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  1. Article ; Online: Poor evidence for host-dependent regular RNA editing in the transcriptome of SARS-CoV-2.

    Zong, Jinbao / Zhang, Yanping / Guo, Fenfen / Wang, Changyuan / Li, Hong / Lin, Gaoyang / Jiang, Wenqing / Song, Xiaoping / Zhang, Xiufang / Huang, Feng / Qi, Min / Zheng, Xin

    Journal of applied genetics

    2022  Volume 63, Issue 2, Page(s) 413–421

    MeSH term(s) COVID-19/genetics ; Humans ; RNA Editing/genetics ; RNA, Viral/genetics ; SARS-CoV-2/genetics ; Transcriptome
    Chemical Substances RNA, Viral
    Language English
    Publishing date 2022-02-18
    Publishing country England
    Document type Letter
    ZDB-ID 1235302-4
    ISSN 2190-3883 ; 1234-1983
    ISSN (online) 2190-3883
    ISSN 1234-1983
    DOI 10.1007/s13353-022-00687-y
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Commentary on "Poor evidence for host-dependent regular RNA editing in the transcriptome of SARS-CoV-2".

    Martignano, F / Di Giorgio, S / Mattiuz, G / Conticello, S G

    Journal of applied genetics

    2022  Volume 63, Issue 2, Page(s) 423–428

    Abstract: Analysis of the SARS-CoV-2 transcriptome has revealed a background of low-frequency intra-host ... APOBEC host-deaminases could be involved in the onset of SARS-CoV-2 genetic variability. Our hypothesis ... to suggest that viral RNA editing is the most reasonable explanation for the observed intra- and inter-host ...

    Abstract Analysis of the SARS-CoV-2 transcriptome has revealed a background of low-frequency intra-host genetic changes with a strong bias towards transitions. A similar pattern is also observed when inter-host variability is considered. We and others have shown that the cellular RNA editing machinery based on ADAR and APOBEC host-deaminases could be involved in the onset of SARS-CoV-2 genetic variability. Our hypothesis is based both on similarities with other known forms of viral genome editing and on the excess of transition changes, which is difficult to explain with errors during viral replication. Zong et al. criticize our analysis on both conceptual and technical grounds. While ultimate proof of an involvement of host deaminases in viral RNA editing will depend on experimental validation, here, we address the criticism to suggest that viral RNA editing is the most reasonable explanation for the observed intra- and inter-host variability.
    MeSH term(s) Adenosine Deaminase/genetics ; Adenosine Deaminase/metabolism ; COVID-19/genetics ; Humans ; RNA Editing/genetics ; SARS-CoV-2/genetics ; Transcriptome/genetics
    Chemical Substances Adenosine Deaminase (EC 3.5.4.4)
    Language English
    Publishing date 2022-03-12
    Publishing country England
    Document type Letter
    ZDB-ID 1235302-4
    ISSN 2190-3883 ; 1234-1983
    ISSN (online) 2190-3883
    ISSN 1234-1983
    DOI 10.1007/s13353-022-00688-x
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Evidence for host-dependent RNA editing in the transcriptome of SARS-CoV-2.

    Di Giorgio, Salvatore / Martignano, Filippo / Torcia, Maria Gabriella / Mattiuz, Giorgio / Conticello, Silvestro G

    Science advances

    2020  Volume 6, Issue 25, Page(s) eabb5813

    Abstract: ... to the SARS-CoV-2 virus will help to combat the disease. RNA editing by host deaminases is an innate ... from coronavirus-infected patients. We identify nucleotide changes that may be signatures of RNA editing: adenosine ... The COVID-19 outbreak has become a global health risk, and understanding the response of the host ...

    Abstract The COVID-19 outbreak has become a global health risk, and understanding the response of the host to the SARS-CoV-2 virus will help to combat the disease. RNA editing by host deaminases is an innate restriction process to counter virus infection, but it is not yet known whether this process operates against coronaviruses. Here, we analyze RNA sequences from bronchoalveolar lavage fluids obtained from coronavirus-infected patients. We identify nucleotide changes that may be signatures of RNA editing: adenosine-to-inosine changes from ADAR deaminases and cytosine-to-uracil changes from APOBEC deaminases. Mutational analysis of genomes from different strains of Coronaviridae from human hosts reveals mutational patterns consistent with those observed in the transcriptomic data. However, the reduced ADAR signature in these data raises the possibility that ADARs might be more effective than APOBECs in restricting viral propagation. Our results thus suggest that both APOBECs and ADARs are involved in coronavirus genome editing, a process that may shape the fate of both virus and patient.
    MeSH term(s) APOBEC Deaminases/genetics ; APOBEC Deaminases/metabolism ; Adenosine Deaminase/genetics ; Adenosine Deaminase/metabolism ; Base Sequence/genetics ; Betacoronavirus/genetics ; Betacoronavirus/metabolism ; Bronchoalveolar Lavage Fluid/virology ; COVID-19 ; Coronavirus Infections/genetics ; Coronavirus Infections/virology ; Genome, Viral/genetics ; Host-Pathogen Interactions/genetics ; Humans ; Mutation Rate ; Nucleotides/genetics ; Nucleotides/metabolism ; Pandemics ; Pneumonia, Viral/genetics ; Pneumonia, Viral/virology ; RNA Editing/genetics ; RNA, Viral/genetics ; SARS-CoV-2 ; Transcriptome ; Virus Replication/genetics
    Chemical Substances Nucleotides ; RNA, Viral ; ADA protein, human (EC 3.5.4.4) ; Adenosine Deaminase (EC 3.5.4.4) ; APOBEC Deaminases (EC 3.5.4.5)
    Keywords covid19
    Language English
    Publishing date 2020-06-17
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2810933-8
    ISSN 2375-2548 ; 2375-2548
    ISSN (online) 2375-2548
    ISSN 2375-2548
    DOI 10.1126/sciadv.abb5813
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Commentary on “Poor evidence for host-dependent regular RNA editing in the transcriptome of SARS-CoV-2”

    Martignano, F. / Di Giorgio, S. / Mattiuz, G. / Conticello, S. G.

