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  1. Article ; Online: Discovery and Genomic Characterization of a 382-Nucleotide Deletion in ORF7b and ORF8 during the Early Evolution of SARS-CoV-2.

    Su, Yvonne C F / Anderson, Danielle E / Young, Barnaby E / Linster, Martin / Zhu, Feng / Jayakumar, Jayanthi / Zhuang, Yan / Kalimuddin, Shirin / Low, Jenny G H / Tan, Chee Wah / Chia, Wan Ni / Mak, Tze Minn / Octavia, Sophie / Chavatte, Jean-Marc / Lee, Raphael T C / Pada, Surinder / Tan, Seow Yen / Sun, Louisa / Yan, Gabriel Z /
    Maurer-Stroh, Sebastian / Mendenhall, Ian H / Leo, Yee-Sin / Lye, David Chien / Wang, Lin-Fa / Smith, Gavin J D

    mBio

    2020  Volume 11, Issue 4

    Abstract: ... genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates ... with the deletion viruses circulating in the country and accounting for 23.6% (45/191) of SARS-CoV-2 samples ... screened in this study. SARS-CoV-2 with the same deletion has since been detected in Taiwan, and ...

    Abstract To date, limited genetic changes in the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates open reading frame 7b (ORF7b) and ORF8, removing the ORF8 transcription regulatory sequence (TRS) and eliminating ORF8 transcription. The earliest 382-nt deletion variant was detected in Singapore on 29 January 2020, with the deletion viruses circulating in the country and accounting for 23.6% (45/191) of SARS-CoV-2 samples screened in this study. SARS-CoV-2 with the same deletion has since been detected in Taiwan, and other ORF7b/8 deletions of various lengths, ranging from 62 nt to 345 nt, have been observed in other geographic locations, including Australia, Bangladesh, and Spain. Mutations or deletions in ORF8 of SARS-CoV have been associated with reduced replicative fitness and virus attenuation. In contrast, the SARS-CoV-2 382-nt deletion viruses showed significantly higher replicative fitness
    MeSH term(s) Base Sequence ; Betacoronavirus/genetics ; Betacoronavirus/immunology ; Betacoronavirus/physiology ; Genome, Viral ; Humans ; Open Reading Frames ; SARS-CoV-2 ; Sequence Deletion ; Virus Replication
    Keywords covid19
    Language English
    Publishing date 2020-07-21
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mBio.01610-20
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Discovery and Genomic Characterization of a 382-Nucleotide Deletion in ORF7b and ORF8 during the Early Evolution of SARS-CoV-2

    Yvonne C. F. Su / Danielle E. Anderson / Barnaby E. Young / Martin Linster / Feng Zhu / Jayanthi Jayakumar / Yan Zhuang / Shirin Kalimuddin / Jenny G. H. Low / Chee Wah Tan / Wan Ni Chia / Tze Minn Mak / Sophie Octavia / Jean-Marc Chavatte / Raphael T. C. Lee / Surinder Pada / Seow Yen Tan / Louisa Sun / Gabriel Z. Yan /
    Sebastian Maurer-Stroh / Ian H. Mendenhall / Yee-Sin Leo / David Chien Lye / Lin-Fa Wang / Gavin J. D. Smith

    mBio, Vol 11, Iss 4, p e01610-

    2020  Volume 20

    Abstract: During the SARS epidemic in 2003/2004, a number of deletions were observed in ORF8 of SARS-CoV, and ... described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates open reading frame 7b ... with the deletion viruses circulating in the country and accounting for 23.6% (45/191) of SARS-CoV-2 samples ...

