LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 10 of total 13

Search options

  1. Article: Aromatic natural products synthesis from aromatic lignin monomers using

    Biggs, Bradley W / Tyo, Keith E J

    bioRxiv : the preprint server for biology

    2023  

    Abstract: Achieving sustainable chemical synthesis and a circular economy will require process innovation to minimize or recover existing waste streams. Valorization of lignin biomass has the ability to advance this goal. While lignin has proved a recalcitrant ... ...

    Abstract Achieving sustainable chemical synthesis and a circular economy will require process innovation to minimize or recover existing waste streams. Valorization of lignin biomass has the ability to advance this goal. While lignin has proved a recalcitrant feedstock for upgrading, biological approaches can leverage native microbial metabolism to simplify complex and heterogeneous feedstocks to tractable starting points for biochemical upgrading. Recently, we demonstrated that one microbe with lignin relevant metabolism,
    Language English
    Publishing date 2023-08-24
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.08.24.554694
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    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.

  2. Article ; Online: Engineering Ca

    Biggs, Bradley W / de Paz, Alexandra M / Bhan, Namita J / Cybulski, Thaddeus R / Church, George M / Tyo, Keith E J

    ACS synthetic biology

    2023  Volume 12, Issue 11, Page(s) 3301–3311

    Abstract: Advancements in synthetic biology have provided new opportunities in biosensing, with applications ranging from genetic programming to diagnostics. Next generation biosensors aim to expand the number of accessible environments for measurements, increase ... ...

    Abstract Advancements in synthetic biology have provided new opportunities in biosensing, with applications ranging from genetic programming to diagnostics. Next generation biosensors aim to expand the number of accessible environments for measurements, increase the number of measurable phenomena, and improve the quality of the measurement. To this end, an emerging area in the field has been the integration of DNA as an information storage medium within biosensor outputs, leveraging nucleic acids to record the biosensor state over time. However, slow signal transduction steps, due to the time scales of transcription and translation, bottleneck many sensing-DNA recording approaches. DNA polymerases (DNAPs) have been proposed as a solution to the signal transduction problem by operating as both the sensor and responder, but there is presently a lack of DNAPs with functional sensitivity to many desirable target ligands. Here, we engineer components of the Pol δ replicative polymerase complex of
    MeSH term(s) DNA-Directed DNA Polymerase/metabolism ; DNA Replication ; DNA/genetics ; DNA/metabolism ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism ; Protein Domains ; Biosensing Techniques
    Chemical Substances DNA-Directed DNA Polymerase (EC 2.7.7.7) ; DNA (9007-49-2)
    Language English
    Publishing date 2023-10-19
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2161-5063
    ISSN (online) 2161-5063
    DOI 10.1021/acssynbio.3c00302
    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.

    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.

  3. Article: Engineering Acinetobacter baylyi ADP1 for mevalonate production from lignin monomers

    Arvay, Erika / Biggs, Bradley W / Guerrero, Laura / Jiang, Virginia / Tyo, Keith

    Metabolic Engineering Communications. 2021 May 05,

    2021  

    Abstract: Utilization of lignin, an abundant renewable resource, is limited by its heterogenous composition and complex structure. Biological valorization of lignin provides advantages over traditional chemical processing as it occurs at ambient temperature and ... ...

