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Amplification and cloning of complete enterovirus genomes by long distance PCR

Michael Lindberg, A. ; Polacek, Charlotta ; Johansson, Susanne

Elsevier BV ; 1997

In: Journal of Virological Methods Vol. 65, No. 2 ( 1997-5), p. 191-199

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In: Journal of Virological Methods, Elsevier BV, Vol. 65, No. 2 ( 1997-5), p. 191-199

Type of Medium: Online Resource

ISSN: 0166-0934

URL: Article

DOI: 10.1016/S0166-0934(97)02178-2

RVK:

WA 15000

Language: English

Publisher: Elsevier BV

Publication Date: 1997

detail.hit.zdb_id: 2007929-1

SSG: 12

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Identification of Alternative Splice Products Encoded by the Human Coxsackie-Adenovirus Receptor Gene

Thoelen, Inge ; Magnusson, Caroline ; Tågerud, Sven ; [et al.]

Elsevier BV ; 2001

In: Biochemical and Biophysical Research Communications Vol. 287, No. 1 ( 2001-09), p. 216-222

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In: Biochemical and Biophysical Research Communications, Elsevier BV, Vol. 287, No. 1 ( 2001-09), p. 216-222

Type of Medium: Online Resource

ISSN: 0006-291X

URL: Article

DOI: 10.1006/bbrc.2001.5535

RVK:

WA 15000

Language: English

Publisher: Elsevier BV

Publication Date: 2001

detail.hit.zdb_id: 1461396-7

SSG: 12

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SARS-CoV-2 detection using reverse transcription strand invasion based amplification and a portable compact size instrument

Rosenstierne, Maiken W. ; Joshi, Shreya ; Danielsen, E. Thomas ; [et al.]

Springer Science and Business Media LLC ; 2021

In: Scientific Reports Vol. 11, No. 1 ( 2021-11-15)

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In: Scientific Reports, Springer Science and Business Media LLC, Vol. 11, No. 1 ( 2021-11-15)

Abstract: Rapid nucleic-acid based tests that can be performed by non-professionals outside laboratory settings could help the containment of the pandemic SARS-CoV-2 virus and may potentially prevent further widespread lockdowns. Here, we present a novel compact portable detection instrument (the Egoo Health System) for extraction-free detection of SARS-CoV-2 using isothermal reverse transcription strand invasion based amplification (RT-SIBA). The SARS-CoV-2 RT-SIBA assay can be performed directly on crude oropharyngeal swabs without nucleic acid extraction with a reaction time of 30 min. The Egoo Health system uses a capsule system, which is automatically sealed tight in the Egoo instrument after applying the sample, resulting in a closed system optimal for molecular isothermal amplification. The performance of the Egoo Health System is comparable to the PCR instrument with an analytical sensitivity of 25 viral RNA copies per SARS-CoV-2 RT-SIBA reaction and a clinical sensitivity and specificity between 87.0–98.4% and 96.6–98.2% respectively.

Type of Medium: Online Resource

ISSN: 2045-2322

URL: Article

DOI: 10.1038/s41598-021-01744-y

Language: English

Publisher: Springer Science and Business Media LLC

Publication Date: 2021

detail.hit.zdb_id: 2615211-3

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First cases of SARS-CoV-2 BA.2.86 in Denmark, 2023

Rasmussen, Morten ; Møller, Frederik Trier ; Gunalan, Vithiagaran ; [et al.]

European Centre for Disease Control and Prevention (ECDC) ; 2023

In: Eurosurveillance Vol. 28, No. 36 ( 2023-09-07)

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In: Eurosurveillance, European Centre for Disease Control and Prevention (ECDC), Vol. 28, No. 36 ( 2023-09-07)

Abstract: We describe 10 cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variant BA.2.86 detected in Denmark, including molecular characteristics and results from wastewater surveillance that indicate that the variant is circulating in the country at a low level. This new variant with many spike gene mutations was classified as a variant under monitoring by the World Health Organization on 17 August 2023. Further global monitoring of COVID-19, BA.2.86 and other SARS-CoV-2 variants is highly warranted.

Type of Medium: Online Resource

ISSN: 1560-7917

URL: Article

DOI: 10.2807/1560-7917.ES.2023.28.36.2300460

Language: English

Publisher: European Centre for Disease Control and Prevention (ECDC)

Publication Date: 2023

detail.hit.zdb_id: 2059112-3

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Neutralisation of the SARS-CoV-2 Delta variant sub-lineages AY.4.2 and B.1.617.2 with the mutation E484K by Comirnaty (BNT162b2 mRNA) vaccine-elicited sera, Denmark, 1 to 26 November 2021

Lassaunière, Ria ; Polacek, Charlotta ; Fonager, Jannik ; [et al.]

