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  1. Article ; Online: Alu RNA Structural Features Modulate Immune Cell Activation and A-to-I Editing of Alu RNAs Is Diminished in Human Inflammatory Bowel Disease.

    Aune, Thomas M / Tossberg, John T / Heinrich, Rachel M / Porter, Krislyn P / Crooke, Philip S

    Frontiers in immunology

    2022  Volume 13, Page(s) 818023

    Abstract: Alu retrotransposons belong to the class of short interspersed nuclear elements (SINEs). Alu RNA is abundant in cells and its repetitive structure forms double-stranded RNAs (dsRNA) that activate dsRNA sensors and trigger innate immune responses with ... ...

    Abstract Alu retrotransposons belong to the class of short interspersed nuclear elements (SINEs). Alu RNA is abundant in cells and its repetitive structure forms double-stranded RNAs (dsRNA) that activate dsRNA sensors and trigger innate immune responses with significant pathological consequences. Mechanisms to prevent innate immune activation include deamination of adenosines to inosines in dsRNAs, referred to as A-to-I editing, degradation of Alu RNAs by endoribonucleases, and sequestration of Alu RNAs by RNA binding proteins. We have previously demonstrated that widespread loss of Alu RNA A-to-I editing is associated with diverse human diseases including viral (COVID-19, influenza) and autoimmune diseases (multiple sclerosis). Here we demonstrate loss of A-to-I editing in leukocytes is also associated with inflammatory bowel diseases. Our structure-function analysis demonstrates that ability to activate innate immune responses resides in the left arm of Alu RNA, requires a 5'-PPP, RIG-I is the major Alu dsRNA sensor, and A-to-I editing disrupts both structure and function. Further, edited Alu RNAs inhibit activity of unedited Alu RNAs. Altering Alu RNA nucleotide sequence increases biological activity. Two classes of Alu RNAs exist, one class stimulates both IRF and NF-kB transcriptional activity and a second class only stimulates IRF transcriptional activity. Thus, Alu RNAs play important roles in human disease but may also have therapeutic potential.
    MeSH term(s) Adenosine ; Alu Elements/genetics ; Alu Elements/immunology ; COVID-19 ; Humans ; Inflammatory Bowel Diseases/genetics ; Inflammatory Bowel Diseases/immunology ; Inosine ; RNA, Double-Stranded/genetics ; RNA, Double-Stranded/immunology ; SARS-CoV-2
    Chemical Substances RNA, Double-Stranded ; Inosine (5A614L51CT) ; Adenosine (K72T3FS567)
    Language English
    Publishing date 2022-01-20
    Publishing country Switzerland
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2606827-8
    ISSN 1664-3224 ; 1664-3224
    ISSN (online) 1664-3224
    ISSN 1664-3224
    DOI 10.3389/fimmu.2022.818023
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Reduced RNA adenosine-to-inosine editing in hippocampus vasculature associated with Alzheimer's disease.

    Crooke, Philip S / Tossberg, John T / Heinrich, Rachel M / Porter, Krislyn P / Aune, Thomas M

    Brain communications

    2022  Volume 4, Issue 5, Page(s) fcac238

    Abstract: Alzheimer's disease is the most common form of dementia and recent studies identify a type 1 interferon response in Alzheimer's disease possibly driving neuro-inflammation and other Alzheimer's disease pathologies. Loss of adenosine-to-inosine editing of ...

