Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.
Identifieur interne : 000228 ( PubMed/Curation ); précédent : 000227; suivant : 000229Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.
Auteurs : Cyril Chik-Yan Yip [République populaire de Chine] ; Chi-Chun Ho [République populaire de Chine] ; Jasper Fuk-Woo Chan [République populaire de Chine] ; Kelvin Kai-Wang To [République populaire de Chine] ; Helen Shuk-Ying Chan [République populaire de Chine] ; Sally Cheuk-Ying Wong [République populaire de Chine] ; Kit-Hang Leung [République populaire de Chine] ; Agnes Yim-Fong Fung [République populaire de Chine] ; Anthony Chin-Ki Ng [République populaire de Chine] ; Zijiao Zou [République populaire de Chine] ; Anthony Raymond Tam [République populaire de Chine] ; Tom Wai-Hin Chung [République populaire de Chine] ; Kwok-Hung Chan [République populaire de Chine] ; Ivan Fan-Ngai Hung [République populaire de Chine] ; Vincent Chi-Chung Cheng [République populaire de Chine] ; Owen Tak-Yin Tsang [République populaire de Chine] ; Stephen Kwok Wing Tsui [République populaire de Chine] ; Kwok-Yung Yuen [République populaire de Chine]Source :
- International journal of molecular sciences [ 1422-0067 ] ; 2020.
Abstract
The pandemic novel coronavirus infection, Coronavirus Disease 2019 (COVID-19), has affected at least 190 countries or territories, with 465,915 confirmed cases and 21,031 deaths. In a containment-based strategy, rapid, sensitive and specific testing is important in epidemiological control and clinical management. Using 96 SARS-CoV-2 and 104 non-SARS-CoV-2 coronavirus genomes and our in-house program, GolayMetaMiner, four specific regions longer than 50 nucleotides in the SARS-CoV-2 genome were identified. Primers were designed to target the longest and previously untargeted nsp2 region and optimized as a probe-free real-time reverse transcription-polymerase chain reaction (RT-PCR) assay. The new COVID-19-nsp2 assay had a limit of detection (LOD) of 1.8 TCID50/mL and did not amplify other human-pathogenic coronaviruses and respiratory viruses. Assay reproducibility in terms of cycle threshold (Cp) values was satisfactory, with the total imprecision (% CV) values well below 5%. Evaluation of the new assay using 59 clinical specimens from 14 confirmed cases showed 100% concordance with our previously developed COVID-19-RdRp/Hel reference assay. A rapid, sensitive, SARS-CoV-2-specific real-time RT-PCR assay, COVID-19-nsp2, was developed.
DOI: 10.3390/ijms21072574
PubMed: 32276333
Links toward previous steps (curation, corpus...)
- to stream PubMed, to step Corpus: Pour aller vers cette notice dans l'étape Curation :000228
Links to Exploration step
pubmed:32276333Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.</title><author><name sortKey="Yip, Cyril Chik Yan" sort="Yip, Cyril Chik Yan" uniqKey="Yip C" first="Cyril Chik-Yan" last="Yip">Cyril Chik-Yan Yip</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Ho, Chi Chun" sort="Ho, Chi Chun" uniqKey="Ho C" first="Chi-Chun" last="Ho">Chi-Chun Ho</name><affiliation wicri:level="1"><nlm:affiliation>Genomics and Bioinformatics Programme, The Chinese University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Genomics and Bioinformatics Programme, The Chinese University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chan, Jasper Fuk Woo" sort="Chan, Jasper Fuk Woo" uniqKey="Chan J" first="Jasper Fuk-Woo" last="Chan">Jasper Fuk-Woo Chan</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="To, Kelvin Kai Wang" sort="To, Kelvin Kai Wang" uniqKey="To K" first="Kelvin Kai-Wang" last="To">Kelvin Kai-Wang To</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chan, Helen Shuk Ying" sort="Chan, Helen Shuk Ying" uniqKey="Chan H" first="Helen Shuk-Ying" last="Chan">Helen Shuk-Ying Chan</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine, Queen Elizabeth Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine, Queen Elizabeth Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Wong, Sally Cheuk Ying" sort="Wong, Sally Cheuk Ying" uniqKey="Wong S" first="Sally Cheuk-Ying" last="Wong">Sally Cheuk-Ying