30, 2021. MMWR. Morbidity and mortality weekly report vol. 70,21 792-793. 28 May. 2021, doi:10.15585/mmwr.mm7021e3.
- COVID-19 Investigation Team. Clinical and virologic characteristics of the first 12 patients with coronavirus disease 2019 (COVID-19) in the United States. Nat Med. 2020 Jun;26(6):861-868. Epub 2020 Apr 23
- Miller SE, Goldsmith CS. Caution in identifying coronaviruses by electron microscopy. J Am Soc Nephrol. 2020 Sep;31(9):2223-2224.
- Goldsmith GS, Miller SE, Martines RB, et al. Electron microscopy of SARS-CoV-2: a challenging task. Lancet. 2020 May 30;395(10238):e99.
- Harcourt J, Tamin A, Lu X , et al. Severe acute respiratory syndrome coronavirus 2 from patient with 2019 novel coronavirus disease, United States. Emerg Infect Dis. 2020 Jun;26(6):1266-1273.
- Ko, JY; DeSisto, CL; Simeone, RM; Adverse pregnancy outcomes, maternal complications, and severe illness among U.S. delivery hospitalizations with and without a COVID-19 diagnosis. Clin Infect Dis. 2021 May 12;ciab344. doi: 10.1093/cid/ciab344. Online ahead of print.
Coronavirus Pathogenesis
- Bhatnagar, J.; Gary, J.; Reagan-Steiner, S.; et al. Evidence of SARS-CoV-2 replication and tropism in the lungs, airways and vascular endothelium of patients with fatal COVID-19: An autopsy case-series. J Infect Dis. 2021 Jan 27;jiab039. doi: 10.1093/infdis/jiab039. Online ahead of print.
- Martines RB, Ritter JM, Matkovic E, et al. Pathology and pathogenesis of SARS-CoV-2 associated with fatal Coronavirus disease, United States. Emerg Infect Dis. 2020 Sep;26(9):2005-2015.
- Belser JA. Assessment of SARS-CoV-2 replication in the context of other respiratory viruses. Lancet Respir Med. 2020 Jul;8(7):651-652.
Serology
- Camerini D, Randall AZ, Trappl-Kimmons K, et al. Mapping SARS-CoV-2 Antibody Epitopes in COVID-19 Patients with a Multi-Coronavirus Protein Microarray. bioRxiv. Preprint. 2021 Jan.
- Freeman B, Lester S, Mills L, et al. Validation of a SARS-CoV-2 spike protein ELISA for use in contact investigations and serosurveillance. bioRxiv. Preprint. 2020 Apr 25;2020.04.24.057323.
- Voss WN, Hou YJ, Johnson NV, et al. Prevalent, protective, and convergent IgG recognition of SARS-CoV-2 non-RBD spike epitopes. Science. 2021;372(6546):1108-12.
Virology
- Ackerman CM, Myhrvold C, Thakku SG, et al. Massively multiplexed nucleic acid detection with Cas13. Nature. 2020 Jun;582(7811):277-282.
- Hamer SA, Pauvolid-Correa A, Zecca IB, et al. SARS-CoV-2 Infections and Viral Isolations among Serially Tested Cats and Dogs in Households with Infected Owners in Texas, USA. Viruses. 2021 May;13(5).
- Lutgring JD, Tobolowsky FA, Hatfield KM, et al. Evaluating the Presence of Replication-Competent SARS-CoV-2 from Nursing Home Residents with Persistently Positive RT-PCR Results. Clin Infect Dis. 2021 May. Online ahead of print.
- Lindsley WG. Blachère FM, Burton NC, et al. COVID-19 and the workplace: Research questions for the aerosol science community (Editorial)(Open Access). Aerosol Science and Technology. Volume 54, Issue 10, 2 October 2020, Pages 1117-1123.
- van Doremalen N, Bushmaker T, Morris, D, et al. Aerosol and surface stability of SARS-CoV-2 as compared with SARS-CoV-1. N Engl J Med. 2020 April 16;382(16), 1564-1567.
- Whitworth C, Mu Y, Houston H, et al. Persistence of bacteriophage Phi 6 on porous and nonporous surfaces and the potential for its use as an Ebola virus or Coronavirus surrogate. Appl Environ Microbiol. 2020 Aug 18;86(17):e01482-20.