    Abstract Alzheimer's disease is the most common form of dementia and recent studies identify a type 1 interferon response in Alzheimer's disease possibly driving neuro-inflammation and other Alzheimer's disease pathologies. Loss of adenosine-to-inosine editing of endogenous Alu RNAs results in accumulation of Alu double-stranded RNAs, activation of double-stranded RNA sensors, and induction of interferon and nuclear factor kappa B regulated genes. Here, we investigated if changes in adenosine-to-inosine editing were associated with presence of Alzheimer's disease in total prefrontal cortex, total hippocampus, cortex vasculature and hippocampus vasculature using available RNA sequencing files. We found similar levels of Alu RNA adenosine-to-inosine editing in cortex and cortex vasculature from individuals with Alzheimer's disease or normal cognition at the time of death and brain donation. We found modest and substantial loss of adenosine-to-inosine editing in hippocampus and hippocampus vasculature, respectively, in Alzheimer's disease relative to normal cognition and increased expression of interferon and nuclear factor kappa B regulated genes in hippocampus. Unedited Alu RNAs as found in Alzheimer's disease hippocampus vasculature were potent innate immune activators while edited Alu RNAs as found in normal cognition hippocampus vasculature were weak innate immune activators. Taken together, our results support a model whereby loss of Alu RNA adenosine-to-inosine editing in hippocampus results in innate immune activation that may contribute to Alzheimer's disease pathogenesis.
    Language English
    Publishing date 2022-09-22
    Publishing country England
    Document type Journal Article
    ISSN 2632-1297
    ISSN (online) 2632-1297
    DOI 10.1093/braincomms/fcac238
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Adenosine-to-Inosine RNA Editing of Alu Double-Stranded (ds)RNAs Is Markedly Decreased in Multiple Sclerosis and Unedited Alu dsRNAs Are Potent Activators of Proinflammatory Transcriptional Responses.

    Tossberg, John T / Heinrich, Rachel M / Farley, Virginia M / Crooke, Philip S / Aune, Thomas M

    Journal of immunology (Baltimore, Md. : 1950)

    2020  Volume 205, Issue 10, Page(s) 2606–2617

    Abstract: Sensors that detect dsRNA stimulate IFN responses as a defense against viral infection. IFN responses are also well documented in a variety of human autoimmune diseases, including relapsing-remitting multiple sclerosis (MS), in which increased IFN ... ...

    Abstract Sensors that detect dsRNA stimulate IFN responses as a defense against viral infection. IFN responses are also well documented in a variety of human autoimmune diseases, including relapsing-remitting multiple sclerosis (MS), in which increased IFN responses result from increased levels of double-stranded endogenous Alu RNAs. Mechanisms underlying increases in double-stranded Alu RNAs in MS are obscure. We find widespread loss of adenosine-to-inosine editing of Alu RNAs in MS. Unedited Alu RNAs are potent activators of both IFN and NF-κB responses via the dsRNA sensors, RIG-I, and TLR3. Minor editing of highly active Alu elements abrogates the ability to activate both transcriptional responses. Thus, adenosine-to-inosine editing may also represent an important defense against autoimmune diseases such as MS.
    MeSH term(s) Adenosine/genetics ; Alu Elements/genetics ; Alu Elements/immunology ; DEAD Box Protein 58/metabolism ; Datasets as Topic ; HEK293 Cells ; Humans ; Inflammation/genetics ; Inflammation/immunology ; Inosine/genetics ; Interferons/metabolism ; Multiple Sclerosis, Relapsing-Remitting/blood ; Multiple Sclerosis, Relapsing-Remitting/genetics ; Multiple Sclerosis, Relapsing-Remitting/immunology ; NF-kappa B/metabolism ; RNA Editing/immunology ; RNA, Double-Stranded/genetics ; RNA, Double-Stranded/immunology ; RNA, Double-Stranded/metabolism ; RNA-Seq ; Receptors, Immunologic/metabolism ; Signal Transduction/genetics ; Signal Transduction/immunology ; THP-1 Cells ; Toll-Like Receptor 3/metabolism ; Transcriptional Activation/immunology ; Whole Genome Sequencing
    Chemical Substances NF-kappa B ; RNA, Double-Stranded ; Receptors, Immunologic ; TLR3 protein, human ; Toll-Like Receptor 3 ; Inosine (5A614L51CT) ; Interferons (9008-11-1) ; RIGI protein, human (EC 3.6.1.-) ; DEAD Box Protein 58 (EC 3.6.4.13) ; Adenosine (K72T3FS567)
    Language English
    Publishing date 2020-10-12
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 3056-9
    ISSN 1550-6606 ; 0022-1767 ; 1048-3233 ; 1047-7381
    ISSN (online) 1550-6606
    ISSN 0022-1767 ; 1048-3233 ; 1047-7381
    DOI 10.4049/jimmunol.2000384
    Database MEDical Literature Analysis and Retrieval System OnLINE

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