Alternative clinical specimens for the detection of SARS-CoV-2: A rapid review.

Abstract:

:The collection of nasopharyngeal swabs to test for the presence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is an invasive technique with implications for patients and clinicians. Alternative clinical specimens from the upper respiratory tract may offer benefits in terms of collection, comfort and infection risk. The objective of this review was to synthesise the evidence for detection of SARS-CoV-2 ribonucleic acid (RNA) using reverse transcription polymerase chain reaction (RT-PCR) tested saliva or nasal specimens compared with RT-PCR tested nasopharyngeal specimens. Searches were conducted in PubMed, Embase, Europe PMC and NHS evidence from December 2019 to 20 July 2020. Eighteen studies were identified; 12 for saliva, four for nasal and two included both specimen types. For saliva-based studies, the proportion of saliva samples testing positive relative to all positive samples in each study ranged from 82.9% to 100%; detection in nasopharyngeal specimens ranged from 76.7% to 100%; positive agreement between specimens for overall detection ranged from 65.4% to 100%. For nasal-based studies, the proportion of nasal swabs testing positive relative to all positive samples in each study ranged from 81.9% to 100%; detection in nasopharyngeal specimens ranged from 70% to 100%; positive agreement between specimens for overall detection ranged from 62.3% to 100%. The results indicate an inconsistency in the detection of SARS-CoV-2 RNA in the specimen types included, often with neither the index nor the reference of interest detecting all known cases. Depending on the test environment, these clinical specimens may offer a viable alternative to standard. However, at present the evidence is limited, of variable quality, and relatively inconsistent.

journal_name

Rev Med Virol

authors

Comber L,Walsh KA,Jordan K,O'Brien KK,Clyne B,Teljeur C,Drummond L,Carty PG,De Gascun CF,Smith SM,Harrington P,Ryan M,O'Neill M

doi

10.1002/rmv.2185

subject

Has Abstract

pub_date

2020-10-22 00:00:00

eissn

1052-9276

issn

1099-1654

pub_type

杂志文章,评审
  • Japanese encephalitis virus invasion of cell: allies and alleys.

    abstract::The mosquito-borne flavivirus, Japanese encephalitis virus (JEV), is the leading cause of virus-induced encephalitis globally and a major public health concern of several countries in Southeast Asia, with the potential to become a global pathogen. The virus is neurotropic, and the disease ranges from mild fever to sev...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1868

    authors: Nain M,Abdin MZ,Kalia M,Vrati S

    更新日期:2016-03-01 00:00:00

  • Global protein profiling studies of chikungunya virus infection identify different proteins but common biological processes.

    abstract::Chikungunya fever (CHIKF) caused by the mosquito-transmitted chikungunya virus (CHIKV) swept into international prominence from late 2005 as an epidemic of CHIKF spread around countries surrounding the Indian Ocean. Although significant advances have been made in understanding the pathobiology of CHIKF, numerous quest...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1802

    authors: Smith DR

    更新日期:2015-01-01 00:00:00

  • Function of human cytomegalovirus UL97 kinase in viral infection and its inhibition by maribavir.

    abstract::The serine/threonine kinase expressed by human cytomegalovirus from gene UL97 phosphorylates the antiviral drug ganciclovir, but its biological function is the phosphorylation of its natural viral and cellular protein substrates which affect viral replication at many levels. The UL97 kinase null phenotype is therefore...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.615

    authors: Prichard MN

    更新日期:2009-07-01 00:00:00

  • The lungs as anatomical reservoirs of HIV infection.

    abstract::Failure of antiretroviral therapy to eradicate HIV, even in individuals who suppress the virus to undetectable levels, is a consequence of persistent infection in latently infected cells and within anatomical reservoirs. Support for the notion that the lungs are distinct anatomical reservoirs of HIV comes from a spect...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1772

    authors: Costiniuk CT,Jenabian MA

    更新日期:2014-01-01 00:00:00

  • Antiviral agents active against human herpesviruses HHV-6, HHV-7 and HHV-8.