Wong</name><affiliation wicri:level="1"><nlm:affiliation>Department of Pathology, Queen Elizabeth Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Pathology, Queen Elizabeth Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Leung, Kit Hang" sort="Leung, Kit Hang" uniqKey="Leung K" first="Kit-Hang" last="Leung">Kit-Hang Leung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Fung, Agnes Yim Fong" sort="Fung, Agnes Yim Fong" uniqKey="Fung A" first="Agnes Yim-Fong" last="Fung">Agnes Yim-Fong Fung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Ng, Anthony Chin Ki" sort="Ng, Anthony Chin Ki" uniqKey="Ng A" first="Anthony Chin-Ki" last="Ng">Anthony Chin-Ki Ng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Zou, Zijiao" sort="Zou, Zijiao" uniqKey="Zou Z" first="Zijiao" last="Zou">Zijiao Zou</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Tam, Anthony Raymond" sort="Tam, Anthony Raymond" uniqKey="Tam A" first="Anthony Raymond" last="Tam">Anthony Raymond Tam</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chung, Tom Wai Hin" sort="Chung, Tom Wai Hin" uniqKey="Chung T" first="Tom Wai-Hin" last="Chung">Tom Wai-Hin Chung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chan, Kwok Hung" sort="Chan, Kwok Hung" uniqKey="Chan K" first="Kwok-Hung" last="Chan">Kwok-Hung Chan</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Hung, Ivan Fan Ngai" sort="Hung, Ivan Fan Ngai" uniqKey="Hung I" first="Ivan Fan-Ngai" last="Hung">Ivan Fan-Ngai Hung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Cheng, Vincent Chi Chung" sort="Cheng, Vincent Chi Chung" uniqKey="Cheng V" first="Vincent Chi-Chung" last="Cheng">Vincent Chi-Chung Cheng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Tsang, Owen Tak Yin" sort="Tsang, Owen Tak Yin" uniqKey="Tsang O" first="Owen Tak-Yin" last="Tsang">Owen Tak-Yin Tsang</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine and Geriatrics, Princess Margaret Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine and Geriatrics, Princess Margaret Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Tsui, Stephen Kwok Wing" sort="Tsui, Stephen Kwok Wing" uniqKey="Tsui S" first="Stephen Kwok Wing" last="Tsui">Stephen Kwok Wing Tsui</name><affiliation wicri:level="1"><nlm:affiliation>School of Biomedical Sciences, The Chinese University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Biomedical Sciences, The Chinese University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Yuen, Kwok Yung" sort="Yuen, Kwok Yung" uniqKey="Yuen K" first="Kwok-Yung" last="Yuen">Kwok-Yung Yuen</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2020">2020</date><idno type="RBID">pubmed:32276333</idno><idno type="pmid">32276333</idno><idno type="doi">10.3390/ijms21072574</idno><idno type="wicri:Area/PubMed/Corpus">000228</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000228</idno><idno type="wicri:Area/PubMed/Curation">000228</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000228</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.</title><author><name sortKey="Yip, Cyril Chik Yan" sort="Yip, Cyril Chik Yan" uniqKey="Yip C" first="Cyril Chik-Yan" last="Yip">Cyril Chik-Yan Yip</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Ho, Chi Chun" sort="Ho, Chi Chun" uniqKey="Ho C" first="Chi-Chun" last="Ho">Chi-Chun Ho</name><affiliation wicri:level="1"><nlm:affiliation>Genomics and Bioinformatics Programme, The Chinese University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Genomics and Bioinformatics Programme, The Chinese University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chan, Jasper Fuk Woo" sort="Chan, Jasper Fuk Woo" uniqKey="Chan J" first="Jasper Fuk-Woo" last="Chan">Jasper Fuk-Woo Chan</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="To, Kelvin Kai Wang" sort="To, Kelvin Kai Wang" uniqKey="To K" first="Kelvin Kai-Wang" last="To">Kelvin Kai-Wang To</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chan, Helen Shuk Ying" sort="Chan, Helen Shuk Ying" uniqKey="Chan H" first="Helen Shuk-Ying" last="Chan">Helen Shuk-Ying Chan</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine, Queen