    Abstract During the SARS epidemic in 2003/2004, a number of deletions were observed in ORF8 of SARS-CoV, and eventually deletion variants became predominant, leading to the hypothesis that ORF8 was an evolutionary hot spot for adaptation of SARS-CoV to humans. However, due to the successful control of the SARS epidemic, the importance of these deletions for the epidemiological fitness of SARS-CoV in humans could not be established. The emergence of multiple SARS-CoV-2 strains with ORF8 deletions, combined with evidence of a robust immune response to ORF8, suggests that the lack of ORF8 may assist with host immune evasion. In addition to providing a key insight into the evolutionary behavior of SARS-CoV-2 as the virus adapts to its new human hosts, the emergence of ORF8 deletion variants may also impact vaccination strategies.To date, limited genetic changes in the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates open reading frame 7b (ORF7b) and ORF8, removing the ORF8 transcription regulatory sequence (TRS) and eliminating ORF8 transcription. The earliest 382-nt deletion variant was detected in Singapore on 29 January 2020, with the deletion viruses circulating in the country and accounting for 23.6% (45/191) of SARS-CoV-2 samples screened in this study. SARS-CoV-2 with the same deletion has since been detected in Taiwan, and other ORF7b/8 deletions of various lengths, ranging from 62 nt to 345 nt, have been observed in other geographic locations, including Australia, Bangladesh, and Spain. Mutations or deletions in ORF8 of SARS-CoV have been associated with reduced replicative fitness and virus attenuation. In contrast, the SARS-CoV-2 382-nt deletion viruses showed significantly higher replicative fitness in vitro than the wild type, while no difference was observed in patient viral load, indicating that the deletion variant viruses retained their replicative fitness. A robust antibody response to ORF8 has been observed in SARS-CoV-2 infection, suggesting that the emergence of ORF8 deletions may be due to immune-driven selection and that further deletion variants may emerge during the sustained transmission of SARS-CoV-2 in humans.
    Keywords covid-19 ; orf8 ; natural selection ; phylogeny ; vaccines ; Microbiology ; QR1-502 ; covid19
    Subject code 570
    Language English
    Publishing date 2020-07-01T00:00:00Z
    Publisher American Society for Microbiology
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article: Discovery and Genomic Characterization of a 382-Nucleotide Deletion in ORF7b and ORF8 during the Early Evolution of SARS-CoV-2

    Su, Yvonne C F / Anderson, Danielle E / Young, Barnaby E / Linster, Martin / Zhu, Feng / Jayakumar, Jayanthi / Zhuang, Yan / Kalimuddin, Shirin / Low, Jenny G H / Tan, Chee Wah / Chia, Wan Ni / Mak, Tze Minn / Octavia, Sophie / Chavatte, Jean-Marc / Lee, Raphael T C / Pada, Surinder / Tan, Seow Yen / Sun, Louisa / Yan, Gabriel Z /
    Maurer-Stroh, Sebastian / Mendenhall, Ian H / Leo, Yee-Sin / Lye, David Chien / Wang, Lin-Fa / Smith, Gavin J D

    mBio (Online)

    Abstract: ... into the evolutionary behavior of SARS-CoV-2 as the virus adapts to its new human hosts, the emergence of ORF8 deletion ... genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates ... in 2003/2004, a number of deletions were observed in ORF8 of SARS-CoV, and eventually deletion variants ...

    Abstract To date, limited genetic changes in the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates open reading frame 7b (ORF7b) and ORF8, removing the ORF8 transcription regulatory sequence (TRS) and eliminating ORF8 transcription. The earliest 382-nt deletion variant was detected in Singapore on 29 January 2020, with the deletion viruses circulating in the country and accounting for 23.6% (45/191) of SARS-CoV-2 samples screened in this study. SARS-CoV-2 with the same deletion has since been detected in Taiwan, and other ORF7b/8 deletions of various lengths, ranging from 62 nt to 345 nt, have been observed in other geographic locations, including Australia, Bangladesh, and Spain. Mutations or deletions in ORF8 of SARS-CoV have been associated with reduced replicative fitness and virus attenuation. In contrast, the SARS-CoV-2 382-nt deletion viruses showed significantly higher replicative fitness in vitro than the wild type, while no difference was observed in patient viral load, indicating that the deletion variant viruses retained their replicative fitness. A robust antibody response to ORF8 has been observed in SARS-CoV-2 infection, suggesting that the emergence of ORF8 deletions may be due to immune-driven selection and that further deletion variants may emerge during the sustained transmission of SARS-CoV-2 in humans.IMPORTANCE During the SARS epidemic in 2003/2004, a number of deletions were observed in ORF8 of SARS-CoV, and eventually deletion variants became predominant, leading to the hypothesis that ORF8 was an evolutionary hot spot for adaptation of SARS-CoV to humans. However, due to the successful control of the SARS epidemic, the importance of these deletions for the epidemiological fitness of SARS-CoV in humans could not be established. The emergence of multiple SARS-CoV-2 strains with ORF8 deletions, combined with evidence of a robust immune response to ORF8, suggests that the lack of ORF8 may assist with host immune evasion. In addition to providing a key insight into the evolutionary behavior of SARS-CoV-2 as the virus adapts to its new human hosts, the emergence of ORF8 deletion variants may also impact vaccination strategies.
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #660818
    Database COVID19