    abstract::A series of antiviral compounds were examined for their activity against human herpesvirus type 6 (HHV-6), type 7 (HHV-7) and type 8 (HHV-8). They were selected either because they are already approved for clinical use in the treatment of herpesvirus infections (acyclovir, valaciclovir, penciclovir, famciclovir, ganci...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.336

    authors: De Clercq E,Naesens L,De Bolle L,Schols D,Zhang Y,Neyts J

    更新日期:2001-11-01 00:00:00

  • Wild type HBx and truncated HBx: Pleiotropic regulators driving sequential genetic and epigenetic steps of hepatocarcinogenesis and progression of HBV-associated neoplasms.

    abstract::Hepatitis B virus (HBV) is one of the causative agents of hepatocellular carcinoma. The molecular mechanisms of tumorigenesis are complex. One of the host factors involved is apparently the long-lasting inflammatory reaction which accompanies chronic HBV infection. Although HBV lacks a typical viral oncogene, the HBx ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1864

    authors: Niller HH,Ay E,Banati F,Demcsák A,Takacs M,Minarovits J

    更新日期:2016-01-01 00:00:00

  • Efficacy and safety of remdesivir in hospitalized Covid-19 patients: Systematic review and meta-analysis including network meta-analysis.

    abstract::Remdesivir is an antiviral agent that has shown broad-spectrum activity, including against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Clinical trials investigating the role of remdesivir in coronavirus disease 2019 (Covid-19) reported conflicting results. This study aimed to systematically review th...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.2187

    authors: Elsawah HK,Elsokary MA,Abdallah MS,ElShafie AH

    更新日期:2020-10-31 00:00:00

  • Mega doses of retinol: A possible immunomodulation in Covid-19 illness in resource-limited settings.

    abstract::Of all the nutrients, vitamin A has been the most extensively evaluated for its impact on immunity. There are three main forms of vitamin A, retinol, retinal and retinoic acid (RA) with the latter being most biologically active and all-trans-RA (ATRA) its main derivative. Vitamin A is a key regulator of the functions ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.2204

    authors: Midha IK,Kumar N,Kumar A,Madan T

    更新日期:2020-12-31 00:00:00

  • Mucosal immune network in the gut for the control of infectious diseases.

    abstract::The common mucosal immune system (CMIS) consists of an integrated cross-communication pathway of lymphoid tissues made up of inductive and effector sites for host protection against pathogenic microorganisms. Major effector molecules of the CMIS include IgA antibodies and cytokines, chemokines and their corresponding ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.307

    authors: Iijima H,Takahashi I,Kiyono H

    更新日期:2001-03-01 00:00:00

  • Etiology of acute viral respiratory infections common in Pakistan: A review.

    abstract::Respiratory infections, especially those of the lower respiratory tract, remain a foremost cause of mortality and morbidity of children greater than 5 years in developing countries including Pakistan. Ignoring these acute-level infections may lead to complications. Particularly in Pakistan, respiratory infections acco...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章

    doi:10.1002/rmv.2024

    authors: Naz R,Gul A,Javed U,Urooj A,Amin S,Fatima Z

    更新日期:2019-03-01 00:00:00

  • Immunity against hepatitis E virus infection: Implications for therapy and vaccine development.

    abstract::Hepatitis E virus (HEV) is the leading cause of acute viral hepatitis worldwide and an emerging cause of chronic infection in immunocompromised patients. As with viral infections in general, immune responses are critical to determine the outcome of HEV infection. Accumulating studies in cell culture, animal models and...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1964

    authors: Hakim MS,Ikram A,Zhou J,Wang W,Peppelenbosch MP,Pan Q

    更新日期:2018-03-01 00:00:00

  • Rotavirus typing methods and algorithms.

    abstract::Vaccination is the current strategy for control and prevention of severe rotavirus infections, a major cause of acute, dehydrating diarrhoea in young children worldwide. Public health interventions aimed at improving water, food and sanitation are unlikely adequately to control the disease. The development of vaccines...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.411

    authors: Fischer TK,Gentsch JR

    更新日期:2004-03-01 00:00:00

  • Persistence of arboviruses and antiviral antibodies in vertebrate hosts: its occurrence and impacts.

    abstract::The recent isolation of West Nile virus from a bird in mid-winter in New York immediately raised, as one of a few explanations, the possibility of long-term persistence of arboviruses in vertebrate hosts. Although it was a highly popular topic for research many years ago, generally it has since been neglected and its ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.314

    authors: Kuno G

    更新日期:2001-05-01 00:00:00

  • Immune escape of γ-herpesviruses from adaptive immunity.