Elizabeth Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine, Queen Elizabeth Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Wong, Sally Cheuk Ying" sort="Wong, Sally Cheuk Ying" uniqKey="Wong S" first="Sally Cheuk-Ying" last="Wong">Sally Cheuk-Ying Wong</name><affiliation wicri:level="1"><nlm:affiliation>Department of Pathology, Queen Elizabeth Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Pathology, Queen Elizabeth Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Leung, Kit Hang" sort="Leung, Kit Hang" uniqKey="Leung K" first="Kit-Hang" last="Leung">Kit-Hang Leung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Fung, Agnes Yim Fong" sort="Fung, Agnes Yim Fong" uniqKey="Fung A" first="Agnes Yim-Fong" last="Fung">Agnes Yim-Fong Fung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Ng, Anthony Chin Ki" sort="Ng, Anthony Chin Ki" uniqKey="Ng A" first="Anthony Chin-Ki" last="Ng">Anthony Chin-Ki Ng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Zou, Zijiao" sort="Zou, Zijiao" uniqKey="Zou Z" first="Zijiao" last="Zou">Zijiao Zou</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Tam, Anthony Raymond" sort="Tam, Anthony Raymond" uniqKey="Tam A" first="Anthony Raymond" last="Tam">Anthony Raymond Tam</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chung, Tom Wai Hin" sort="Chung, Tom Wai Hin" uniqKey="Chung T" first="Tom Wai-Hin" last="Chung">Tom Wai-Hin Chung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Chan, Kwok Hung" sort="Chan, Kwok Hung" uniqKey="Chan K" first="Kwok-Hung" last="Chan">Kwok-Hung Chan</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Hung, Ivan Fan Ngai" sort="Hung, Ivan Fan Ngai" uniqKey="Hung I" first="Ivan Fan-Ngai" last="Hung">Ivan Fan-Ngai Hung</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Cheng, Vincent Chi Chung" sort="Cheng, Vincent Chi Chung" uniqKey="Cheng V" first="Vincent Chi-Chung" last="Cheng">Vincent Chi-Chung Cheng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Tsang, Owen Tak Yin" sort="Tsang, Owen Tak Yin" uniqKey="Tsang O" first="Owen Tak-Yin" last="Tsang">Owen Tak-Yin Tsang</name><affiliation wicri:level="1"><nlm:affiliation>Department of Medicine and Geriatrics, Princess Margaret Hospital, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Medicine and Geriatrics, Princess Margaret Hospital, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Tsui, Stephen Kwok Wing" sort="Tsui, Stephen Kwok Wing" uniqKey="Tsui S" first="Stephen Kwok Wing" last="Tsui">Stephen Kwok Wing Tsui</name><affiliation wicri:level="1"><nlm:affiliation>School of Biomedical Sciences, The Chinese University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Biomedical Sciences, The Chinese University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author><author><name sortKey="Yuen, Kwok Yung" sort="Yuen, Kwok Yung" uniqKey="Yuen K" first="Kwok-Yung" last="Yuen">Kwok-Yung Yuen</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong</wicri:regionArea></affiliation></author></analytic><series><title level="j">International journal of molecular sciences</title><idno type="eISSN">1422-0067</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The pandemic novel coronavirus infection, Coronavirus Disease 2019 (COVID-19), has affected at least 190 countries or territories, with 465,915 confirmed cases and 21,031 deaths. In a containment-based strategy, rapid, sensitive and specific testing is important in epidemiological control and clinical management. Using 96 SARS-CoV-2 and 104 non-SARS-CoV-2 coronavirus genomes and our in-house program, GolayMetaMiner, four specific regions longer than 50 nucleotides in the SARS-CoV-2 genome were identified. Primers were designed to target the longest and previously untargeted nsp2 region and optimized as a probe-free real-time reverse transcription-polymerase chain reaction (RT-PCR) assay. The new COVID-19-nsp2 assay had a limit of detection (LOD) of 1.8 TCID<sub>50</sub>/mL and did not amplify other human-pathogenic coronaviruses and respiratory viruses. Assay reproducibility in terms of cycle threshold (Cp) values was satisfactory, with the total imprecision (% CV) values well below 5%. Evaluation of the new assay using 59 clinical specimens from 14 confirmed cases showed 100% concordance with our previously developed COVID-19-RdRp/Hel reference assay. A rapid, sensitive, SARS-CoV-2-specific real-time RT-PCR assay, COVID-19-nsp2, was developed.