    Abstract Utilization of lignin, an abundant renewable resource, is limited by its heterogenous composition and complex structure. Biological valorization of lignin provides advantages over traditional chemical processing as it occurs at ambient temperature and pressure and does not use harsh chemicals. Furthermore, the ability to biologically funnel heterogenous substrates to products eliminates the need for costly downstream processing and separation of feedstocks. However, lack of relevant metabolic networks and low tolerance to degradation products of lignin limits the application of traditional engineered model organisms. To circumvent this obstacle, we employed Acinetobacter baylyi ADP1, which natively catabolizes lignin monomers through the β-ketoadipate pathway, to produce mevalonate from lignin-derived substrates. We enabled expression of the mevalonate pathway in ADP1 and validated activity in the presence of multiple lignin monomers. Furthermore, by knocking out wax ester synthesis and utilizing fed-batch cultivation, we improved mevalonate titers 6.46-fold to 806 mg/L (4.5 mM). This work establishes a foundation and provides groundwork for future efforts to engineer improved production of mevalonate and derivatives from lignin-derived aromatics using ADP1.
    Keywords Acinetobacter ; ambient temperature ; feedstocks ; lignin ; renewable resources
    Language English
    Dates of publication 2021-0505
    Publishing place Elsevier B.V.
    Document type Article
    Note NAL-AP-2-clean ; Pre-press version
    ZDB-ID 2821894-2
    ISSN 2214-0301
    ISSN 2214-0301
    DOI 10.1016/j.mec.2021.e00173
    Database NAL-Catalogue (AGRICOLA)

    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.

  4. Article ; Online: Engineering

    Arvay, Erika / Biggs, Bradley W / Guerrero, Laura / Jiang, Virginia / Tyo, Keith

    Metabolic engineering communications

    2021  Volume 13, Page(s) e00173

    Abstract: Utilization of lignin, an abundant renewable resource, is limited by its heterogenous composition and complex structure. Biological valorization of lignin provides advantages over traditional chemical processing as it occurs at ambient temperature and ... ...

    Abstract Utilization of lignin, an abundant renewable resource, is limited by its heterogenous composition and complex structure. Biological valorization of lignin provides advantages over traditional chemical processing as it occurs at ambient temperature and pressure and does not use harsh chemicals. Furthermore, the ability to biologically funnel heterogenous substrates to products eliminates the need for costly downstream processing and separation of feedstocks. However, lack of relevant metabolic networks and low tolerance to degradation products of lignin limits the application of traditional engineered model organisms. To circumvent this obstacle, we employed
    Language English
    Publishing date 2021-05-24
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 2821894-2
    ISSN 2214-0301 ; 2214-0301
    ISSN (online) 2214-0301
    ISSN 2214-0301
    DOI 10.1016/j.mec.2021.e00173
    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.

  5. Article ; Online: Enabling commercial success of industrial biotechnology.

    Biggs, Bradley W / Alper, Hal S / Pfleger, Brian F / Tyo, Keith E J / Santos, Christine N S / Ajikumar, Parayil Kumaran / Stephanopoulos, Gregory

    Science (New York, N.Y.)

    2021  Volume 374, Issue 6575, Page(s) 1563–1565

    Abstract: Commercial-scale research translation has been muted. ...

    Abstract Commercial-scale research translation has been muted.
    MeSH term(s) Biocatalysis ; Bioengineering/economics ; Biotechnology/economics ; Biotechnology/education ; Biotechnology/instrumentation ; Commerce ; Industry/economics ; Industry/instrumentation ; Metabolic Engineering/economics ; Policy ; Translational Research, Biomedical
    Language English
    Publishing date 2021-12-23
    Publishing country United States
    Document type Journal Article
    ZDB-ID 128410-1
    ISSN 1095-9203 ; 0036-8075
    ISSN (online) 1095-9203
    ISSN 0036-8075
    DOI 10.1126/science.abj5040
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 27: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)
    Zs.MG 77: 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.

  6. Article ; Online: Chemically Inducible Chromosomal Evolution (CIChE) for Multicopy Metabolic Pathway Engineering.

    Love, Aaron M / Biggs, Bradley W / Tyo, Keith E J / Ajikumar, Parayil Kumaran

    Methods in molecular biology (Clifton, N.J.)

    2019  Volume 1927, Page(s) 37–45

    Abstract: Chemically inducible chromosomal evolution (CIChE) was developed for stable multicopy chromosomal integration of heterologous genes. In this technique, flanking an antibiotic selection marker and a gene of interest with identical regions of homology ... ...