European Centre for Disease Control and Prevention (ECDC) ; 2021

In: Eurosurveillance Vol. 26, No. 49 ( 2021-12-09)

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In: Eurosurveillance, European Centre for Disease Control and Prevention (ECDC), Vol. 26, No. 49 ( 2021-12-09)

Abstract: Several factors may account for the recent increased spread of the SARS-CoV-2 Delta sub-lineage AY.4.2 in the United Kingdom, Romania, Poland, and Denmark. We evaluated the sensitivity of AY.4.2 to neutralisation by sera from 30 Comirnaty (BNT162b2 mRNA) vaccine recipients in Denmark in November 2021. AY.4.2 neutralisation was comparable to other circulating Delta lineages or sub-lineages. Conversely, the less prevalent B.1.617.2 with E484K showed a significant more than 4-fold reduction in neutralisation that warrants surveillance of strains with the acquired E484K mutation.

Type of Medium: Online Resource

ISSN: 1560-7917

URL: Article

DOI: 10.2807/1560-7917.ES.2021.26.49.2101059

Language: English

Publisher: European Centre for Disease Control and Prevention (ECDC)

Publication Date: 2021

detail.hit.zdb_id: 2059112-3

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Optimization and evaluation of a live virus SARS-CoV-2 neutralization assay

Frische, Anders ; Brooks, Patrick Terrence ; Gybel-Brask, Mikkel ; [et al.]

Public Library of Science (PLoS) ; 2022

In: PLOS ONE Vol. 17, No. 7 ( 2022-7-28), p. e0272298-

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In: PLOS ONE, Public Library of Science (PLoS), Vol. 17, No. 7 ( 2022-7-28), p. e0272298-

Abstract: Virus neutralization assays provide a means to quantitate functional antibody responses that block virus infection. These assays are instrumental in defining vaccine and therapeutic antibody potency, immune evasion by viral variants, and post-infection immunity. Here we describe the development, optimization and evaluation of a live virus microneutralization assay specific for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). In this assay, SARS-CoV-2 clinical isolates are pre-incubated with serial diluted antibody and added to Vero E6 cells. Replicating virus is quantitated by enzyme-linked immunosorbent assay (ELISA) targeting the SARS-CoV-2 nucleocapsid protein and the standardized 50% virus inhibition titer calculated. We evaluated critical test parameters that include virus titration, assay linearity, number of cells, viral dose, incubation period post-inoculation, and normalization methods. Virus titration at 96 hours was determined optimal to account for different growth kinetics of clinical isolates. Nucleocapsid protein levels directly correlated with virus inoculum, with the strongest correlation at 24 hours post-inoculation. Variance was minimized by infecting a cell monolayer, rather than a cell suspension. Neutralization titers modestly decreased with increasing numbers of Vero E6 cells and virus amount. Application of two different normalization models effectively reduced the intermediate precision coefficient of variance to 〈 16.5%. The SARS-CoV-2 microneutralization assay described and evaluated here is based on the influenza virus microneutralization assay described by WHO, and are proposed as a standard assay for comparing neutralization investigations.

Type of Medium: Online Resource

ISSN: 1932-6203

URL: Article

DOI: 10.1371/journal.pone.0272298

DOI: 10.1371/journal.pone.0272298.g001

DOI: 10.1371/journal.pone.0272298.g002

DOI: 10.1371/journal.pone.0272298.g003

DOI: 10.1371/journal.pone.0272298.g004

DOI: 10.1371/journal.pone.0272298.g005

DOI: 10.1371/journal.pone.0272298.g006

DOI: 10.1371/journal.pone.0272298.g007

DOI: 10.1371/journal.pone.0272298.g008

DOI: 10.1371/journal.pone.0272298.t001

DOI: 10.1371/journal.pone.0272298.s001

DOI: 10.1371/journal.pone.0272298.s002

DOI: 10.1371/journal.pone.0272298.s003

DOI: 10.1371/journal.pone.0272298.s004

DOI: 10.1371/journal.pone.0272298.s005

DOI: 10.1371/journal.pone.0272298.s006

DOI: 10.1371/journal.pone.0272298.s007

Language: English

Publisher: Public Library of Science (PLoS)

Publication Date: 2022

detail.hit.zdb_id: 2267670-3

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SARS‐CoV‐2 RNA stability in dry swabs for longer storage and transport at different temperatures

Alfaro‐Núñez, Alonzo ; Crone, Stephanie ; Mortensen, Shila ; [et al.]