</div></front></TEI><pubmed><MedlineCitation Status="In-Process" Owner="NLM"><PMID Version="1">32276333</PMID><DateRevised><Year>2020</Year><Month>04</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1422-0067</ISSN><JournalIssue CitedMedium="Internet"><Volume>21</Volume><Issue>7</Issue><PubDate><Year>2020</Year><Month>Apr</Month><Day>08</Day></PubDate></JournalIssue><Title>International journal of molecular sciences</Title><ISOAbbreviation>Int J Mol Sci</ISOAbbreviation></Journal><ArticleTitle>Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.</ArticleTitle><ELocationID EIdType="pii" ValidYN="Y">E2574</ELocationID><ELocationID EIdType="doi" ValidYN="Y">10.3390/ijms21072574</ELocationID><Abstract><AbstractText>The pandemic novel coronavirus infection, Coronavirus Disease 2019 (COVID-19), has affected at least 190 countries or territories, with 465,915 confirmed cases and 21,031 deaths. In a containment-based strategy, rapid, sensitive and specific testing is important in epidemiological control and clinical management. Using 96 SARS-CoV-2 and 104 non-SARS-CoV-2 coronavirus genomes and our in-house program, GolayMetaMiner, four specific regions longer than 50 nucleotides in the SARS-CoV-2 genome were identified. Primers were designed to target the longest and previously untargeted nsp2 region and optimized as a probe-free real-time reverse transcription-polymerase chain reaction (RT-PCR) assay. The new COVID-19-nsp2 assay had a limit of detection (LOD) of 1.8 TCID<sub>50</sub>/mL and did not amplify other human-pathogenic coronaviruses and respiratory viruses. Assay reproducibility in terms of cycle threshold (Cp) values was satisfactory, with the total imprecision (% CV) values well below 5%. Evaluation of the new assay using 59 clinical specimens from 14 confirmed cases showed 100% concordance with our previously developed COVID-19-RdRp/Hel reference assay. A rapid, sensitive, SARS-CoV-2-specific real-time RT-PCR assay, COVID-19-nsp2, was developed.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Yip</LastName><ForeName>Cyril Chik-Yan</ForeName><Initials>CC</Initials><AffiliationInfo><Affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ho</LastName><ForeName>Chi-Chun</ForeName><Initials>CC</Initials><AffiliationInfo><Affiliation>Genomics and Bioinformatics Programme, The Chinese University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chan</LastName><ForeName>Jasper Fuk-Woo</ForeName><Initials>JF</Initials><Identifier Source="ORCID">0000-0001-6336-6657</Identifier><AffiliationInfo><Affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Clinical Microbiology and Infection, The University of Hong Kong-Shenzhen Hospital, Shenzhen 518053, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Carol Yu Centre for Infection, Li Ka Shing Faculty of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>To</LastName><ForeName>Kelvin Kai-Wang</ForeName><Initials>KK</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Clinical Microbiology and Infection, The University of Hong Kong-Shenzhen Hospital, Shenzhen 518053, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Carol Yu Centre for Infection, Li Ka Shing Faculty of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chan</LastName><ForeName>Helen Shuk-Ying</ForeName><Initials>HS</Initials><AffiliationInfo><Affiliation>Department of Medicine, Queen Elizabeth Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wong</LastName><ForeName>Sally Cheuk-Ying</ForeName><Initials>SC</Initials><AffiliationInfo><Affiliation>Department of Pathology, Queen Elizabeth Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Leung</LastName><ForeName>Kit-Hang</ForeName><Initials>KH</Initials><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Fung</LastName><ForeName>Agnes