    Abstract Chemically inducible chromosomal evolution (CIChE) was developed for stable multicopy chromosomal integration of heterologous genes. In this technique, flanking an antibiotic selection marker and a gene of interest with identical regions of homology permits gene duplication via recA mediated homologous recombination. A strong selective pressure for gene duplication can be applied by increasing antibiotic concentration, and in a week's time one can create a set of strains with a wide range of cassette copy numbers (upward of 20×), which can be made stable by deletion of recA. Herein, we describe a generalized workflow for this methodology.
    MeSH term(s) Chromosomes ; Chromosomes, Bacterial ; Escherichia coli/genetics ; Evolution, Molecular ; Gene Deletion ; Gene Duplication ; Metabolic Engineering ; Metabolic Networks and Pathways ; Plasmids/genetics ; Rec A Recombinases/genetics ; Rec A Recombinases/metabolism ; Reproducibility of Results ; Transformation, Genetic
    Chemical Substances Rec A Recombinases (EC 2.7.7.-)
    Language English
    Publishing date 2019-02-20
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-4939-9142-6_4
    Database MEDical Literature Analysis and Retrieval System OnLINE

    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.

    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.

  7. Article ; Online: Dynamic Control of Gene Expression with Riboregulated Switchable Feedback Promoters.

    Glasscock, Cameron J / Biggs, Bradley W / Lazar, John T / Arnold, Jack H / Burdette, Lisa A / Valdes, Aliki / Kang, Min-Kyoung / Tullman-Ercek, Danielle / Tyo, Keith E J / Lucks, Julius B

    ACS synthetic biology

    2021  Volume 10, Issue 5, Page(s) 1199–1213

    Abstract: One major challenge in synthetic biology is the deleterious impacts of cellular stress caused by expression of heterologous pathways, sensors, and circuits. Feedback control and dynamic regulation are broadly proposed strategies to mitigate this cellular ...

    Abstract One major challenge in synthetic biology is the deleterious impacts of cellular stress caused by expression of heterologous pathways, sensors, and circuits. Feedback control and dynamic regulation are broadly proposed strategies to mitigate this cellular stress by optimizing gene expression levels temporally and in response to biological cues. While a variety of approaches for feedback implementation exist, they are often complex and cannot be easily manipulated. Here, we report a strategy that uses RNA transcriptional regulators to integrate additional layers of control over the output of natural and engineered feedback responsive circuits. Called riboregulated switchable feedback promoters (rSFPs), these gene expression cassettes can be modularly activated using multiple mechanisms, from manual induction to autonomous quorum sensing, allowing control over the timing, magnitude, and autonomy of expression. We develop rSFPs in
    MeSH term(s) Escherichia coli/genetics ; Escherichia coli/metabolism ; Feedback, Physiological ; Gene Expression ; Gene Expression Regulation, Bacterial ; Genes, Bacterial ; Metabolic Engineering/methods ; Metabolic Networks and Pathways/genetics ; Operon ; Promoter Regions, Genetic/genetics ; Quorum Sensing/genetics ; Riboswitch/genetics ; Synthetic Biology/methods
    Chemical Substances Riboswitch
    Language English
    Publishing date 2021-04-09
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
    ISSN 2161-5063
    ISSN (online) 2161-5063
    DOI 10.1021/acssynbio.1c00015
    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.

    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.

  8. Article ; Online: Selective patterning of Si-based biosensor surfaces using isotropic silicon etchants.

    Biggs, Bradley W / Hunt, Heather K / Armani, Andrea M

    Journal of colloid and interface science

    2011  Volume 369, Issue 1, Page(s) 477–481

    Abstract: Ultra-sensitive, label-free biosensors have the potential to have a tremendous impact on fields like medical diagnostics. For the majority of these Si-based integrated devices, it is necessary to functionalize the surface with a targeting ligand in order ...