    abstract::Epstein-Barr virus (EBV) and Kaposi's sarcoma-associated herpesvirus (KSHV) are two γ-herpesviruses identified in humans and are strongly associated with the development of malignancies. Murine γ-herpesvirus (MHV-68) is a naturally occurring rodent pathogen, representing a unique experimental model for dissecting γ-he...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1791

    authors: Hu Z,Usherwood EJ

    更新日期:2014-11-01 00:00:00

  • Phylogenetic analysis of global hepatitis E virus sequences: genetic diversity, subtypes and zoonosis.

    abstract::Nucleotide sequences from a total of 421 HEV isolates were retrieved from Genbank and analysed. Phylogenetically, HEV was classified into four major genotypes. Genotype 1 was more conserved and classified into five subtypes. The number of genotype 2 sequences was limited but can be classified into two subtypes. Genoty...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.482

    authors: Lu L,Li C,Hagedorn CH

    更新日期:2006-01-01 00:00:00

  • Systematic screening of viral entry inhibitors using surface plasmon resonance.

    abstract::Viral binding and entry into host cells for various viruses have been studied extensively, yielding a detailed understanding of the overall viral entry process. As cell entry is an essential and requisite process by which a virus initiates infection, it is an attractive target for therapeutic intervention. The advanta...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1952

    authors: Kumar PKR

    更新日期:2017-11-01 00:00:00

  • Measles virus receptors: SLAM and CD46.

    abstract::The success of vaccination against measles in developed countries has significantly reduced the incidence of measles-related morbidity and mortality. However, measles is still the leading cause of mortality in children from underdeveloped countries due to low vaccination coverage, high transmissibility of the measles ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.430

    authors: Dhiman N,Jacobson RM,Poland GA

    更新日期:2004-07-01 00:00:00

  • Antiviral drug resistance in herpesviruses other than cytomegalovirus.

    abstract::The discovery of acyclovir (ACV), a nucleoside analogue, more than 30 years ago, represents a milestone in the management of HSV and VZV infections. The modest activity of ACV against CMV prompted the development of another nucleoside analogue, ganciclovir, for the management of systemic and organ-specific CMV disease...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1787

    authors: Piret J,Boivin G

    更新日期:2014-05-01 00:00:00

  • Orf virus: A promising new therapeutic agent.

    abstract::The orf virus (ORFV) is a zoonotic, epitheliotropic, DNA parapoxvirus that infects principally sheep and goats. Exposure of animals to the virus or immunization by an ORFV preparation can accentuate the severity of disease, which has provoked an interest in the underlying cellular, virological, and molecular mechanism...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.2013

    authors: Wang R,Wang Y,Liu F,Luo S

    更新日期:2019-01-01 00:00:00

  • Anti-HIV adaptive immunity: determinants for viral persistence.

    abstract::The immense difficulty in primary control of human immunodeficiency virus (HIV) and simian immunodeficiency virus (SIV) infection by adaptive immune responses has been a topic of exceptional importance. CD8+ cytotoxic T lymphocytes (CTLs) do play a central role in primary resolution of viremia, but their potency in vi...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.577

    authors: Yamamoto H,Matano T

    更新日期:2008-09-01 00:00:00

  • The interplay between viruses and TRIM family proteins.

    abstract::Novel therapeutic options are urgently needed to improve the global treatment of viral infections. Tripartite motif (TRIM) family proteins are involved in various biological and cellular functions including differentiation, development, proliferation, oncogenesis, innate immunity, and viral autophagy. Various TRIM pro...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.2028

    authors: Khan R,Khan A,Ali A,Idrees M

    更新日期:2019-03-01 00:00:00

  • Viral infections associated with haemophagocytic syndrome.

    abstract::Haemophagocytic syndrome (HPS) or haemophagocytic lymphohistiocytosis (HLH) is a rare disease caused by a dysfunction of cytotoxic T cells and NK cells. This T cell/NK cell dysregulation causes an aberrant cytokine release, resulting in proliferation/activation of histiocytes with subsequent haemophagocytosis. Histioc...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.638

    authors: Maakaroun NR,Moanna A,Jacob JT,Albrecht H

    更新日期:2010-03-01 00:00:00

  • Virus assembly and disassembly: the adenovirus cysteine protease as a trigger factor.