Hindawi Limited ; 2022

In: Transboundary and Emerging Diseases Vol. 69, No. 2 ( 2022-03), p. 189-194

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In: Transboundary and Emerging Diseases, Hindawi Limited, Vol. 69, No. 2 ( 2022-03), p. 189-194

Type of Medium: Online Resource

ISSN: 1865-1674 , 1865-1682

URL: Issue

URL: Article

DOI: 10.1111/tbed.v69.2

DOI: 10.1111/tbed.14339

Language: English

Publisher: Hindawi Limited

Publication Date: 2022

detail.hit.zdb_id: 2414822-2

SSG: 22

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Neutralizing Antibodies Against the SARS-CoV-2 Omicron Variant (BA.1) 1 to 18 Weeks After the Second and Third Doses of the BNT162b2 mRNA Vaccine

Lassaunière, Ria ; Polacek, Charlotta ; Frische, Anders ; [et al.]

American Medical Association (AMA) ; 2022

In: JAMA Network Open Vol. 5, No. 5 ( 2022-05-13), p. e2212073-

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In: JAMA Network Open, American Medical Association (AMA), Vol. 5, No. 5 ( 2022-05-13), p. e2212073-

Type of Medium: Online Resource

ISSN: 2574-3805

URL: Article

DOI: 10.1001/jamanetworkopen.2022.12073

Language: English

Publisher: American Medical Association (AMA)

Publication Date: 2022

detail.hit.zdb_id: 2931249-8

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A RT-qPCR system using a degenerate probe for specific identification and differentiation of SARS-CoV-2 Omicron (B.1.1.529) variants of concern

Jessen, Randi ; Nielsen, Line ; Larsen, Nicolai Balle ; [et al.]

Public Library of Science (PLoS) ; 2022

In: PLOS ONE Vol. 17, No. 10 ( 2022-10-5), p. e0274889-

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In: PLOS ONE, Public Library of Science (PLoS), Vol. 17, No. 10 ( 2022-10-5), p. e0274889-

Abstract: Fast surveillance strategies are needed to control the spread of new emerging SARS-CoV-2 variants and gain time for evaluation of their pathogenic potential. This was essential for the Omicron variant (B.1.1.529) that replaced the Delta variant (B.1.617.2) and is currently the dominant SARS-CoV-2 variant circulating worldwide. RT-qPCR strategies complement whole genome sequencing, especially in resource lean countries, but mutations in the targeting primer and probe sequences of new emerging variants can lead to a failure of the existing RT-qPCRs. Here, we introduced an RT-qPCR platform for detecting the Delta- and the Omicron variant simultaneously using a degenerate probe targeting the key ΔH69/V70 mutation in the spike protein. By inclusion of the L452R mutation into the RT-qPCR platform, we could detect not only the Delta and the Omicron variants, but also the Omicron sub-lineages BA.1, BA.2 and BA.4/BA.5. The RT-qPCR platform was validated in small- and large-scale. It can easily be incorporated for continued monitoring of Omicron sub-lineages, and offers a fast adaption strategy of existing RT-qPCRs to detect new emerging SARS-CoV-2 variants using degenerate probes.

Type of Medium: Online Resource

ISSN: 1932-6203

URL: Article

DOI: 10.1371/journal.pone.0274889

DOI: 10.1371/journal.pone.0274889.g001

DOI: 10.1371/journal.pone.0274889.g002

DOI: 10.1371/journal.pone.0274889.g003

DOI: 10.1371/journal.pone.0274889.g004

DOI: 10.1371/journal.pone.0274889.t001

DOI: 10.1371/journal.pone.0274889.t002

DOI: 10.1371/journal.pone.0274889.t003

DOI: 10.1371/journal.pone.0274889.s001

DOI: 10.1371/journal.pone.0274889.s002

DOI: 10.1371/journal.pone.0274889.s003

DOI: 10.1371/journal.pone.0274889.r001

DOI: 10.1371/journal.pone.0274889.r002

DOI: 10.1371/journal.pone.0274889.r003

DOI: 10.1371/journal.pone.0274889.r004

Language: English

Publisher: Public Library of Science (PLoS)

Publication Date: 2022

detail.hit.zdb_id: 2267670-3

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A qualitative RT-PCR assay for the specific identification of the SARS-CoV-2 B.1.1.529 (Omicron) Variant of Concern

Corbisier, Philippe ; Petrillo, Mauro ; Marchini, Antonio ; [et al.]

Elsevier BV ; 2022

In: Journal of Clinical Virology Vol. 152 ( 2022-07), p. 105191-

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In: Journal of Clinical Virology, Elsevier BV, Vol. 152 ( 2022-07), p. 105191-

Type of Medium: Online Resource

ISSN: 1386-6532

URL: Article

DOI: 10.1016/j.jcv.2022.105191

Language: English

Publisher: Elsevier BV

Publication Date: 2022

detail.hit.zdb_id: 1499932-8

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