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    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  4. Article ; Online: Discovery and Genomic Characterization of a 382-Nucleotide Deletion in ORF7b and ORF8 during the Early Evolution of SARS-CoV-2

    Su, Yvonne C. F. / Anderson, Danielle E. / Young, Barnaby E. / Linster, Martin / Zhu, Feng / Jayakumar, Jayanthi / Zhuang, Yan / Kalimuddin, Shirin / Low, Jenny G. H. / Tan, Chee Wah / Chia, Wan Ni / Mak, Tze Minn / Octavia, Sophie / Chavatte, Jean-Marc / Lee, Raphael T. C. / Pada, Surinder / Tan, Seow Yen / Sun, Louisa / Yan, Gabriel Z. /
    Maurer-Stroh, Sebastian / Mendenhall, Ian H. / Leo, Yee-Sin / Lye, David Chien / Wang, Lin-Fa / Smith, Gavin J. D.

    mBio

    2020  Volume 11, Issue 4

    Abstract: ... and that further deletion variants may emerge during the sustained transmission of SARS-CoV-2 ... SARS-CoV-2) genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 ... of SARS-CoV, and eventually deletion variants became predominant, leading to the hypothesis that ORF8 was ...

    Abstract ABSTRACT To date, limited genetic changes in the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genome have been described. Here, we report a 382-nucleotide (nt) deletion in SARS-CoV-2 that truncates open reading frame 7b (ORF7b) and ORF8, removing the ORF8 transcription regulatory sequence (TRS) and eliminating ORF8 transcription. The earliest 382-nt deletion variant was detected in Singapore on 29 January 2020, with the deletion viruses circulating in the country and accounting for 23.6% (45/191) of SARS-CoV-2 samples screened in this study. SARS-CoV-2 with the same deletion has since been detected in Taiwan, and other ORF7b/8 deletions of various lengths, ranging from 62 nt to 345 nt, have been observed in other geographic locations, including Australia, Bangladesh, and Spain. Mutations or deletions in ORF8 of SARS-CoV have been associated with reduced replicative fitness and virus attenuation. In contrast, the SARS-CoV-2 382-nt deletion viruses showed significantly higher replicative fitness in vitro than the wild type, while no difference was observed in patient viral load, indicating that the deletion variant viruses retained their replicative fitness. A robust antibody response to ORF8 has been observed in SARS-CoV-2 infection, suggesting that the emergence of ORF8 deletions may be due to immune-driven selection and that further deletion variants may emerge during the sustained transmission of SARS-CoV-2 in humans. IMPORTANCE During the SARS epidemic in 2003/2004, a number of deletions were observed in ORF8 of SARS-CoV, and eventually deletion variants became predominant, leading to the hypothesis that ORF8 was an evolutionary hot spot for adaptation of SARS-CoV to humans. However, due to the successful control of the SARS epidemic, the importance of these deletions for the epidemiological fitness of SARS-CoV in humans could not be established. The emergence of multiple SARS-CoV-2 strains with ORF8 deletions, combined with evidence of a robust immune response to ORF8, suggests that the lack of ORF8 may assist with host immune evasion. In addition to providing a key insight into the evolutionary behavior of SARS-CoV-2 as the virus adapts to its new human hosts, the emergence of ORF8 deletion variants may also impact vaccination strategies.
    Keywords covid19
    Language English
    Publisher American Society for Microbiology
    Publishing country us
    Document type Article ; Online
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mbio.01610-20
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

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