Yim-Fong</ForeName><Initials>AY</Initials><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ng</LastName><ForeName>Anthony Chin-Ki</ForeName><Initials>AC</Initials><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zou</LastName><ForeName>Zijiao</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tam</LastName><ForeName>Anthony Raymond</ForeName><Initials>AR</Initials><AffiliationInfo><Affiliation>Department of Medicine, Queen Mary Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chung</LastName><ForeName>Tom Wai-Hin</ForeName><Initials>TW</Initials><AffiliationInfo><Affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chan</LastName><ForeName>Kwok-Hung</ForeName><Initials>KH</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Carol Yu Centre for Infection, Li Ka Shing Faculty of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hung</LastName><ForeName>Ivan Fan-Ngai</ForeName><Initials>IF</Initials><AffiliationInfo><Affiliation>Department of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cheng</LastName><ForeName>Vincent Chi-Chung</ForeName><Initials>VC</Initials><AffiliationInfo><Affiliation>Department of Microbiology, Queen Mary Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tsang</LastName><ForeName>Owen Tak-Yin</ForeName><Initials>OT</Initials><AffiliationInfo><Affiliation>Department of Medicine and Geriatrics, Princess Margaret Hospital, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tsui</LastName><ForeName>Stephen Kwok Wing</ForeName><Initials>SKW</Initials><AffiliationInfo><Affiliation>School of Biomedical Sciences, The Chinese University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yuen</LastName><ForeName>Kwok-Yung</ForeName><Initials>KY</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Microbiology, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Clinical Microbiology and Infection, The University of Hong Kong-Shenzhen Hospital, Shenzhen 518053, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Carol Yu Centre for Infection, Li Ka Shing Faculty of Medicine, The University of Hong Kong, HKSAR, Hong Kong, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>SZSM201911014</GrantID><Agency>Sanming Project of Medicine in Shenzhen, China</Agency><Country></Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>04</Month><Day>08</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Int J Mol Sci</MedlineTA><NlmUniqueID>101092791</NlmUniqueID><ISSNLinking>1422-0067</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">COVID-19</Keyword><Keyword MajorTopicYN="N">COVID-19-nsp2 assay</Keyword><Keyword MajorTopicYN="N">GolayMetaMiner</Keyword><Keyword MajorTopicYN="N">SARS-CoV-2</Keyword><Keyword MajorTopicYN="N">clinical evaluation</Keyword><Keyword MajorTopicYN="N">genome subtraction</Keyword><Keyword MajorTopicYN="N">nsp2</Keyword><Keyword MajorTopicYN="N">real-time RT-PCR</Keyword><Keyword MajorTopicYN="N">sensitivity</Keyword><Keyword MajorTopicYN="N">specificity</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>03</Month><Day>27</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2020</Year><Month>04</Month><Day>04</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>04</Month><Day>06</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>4</Month><Day>12</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>4</Month><Day>12</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>4</Month><Day>12</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32276333</ArticleId><ArticleId IdType="pii">ijms21072574</ArticleId><ArticleId IdType="doi">10.3390/ijms21072574</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/PubMed/Curation
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000228 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/PubMed/Curation/biblio.hfd -nk 000228 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= SrasV1
|flux= PubMed
|étape= Curation
|type= RBID
|clé= pubmed:32276333
|texte= Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/PubMed/Curation/RBID.i -Sk "pubmed:32276333" \
| HfdSelect -Kh $EXPLOR_AREA/Data/PubMed/Curation/biblio.hfd \
| NlmPubMed2Wicri -a SrasV1
| This area was generated with Dilib version V0.6.33. |  |