    abstract::Viruses are efficient carriers of genetic material between cells. They specifically recognise a target cell and utilise host functions for genome delivery to the replication site. A mature viral capsid emerging from an infected cell serves at least three distinct functions. It enables virus egress from the infected ce...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章

    doi:10.1002/(sici)1099-1654(1998100)8:4<213::aid-rmv22

    authors: Greber UF

    更新日期:1998-10-01 00:00:00

  • Viral ocular manifestations: a broad overview.

    abstract::The viruses able to affect the eye are taxonomically diverse, ranging from double-stranded DNA viruses, to single stranded RNA viruses, to retroviruses. Any part of the eye may be affected, frequently producing blepharitis, conjunctivitis, keratitis, uveitis, cataract and retinitis. The more common ocular viral infect...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1749

    authors: Newman H,Gooding C

    更新日期:2013-09-01 00:00:00

  • TTV, a new human virus with single stranded circular DNA genome.

    abstract::TT virus (TTV) was found in 1997 from a hepatitis patient without virus markers. However, the real impact of TTV on liver diseases remains uncertain to date. Due to the lack of suitable cell systems to support the growth of TTV, the biology of TTV is still obscure. This review tries to summarise the current status of ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.351

    authors: Hino S

    更新日期:2002-05-01 00:00:00

  • Prevention strategies for blood-borne viruses-in the Era of vaccines, direct acting antivirals and antiretroviral therapy.

    abstract::Blood-borne viruses, such as hepatitis B virus, hepatitis C virus, human immunodeficiency virus, and the facultative blood-borne hepatitis E virus, are considered a major public health problem given that they are accountable for millions of deaths each year. Treatment options, including effective vaccine design, devel...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1890

    authors: Pfaender S,von Hahn T,Steinmann J,Ciesek S,Steinmann E

    更新日期:2016-09-01 00:00:00

  • "Norwalk-like viruses" as a cause of foodborne disease outbreaks.

    abstract::While outbreaks of foodborne disease remain an important public health concern, their aetiology is not identified in a majority of instances. In targeted studies, the application of newly developed molecular assays has demonstrated that a large proportion of these outbreaks may be caused by the "Norwalk-like viruses" ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.321

    authors: Parashar UD,Monroe SS

    更新日期:2001-07-01 00:00:00

  • CAR T cells: Living HIV drugs.

    abstract::Human immunodeficiency virus type 1 (HIV-1), the virus that causes AIDS (acquired immunodeficiency syndrome), is a major global public health issue. Although the advent of combined antiretroviral therapy (ART) has made significant progress in inhibiting HIV replication in patients, HIV-infected cells remain the princi...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.2139

    authors: Namdari H,Rezaei F,Teymoori-Rad M,Mortezagholi S,Sadeghi A,Akbari A

    更新日期:2020-11-01 00:00:00

  • Diagnostic assays for polyomavirus JC and progressive multifocal leukoencephalopathy.

    abstract::Progressive multifocal leukoencephalopathy (PML) is a devastating and often fatal demyelinating disease of the central nervous system for which effective therapies are lacking. It is caused by the replication of polyomavirus JC (JCV) in the oligodendrocytes and astrocytes leading to their cytolytic death and loss of m...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.1866

    authors: White MK,Sariyer IK,Gordon J,Delbue S,Pietropaolo V,Berger JR,Khalili K

    更新日期:2016-03-01 00:00:00

  • Hepatitis C genotype 4: A report on resistance-associated substitutions in NS3, NS5A, and NS5B genes.

    abstract:AUTHOR CONTRIBUTION:FN performed the literature review and wrote the manuscript; STZ coauthored, edited, and reviewed the manuscript. ABSTRACT:Treatment response in Hepatitis C virus (HCV) has generated varied effects in patients. Recently, nonresponsive and relapse patients related to host and genotype variabilities ...

    journal_title:Reviews in medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/rmv.2120

    authors: Fadl N,Salem TZ

    更新日期:2020-07-01 00:00:00