    Journal of applied genetics. 2022 May, v. 63, no. 2

    2022  

    Abstract: Analysis of the SARS-CoV-2 transcriptome has revealed a background of low-frequency intra-host ... APOBEC host-deaminases could be involved in the onset of SARS-CoV-2 genetic variability. Our hypothesis ... to suggest that viral RNA editing is the most reasonable explanation for the observed intra- and inter-host ...

    Abstract Analysis of the SARS-CoV-2 transcriptome has revealed a background of low-frequency intra-host genetic changes with a strong bias towards transitions. A similar pattern is also observed when inter-host variability is considered. We and others have shown that the cellular RNA editing machinery based on ADAR and APOBEC host-deaminases could be involved in the onset of SARS-CoV-2 genetic variability. Our hypothesis is based both on similarities with other known forms of viral genome editing and on the excess of transition changes, which is difficult to explain with errors during viral replication. Zong et al. criticize our analysis on both conceptual and technical grounds. While ultimate proof of an involvement of host deaminases in viral RNA editing will depend on experimental validation, here, we address the criticism to suggest that viral RNA editing is the most reasonable explanation for the observed intra- and inter-host variability.
    Keywords RNA ; Severe acute respiratory syndrome coronavirus 2 ; genetic variation ; transcriptome ; viral genome ; virus replication
    Language English
    Dates of publication 2022-05
    Size p. 423-428.
    Publishing place Springer Berlin Heidelberg
    Document type Article
    Note Letter
    ZDB-ID 1235302-4
    ISSN 2190-3883 ; 1234-1983
    ISSN (online) 2190-3883
    ISSN 1234-1983
    DOI 10.1007/s13353-022-00688-x
    Database NAL-Catalogue (AGRICOLA)

    Full text online

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    In stock of ZB MED Bonn / Germany

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

  5. Article: Evidence for host-dependent RNA editing in the transcriptome of SARS-CoV-2

    Di Giorgio, Salvatore / Martignano, Filippo / Torcia, Maria Gabriella / Mattiuz, Giorgio / Conticello, Silvestro G

    Sci Adv

    Abstract: ... to the SARS-CoV-2 virus will help to combat the disease. RNA editing by host deaminases is an innate ... from coronavirus-infected patients. We identify nucleotide changes that may be signatures of RNA editing: adenosine ... The COVID-19 outbreak has become a global health risk, and understanding the response of the host ...

    Abstract The COVID-19 outbreak has become a global health risk, and understanding the response of the host to the SARS-CoV-2 virus will help to combat the disease. RNA editing by host deaminases is an innate restriction process to counter virus infection, but it is not yet known whether this process operates against coronaviruses. Here, we analyze RNA sequences from bronchoalveolar lavage fluids obtained from coronavirus-infected patients. We identify nucleotide changes that may be signatures of RNA editing: adenosine-to-inosine changes from ADAR deaminases and cytosine-to-uracil changes from APOBEC deaminases. Mutational analysis of genomes from different strains of Coronaviridae from human hosts reveals mutational patterns consistent with those observed in the transcriptomic data. However, the reduced ADAR signature in these data raises the possibility that ADARs might be more effective than APOBECs in restricting viral propagation. Our results thus suggest that both APOBECs and ADARs are involved in coronavirus genome editing, a process that may shape the fate of both virus and patient.
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #619103
    Database COVID19

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

  6. Article ; Online: Evidence for host-dependent RNA editing in the transcriptome of SARS-CoV-2

    Di Giorgio, Salvatore / Martignano, Filippo / Torcia, Maria Gabriella / Mattiuz, Giorgio / Conticello, Silvestro G.

    Science Advances

    2020  Volume 6, Issue 25, Page(s) eabb5813

    Abstract: ... to the SARS-CoV-2 virus will help to combat the disease. RNA editing by host deaminases is an innate ... from coronavirus-infected patients. We identify nucleotide changes that may be signatures of RNA editing: adenosine ... The COVID-19 outbreak has become a global health risk, and understanding the response of the host ...

    Abstract The COVID-19 outbreak has become a global health risk, and understanding the response of the host to the SARS-CoV-2 virus will help to combat the disease. RNA editing by host deaminases is an innate restriction process to counter virus infection, but it is not yet known whether this process operates against coronaviruses. Here, we analyze RNA sequences from bronchoalveolar lavage fluids obtained from coronavirus-infected patients. We identify nucleotide changes that may be signatures of RNA editing: adenosine-to-inosine changes from ADAR deaminases and cytosine-to-uracil changes from APOBEC deaminases. Mutational analysis of genomes from different strains of Coronaviridae from human hosts reveals mutational patterns consistent with those observed in the transcriptomic data. However, the reduced ADAR signature in these data raises the possibility that ADARs might be more effective than APOBECs in restricting viral propagation. Our results thus suggest that both APOBECs and ADARs are involved in coronavirus genome editing, a process that may shape the fate of both virus and patient.
    Keywords covid19
    Language English
    Publisher American Association for the Advancement of Science (AAAS)
    Publishing country us
    Document type Article ; Online
    ZDB-ID 2810933-8
    ISSN 2375-2548
    ISSN 2375-2548
    DOI 10.1126/sciadv.abb5813
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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