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  1. Article ; Online: Charcot-Marie-Tooth mutation in glycyl-tRNA synthetase stalls ribosomes in a pre-accommodation state and activates integrated stress response.

    Mendonsa, Samantha / von Kuegelgen, Nicolai / Bujanic, Lucija / Chekulaeva, Marina

    Nucleic acids research

    2021  Volume 49, Issue 17, Page(s) 10007–10017

    Abstract: Toxic gain-of-function mutations in aminoacyl-tRNA synthetases cause a degeneration of peripheral motor and sensory axons, known as Charcot-Marie-Tooth (CMT) disease. While these mutations do not disrupt overall aminoacylation activity, they interfere ... ...

    Abstract Toxic gain-of-function mutations in aminoacyl-tRNA synthetases cause a degeneration of peripheral motor and sensory axons, known as Charcot-Marie-Tooth (CMT) disease. While these mutations do not disrupt overall aminoacylation activity, they interfere with translation via an unknown mechanism. Here, we dissect the mechanism of function of CMT mutant glycyl-tRNA synthetase (CMT-GARS), using high-resolution ribosome profiling and reporter assays. We find that CMT-GARS mutants deplete the pool of glycyl-tRNAGly available for translation and inhibit the first stage of elongation, the accommodation of glycyl-tRNA into the ribosomal A-site, which causes ribosomes to pause at glycine codons. Moreover, ribosome pausing activates a secondary repression mechanism at the level of translation initiation, by inducing the phosphorylation of the alpha subunit of eIF2 and the integrated stress response. Thus, CMT-GARS mutant triggers translational repression via two interconnected mechanisms, affecting both elongation and initiation of translation.
    MeSH term(s) Cell Line ; Charcot-Marie-Tooth Disease/genetics ; Eukaryotic Initiation Factor-2/metabolism ; Gain of Function Mutation/genetics ; Gene Expression/genetics ; Glycine/genetics ; Glycine-tRNA Ligase/genetics ; HEK293 Cells ; Humans ; Peptide Chain Elongation, Translational/genetics ; Peptide Chain Initiation, Translational/genetics ; Phosphorylation ; Protein Biosynthesis/genetics ; RNA, Transfer, Gly/genetics ; Ribosomes/metabolism
    Chemical Substances Eukaryotic Initiation Factor-2 ; RNA, Transfer, Gly ; Glycine-tRNA Ligase (EC 6.1.1.14) ; Glycine (TE7660XO1C)
    Language English
    Publishing date 2021-08-13
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 186809-3
    ISSN 1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
    ISSN (online) 1362-4962 ; 1362-4954
    ISSN 0301-5610 ; 0305-1048
    DOI 10.1093/nar/gkab730
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: The key features of SARS-CoV-2 leader and NSP1 required for viral escape of NSP1-mediated repression.

    Bujanic, Lucija / Shevchuk, Olga / von Kügelgen, Nicolai / Kalinina, Anna / Ludwik, Katarzyna / Koppstein, David / Zerna, Nadja / Sickmann, Albert / Chekulaeva, Marina

    RNA (New York, N.Y.)

    2022  Volume 28, Issue 5, Page(s) 766–779

    Abstract: SARS-CoV-2, responsible for the ongoing global pandemic, must overcome a conundrum faced by all viruses. To achieve its own replication and spread, it simultaneously depends on and subverts cellular mechanisms. At the early stage of infection, SARS-CoV-2 ...

    Abstract SARS-CoV-2, responsible for the ongoing global pandemic, must overcome a conundrum faced by all viruses. To achieve its own replication and spread, it simultaneously depends on and subverts cellular mechanisms. At the early stage of infection, SARS-CoV-2 expresses the viral nonstructural protein 1 (NSP1), which inhibits host translation by blocking the mRNA entry tunnel on the ribosome; this interferes with the binding of cellular mRNAs to the ribosome. Viral mRNAs, on the other hand, overcome this blockade. We show that NSP1 enhances expression of mRNAs containing the SARS-CoV-2 leader. The first stem-loop (SL1) in the viral leader is both necessary and sufficient for this enhancement mechanism. Our analysis pinpoints specific residues within SL1 (three cytosine residues at the positions 15, 19, and 20) and another within NSP1 (R124), which are required for viral evasion, and thus might present promising drug targets. We target SL1 with the antisense oligo (ASO) to efficiently and specifically down-regulate SARS-CoV-2 mRNA. Additionally, we carried out analysis of a functional interactome of NSP1 using BioID and identified components of antiviral defense pathways. Our analysis therefore suggests a mechanism by which NSP1 inhibits the expression of host genes while enhancing that of viral RNA. This analysis helps reconcile conflicting reports in the literature regarding the mechanisms by which the virus avoids NSP1 silencing.
    MeSH term(s) COVID-19/virology ; Humans ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Ribosomes/metabolism ; SARS-CoV-2/metabolism ; Viral Nonstructural Proteins/genetics ; Viral Nonstructural Proteins/metabolism
    Chemical Substances NSP1 protein, SARS-CoV-2 ; RNA, Messenger ; Viral Nonstructural Proteins
    Language English
    Publishing date 2022-03-01
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1241540-6
    ISSN 1469-9001 ; 1355-8382
    ISSN (online) 1469-9001
    ISSN 1355-8382
    DOI 10.1261/rna.079086.121
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Massively parallel identification of mRNA localization elements in primary cortical neurons.