Serology
- Bajema, K. L.; Dahlgren, F. S.; Lim, T. W.; et al. Comparison of estimated SARS-CoV-2 seroprevalence through commercial laboratory residual sera testing and a community survey. Clin Infect Dis 2020 Dec 10;ciaa1804. doi: 10.1093/cid/ciaa1804. Online ahead of print.
- Basavaraju, S. V.; Patton, M. E.; Grimm, K.; et al. Serologic testing of U.S. blood donations to identify SARS-CoV-2-reactive antibodies: December 2019-January 2020. Clin Infect Dis 2020 Nov 30;ciaa1785. doi: 10.1093/cid/ciaa1785. Online ahead of print.
- Self WH, Tenforde MW, Stubblefield WB, et al. Seroprevalence of SARS-CoV-2 among frontline health care personnel in a multistate hospital network – 13 Academic Medical Centers, April-June 2020. MMWR Morb Mortal Wkly Rep. 2020 Sep 4;69(35):1221-1226.
- Biggs HM, Harris JB, Breakwell Let al. Estimated community seroprevalence of SARS-CoV-2 antibodies—Two Georgia counties, April 28-May 3, 2020. MMWR Morb Mortal Wkly Rep. 2020 Jul 24;69(29):965-970.
- Havers FP, Reed C, Lim T, et al. Seroprevalence of antibodies to SARS-CoV-2 in 10 sites in the United States, March 23-May 12, 2020. JAMA Intern Med. 2020 Jul 21. doi: 10.1001/jamainternmed.2020.4130. Online ahead of print.
- Stubblefield WB, Talbot HK, Feldstein L, et al. Seroprevalence of SARS-CoV-2 among frontline healthcare personnel during the first month of caring for COVID-19 patients – Nashville, Tennessee. Clin Infect Dis. 2020 Jul 6;ciaa936.
- Payne DC, Smith-Jeffcoat SE, owak G, et al. SARS-CoV-2 infections and serologic responses from a sample of U.S. Navy Service members – USS Theodore Roosevelt, April 2020. MMWR Morb Mortal Wkly Rep. 2020 Jun 12;69(23):714-721.
- Parrott, J. C.; Maleki, A. N. et al. Prevalence of SARS-CoV-2 Antibodies in New York City Adults, June-October 2020: A Population-Based Survey. J Infect Dis. 2021 Jul 15; 224 (2): 188-195.
Antivirals
- Batool, H.; Batool, S.; Mahmood, M. S.; et al. Prediction of putative epitope-based vaccine against all corona virus strains for the Chinese population: Approach toward development of vaccine. Microbiol Immunol. 2021 Apr;64(4):154-160.
- Sheahan T, Sims A, Zhou S, et al. An orally bioavailable broad-spectrum antiviral inhibits SARS-CoV-2 in human airway epithelial cell cultures and multiple coronaviruses in mice. Sci Transl Med. 2020 Apr 29;12(541):eabb5883.
Molecular Epidemiology
- Umair, M; Ikram, A; Salman, M; et al. Whole-genome sequencing of SARS-CoV-2 reveals the detection of G614 variant in Pakistan. PLOS One. 2021 Mar 23;16(3):e0248371.
- Galloway SE, Paul P, MacCannell DR, et al. Emergence of SARS-CoV-2 B.1.1.7 Lineage — United States, December 29, 2020–January 12, 2021. MMWR Morb Mortal Wkly Rep. ePub: 15 January 2021.
- Deng X, GuW Federman S, et al. Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California. Science. 2020 Jul 31;369(6503):582-587.
- Black A, MacCannell DR, Sibley TR, et al. Ten recommendations for supporting open pathogen genomic analysis in public health. Nat Med. 2020 Jun;26(6):832-841.
- Ghinai I, McPherson T, Hunter J, et al. First known person-to-person transmission of severe acute respiratory syndrome coronavirus 2 (SAR-CoV-2) in the USA. The Lancet. 2020 Apr 4;395(10230):1137-1144.
Variants
- Konings, F.; Perkins, M. D. et al. SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse. Nat Microbiol. 2021 Jul;6(7):821-823.
- Galloway SE, Paul P, MacCannell DR, et al. Emergence of SARS-CoV-2 B.1.1.7 Lineage — United States, December 29, 2020–January 12, 2021. MMWR Morb Mortal Wkly Rep. ePub: 15 January 2021.
- SARS-CoV-2 B.1.1.529 (Omicron) Variant — United States, December 1–8, 2021. MMWR Morb Mortal Wkly Rep 2021;70:1731-1734. DOI: http://dx.doi.org/10.15585/mmwr.mm7050e1
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