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  1. Article: Engineered bacteria to report gut function: technologies and implementation

    Tanna, Tanmay / Ramachanderan, Raghavendra / Platt, Randall J

    Current opinion in microbiology. 2021 Feb., v. 59

    2021  

    Abstract: Advances in synthetic biology and microbiology have enabled the creation of engineered bacteria which can sense and report on intracellular and extracellular signals. When deployed in vivo these whole-cell bacterial biosensors can act as sentinels to ... ...

    Abstract Advances in synthetic biology and microbiology have enabled the creation of engineered bacteria which can sense and report on intracellular and extracellular signals. When deployed in vivo these whole-cell bacterial biosensors can act as sentinels to monitor biomolecules of interest in human health and disease settings. This is particularly interesting in the context of the gut microbiota, which interacts extensively with the human host throughout time and transit of the gut and can be accessed from feces without requiring invasive collection. Leveraging rational engineering approaches for genetic circuits as well as an expanding catalog of disease-associated biomarkers, bacterial biosensors can act as non-invasive and easy-to-monitor reporters of the gut. Here, we summarize recent engineering approaches applied in vivo in animal models and then highlight promising technologies for designing the next generation of bacterial biosensors.
    Keywords animal models ; biomarkers ; biosensors ; digestive system ; feces ; genetically engineered microorganisms ; humans ; intestinal microorganisms ; synthetic biology
    Language English
    Dates of publication 2021-02
    Size p. 24-33.
    Publishing place Elsevier Ltd
    Document type Article
    ZDB-ID 1418474-6
    ISSN 1879-0364 ; 1369-5274
    ISSN (online) 1879-0364
    ISSN 1369-5274
    DOI 10.1016/j.mib.2020.07.014
    Database NAL-Catalogue (AGRICOLA)

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 5514: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)
    Zs.MG 51: Show issues

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  2. Article ; Online: Engineered bacteria to report gut function: technologies and implementation.

    Tanna, Tanmay / Ramachanderan, Raghavendra / Platt, Randall J

    Current opinion in microbiology

    2020  Volume 59, Page(s) 24–33

    Abstract: Advances in synthetic biology and microbiology have enabled the creation of engineered bacteria which can sense and report on intracellular and extracellular signals. When deployed in vivo these whole-cell bacterial biosensors can act as sentinels to ... ...

    Abstract Advances in synthetic biology and microbiology have enabled the creation of engineered bacteria which can sense and report on intracellular and extracellular signals. When deployed in vivo these whole-cell bacterial biosensors can act as sentinels to monitor biomolecules of interest in human health and disease settings. This is particularly interesting in the context of the gut microbiota, which interacts extensively with the human host throughout time and transit of the gut and can be accessed from feces without requiring invasive collection. Leveraging rational engineering approaches for genetic circuits as well as an expanding catalog of disease-associated biomarkers, bacterial biosensors can act as non-invasive and easy-to-monitor reporters of the gut. Here, we summarize recent engineering approaches applied in vivo in animal models and then highlight promising technologies for designing the next generation of bacterial biosensors.
    MeSH term(s) Animals ; Bacteria/genetics ; Bacteria/metabolism ; Biosensing Techniques/methods ; Feces/microbiology ; Gastrointestinal Microbiome/genetics ; Gastrointestinal Tract/metabolism ; Gastrointestinal Tract/microbiology ; Humans ; Organisms, Genetically Modified
    Language English
    Publishing date 2020-08-19
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 1418474-6
    ISSN 1879-0364 ; 1369-5274
    ISSN (online) 1879-0364
    ISSN 1369-5274
    DOI 10.1016/j.mib.2020.07.014
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 5514: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)
    Zs.MG 51: Show issues

    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.