    Abstract Ultra-sensitive, label-free biosensors have the potential to have a tremendous impact on fields like medical diagnostics. For the majority of these Si-based integrated devices, it is necessary to functionalize the surface with a targeting ligand in order to perform specific biodetection. To do this, silane coupling agents are commonly used to immobilize the targeting ligand. However, this method typically results in the bioconjugation of the entire device surface, which is undesirable. To compensate for this effect, researchers have developed complex blocking strategies that result in selective patterning of the sensor surface. Recently, silane coupling agents were used to attach biomolecules to the surface of silica toroidal biosensors integrated on a silicon wafer. Interestingly, only the silica biosensor surface was conjugated. Here, we hypothesize why this selective patterning occurred. Specifically, the silicon etchant (xenon difluoride), which is used in the fabrication of the biosensor, appears to reduce the efficiency of the silane coupling attachment to the underlying silicon wafer. These results will enable future researchers to more easily control the bioconjugation of their sensor surfaces, thus improving biosensor device performance.
    MeSH term(s) Biosensing Techniques/instrumentation ; Silicon/chemistry ; Silicon Dioxide/chemistry ; Surface Properties
    Chemical Substances Silicon Dioxide (7631-86-9) ; Silicon (Z4152N8IUI)
    Language English
    Publishing date 2011-12-11
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 241597-5
    ISSN 1095-7103 ; 0021-9797
    ISSN (online) 1095-7103
    ISSN 0021-9797
    DOI 10.1016/j.jcis.2011.11.082
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Bonn / Germany

    Z 71/707: 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.

    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.

  9. Article ; Online: Development of a genetic toolset for the highly engineerable and metabolically versatile Acinetobacter baylyi ADP1.

    Biggs, Bradley W / Bedore, Stacy R / Arvay, Erika / Huang, Shu / Subramanian, Harshith / McIntyre, Emily A / Duscent-Maitland, Chantel V / Neidle, Ellen L / Tyo, Keith E J

    Nucleic acids research

    2020  Volume 48, Issue 9, Page(s) 5169–5182

    Abstract: One primary objective of synthetic biology is to improve the sustainability of chemical manufacturing. Naturally occurring biological systems can utilize a variety of carbon sources, including waste streams that pose challenges to traditional chemical ... ...

    Abstract One primary objective of synthetic biology is to improve the sustainability of chemical manufacturing. Naturally occurring biological systems can utilize a variety of carbon sources, including waste streams that pose challenges to traditional chemical processing, such as lignin biomass, providing opportunity for remediation and valorization of these materials. Success, however, depends on identifying micro-organisms that are both metabolically versatile and engineerable. Identifying organisms with this combination of traits has been a historic hindrance. Here, we leverage the facile genetics of the metabolically versatile bacterium Acinetobacter baylyi ADP1 to create easy and rapid molecular cloning workflows, including a Cas9-based single-step marker-less and scar-less genomic integration method. In addition, we create a promoter library, ribosomal binding site (RBS) variants and test an unprecedented number of rationally integrated bacterial chromosomal protein expression sites and variants. At last, we demonstrate the utility of these tools by examining ADP1's catabolic repression regulation, creating a strain with improved potential for lignin bioprocessing. Taken together, this work highlights ADP1 as an ideal host for a variety of sustainability and synthetic biology applications.
    MeSH term(s) Acinetobacter/genetics ; Acinetobacter/metabolism ; Cloning, Molecular/methods ; Genome, Bacterial ; Genomics ; Lignin/metabolism ; Metabolic Engineering ; Promoter Regions, Genetic ; Ribosomes/metabolism
    Chemical Substances Lignin (9005-53-2)
    Language English
    Publishing date 2020-05-04
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    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/gkaa167
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 1067: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

    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.

  10. Article ; Online: Publisher Correction: Engineered bidirectional promoters enable rapid multi-gene co-expression optimization.

    Vogl, Thomas / Kickenweiz, Thomas / Pitzer, Julia / Sturmberger, Lukas / Weninger, Astrid / Biggs, Bradley W / Köhler, Eva-Maria / Baumschlager, Armin / Fischer, Jasmin Elgin / Hyden, Patrick / Wagner, Marlies / Baumann, Martina / Borth, Nicole / Geier, Martina / Ajikumar, Parayil Kumaran / Glieder, Anton

    Nature communications

    2021  Volume 12, Issue 1, Page(s) 1287

    Language English
    Publishing date 2021-02-18
    Publishing country England
    Document type Published Erratum
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-021-21369-z
    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.

To top