    Mendonsa, Samantha / von Kügelgen, Nicolai / Dantsuji, Sayaka / Ron, Maya / Breimann, Laura / Baranovskii, Artem / Lödige, Inga / Kirchner, Marieluise / Fischer, Meret / Zerna, Nadja / Bujanic, Lucija / Mertins, Philipp / Ulitsky, Igor / Chekulaeva, Marina

    Nature neuroscience

    2023  Volume 26, Issue 3, Page(s) 394–405

    Abstract: Cells adopt highly polarized shapes and form distinct subcellular compartments in many cases due to the localization of many mRNAs to specific areas, where they are translated into proteins with local functions. This mRNA localization is mediated by ... ...

    Abstract Cells adopt highly polarized shapes and form distinct subcellular compartments in many cases due to the localization of many mRNAs to specific areas, where they are translated into proteins with local functions. This mRNA localization is mediated by specific cis-regulatory elements in mRNAs, commonly called 'zipcodes'. Although there are hundreds of localized mRNAs, only a few zipcodes have been characterized. Here we describe a novel neuronal zipcode identification protocol (N-zip) that can identify zipcodes across hundreds of 3' untranslated regions. This approach combines a method of separating the principal subcellular compartments of neurons-cell bodies and neurites-with a massively parallel reporter assay. N-zip identifies the let-7 binding site and (AU)
    MeSH term(s) Mice ; Animals ; RNA, Messenger/metabolism ; Neurons/metabolism ; Neurites
    Chemical Substances RNA, Messenger
    Language English
    Publishing date 2023-01-16
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ZDB-ID 1420596-8
    ISSN 1546-1726 ; 1097-6256
    ISSN (online) 1546-1726
    ISSN 1097-6256
    DOI 10.1038/s41593-022-01243-x
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: The key features of SARS-CoV-2 leader and NSP1 required for viral escape of NSP1-mediated repression

    Bujanic, Lucija / Shevchuk, Olga / von Kuegelgen, Nicolai / Ludwik, Katarzyna / Koppstein, David / Zerna, Nadja / Sickmann, Albert / Chekulaeva, Marina

    bioRxiv

    Abstract: SARS-CoV-2, responsible for the ongoing global pandemic, must overcome a conundrum faced by all viruses. To achieve its own replication and spread, it simultaneously depends on and subverts cellular mechanisms. At the early stage of infection, SARS-CoV-2 ...

    Abstract SARS-CoV-2, responsible for the ongoing global pandemic, must overcome a conundrum faced by all viruses. To achieve its own replication and spread, it simultaneously depends on and subverts cellular mechanisms. At the early stage of infection, SARS-CoV-2 expresses the viral nonstructural protein 1 (NSP1), which inhibits host translation by blocking the mRNA entry tunnel on the ribosome; this interferes with the binding of cellular mRNAs to the ribosome. Viral mRNAs, on the other hand, overcome this blockade. We show that NSP1 enhances expression of mRNAs containing the SARS-CoV-2 leader. The first stem-loop (SL1) in viral leader is both necessary and sufficient for this enhancement mechanism. Our analysis pinpoints specific residues within SL1 (three cytosine residues at the positions 15, 19 and 20) and another within NSP1 (R124) which are required for viral evasion, and thus might present promising drug targets. Additionally, we carried out analysis of a functional interactome of NSP1 using BioID and identified components of anti-viral defense pathways. Our analysis therefore suggests a mechanism by which NSP1 inhibits the expression of host genes while enhancing that of viral RNA. This analysis helps reconcile conflicting reports in the literature regarding the mechanisms by which the virus avoids NSP1 silencing.
    Keywords covid19
    Language English
    Publishing date 2021-09-13
    Publisher Cold Spring Harbor Laboratory
    Document type Article ; Online
    DOI 10.1101/2021.09.13.460054
    Database COVID19

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