  3. Article: LINE retrotransposons characterize mammalian tissue-specific and evolutionarily dynamic regulatory regions

    Roller, Maša / Stamper, Ericca / Villar, Diego / Izuogu, Osagie / Martin, Fergal / Redmond, Aisling M / Ramachanderan, Raghavendra / Harewood, Louise / Odom, Duncan T / Flicek, Paul

    Genome biology. 2021 Dec., v. 22, no. 1

    2021  

    Abstract: BACKGROUND: To investigate the mechanisms driving regulatory evolution across tissues, we experimentally mapped promoters, enhancers, and gene expression in the liver, brain, muscle, and testis from ten diverse mammals. RESULTS: The regulatory landscape ... ...

    Abstract BACKGROUND: To investigate the mechanisms driving regulatory evolution across tissues, we experimentally mapped promoters, enhancers, and gene expression in the liver, brain, muscle, and testis from ten diverse mammals. RESULTS: The regulatory landscape around genes included both tissue-shared and tissue-specific regulatory regions, where tissue-specific promoters and enhancers evolved most rapidly. Genomic regions switching between promoters and enhancers were more common across species, and less common across tissues within a single species. Long Interspersed Nuclear Elements (LINEs) played recurrent evolutionary roles: LINE L1s were associated with tissue-specific regulatory regions, whereas more ancient LINE L2s were associated with tissue-shared regulatory regions and with those switching between promoter and enhancer signatures across species. CONCLUSIONS: Our analyses of the tissue-specificity and evolutionary stability among promoters and enhancers reveal how specific LINE families have helped shape the dynamic mammalian regulome.
    Keywords brain ; evolution ; gene expression ; genomics ; liver ; mammals ; muscles ; retrotransposons ; testes
    Language English
    Dates of publication 2021-12
    Size p. 62.
    Publishing place BioMed Central
    Document type Article
    ZDB-ID 2040529-7
    ISSN 1474-760X
    ISSN 1474-760X
    DOI 10.1186/s13059-021-02260-y
    Database NAL-Catalogue (AGRICOLA)

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  4. Article ; Online: LINE retrotransposons characterize mammalian tissue-specific and evolutionarily dynamic regulatory regions.

    Roller, Maša / Stamper, Ericca / Villar, Diego / Izuogu, Osagie / Martin, Fergal / Redmond, Aisling M / Ramachanderan, Raghavendra / Harewood, Louise / Odom, Duncan T / Flicek, Paul

    Genome biology

    2021  Volume 22, Issue 1, Page(s) 62

    Abstract: Background: To investigate the mechanisms driving regulatory evolution across tissues, we experimentally mapped promoters, enhancers, and gene expression in the liver, brain, muscle, and testis from ten diverse mammals.: Results: The regulatory ... ...

    Abstract Background: To investigate the mechanisms driving regulatory evolution across tissues, we experimentally mapped promoters, enhancers, and gene expression in the liver, brain, muscle, and testis from ten diverse mammals.
    Results: The regulatory landscape around genes included both tissue-shared and tissue-specific regulatory regions, where tissue-specific promoters and enhancers evolved most rapidly. Genomic regions switching between promoters and enhancers were more common across species, and less common across tissues within a single species. Long Interspersed Nuclear Elements (LINEs) played recurrent evolutionary roles: LINE L1s were associated with tissue-specific regulatory regions, whereas more ancient LINE L2s were associated with tissue-shared regulatory regions and with those switching between promoter and enhancer signatures across species.
    Conclusions: Our analyses of the tissue-specificity and evolutionary stability among promoters and enhancers reveal how specific LINE families have helped shape the dynamic mammalian regulome.
    MeSH term(s) Animals ; Chromosome Mapping ; Conserved Sequence ; Enhancer Elements, Genetic ; Evolution, Molecular ; Gene Expression Regulation ; Humans ; Long Interspersed Nucleotide Elements ; Mammals/genetics ; Organ Specificity/genetics ; Promoter Regions, Genetic ; Regulatory Sequences, Nucleic Acid ; Retroelements
    Chemical Substances Retroelements
    Language English
    Publishing date 2021-02-18
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2040529-7
    ISSN 1474-760X ; 1474-760X
    ISSN (online) 1474-760X
    ISSN 1474-760X
    DOI 10.1186/s13059-021-02260-y
    Database MEDical Literature Analysis and Retrieval System 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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