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  1. Article ; Online: Special Issue "Synthetic Biology for Biosensing in Health and Environmental Applications".

    Wang, Baojun / Tan, Cheemeng

    Biosensors

    2023  Volume 13, Issue 10

    Abstract: Biosensors are analytical devices that utilize biological sensing elements, such as enzymes, antibodies, nucleic acids, or cells, to detect a given analyte [ ... ]. ...

    Abstract Biosensors are analytical devices that utilize biological sensing elements, such as enzymes, antibodies, nucleic acids, or cells, to detect a given analyte [...].
    MeSH term(s) Synthetic Biology ; Biosensing Techniques ; Nucleic Acids ; Antibodies
    Chemical Substances Nucleic Acids ; Antibodies
    Language English
    Publishing date 2023-10-19
    Publishing country Switzerland
    Document type Editorial
    ZDB-ID 2662125-3
    ISSN 2079-6374 ; 2079-6374
    ISSN (online) 2079-6374
    ISSN 2079-6374
    DOI 10.3390/bios13100937
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  2. Article ; Online: Aroma-triggered pain relief.

    Lewis, Daniel D / Tan, Cheemeng

    Nature biomedical engineering

    2019  Volume 2, Issue 2, Page(s) 58–59

    MeSH term(s) Aromatherapy ; Chronic Pain ; Humans ; Mentha spicata ; Odorants ; Pain Management
    Language English
    Publishing date 2019-04-23
    Publishing country England
    Document type News ; Comment
    ISSN 2157-846X
    ISSN (online) 2157-846X
    DOI 10.1038/s41551-018-0197-y
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  3. Article ; Online: Orthogonal tuning of gene expression noise using CRISPR-Cas.

    Wu, Fan / Shim, Jiyoung / Gong, Ting / Tan, Cheemeng

    Nucleic acids research

    2020  Volume 48, Issue 13, Page(s) 7606

    Language English
    Publishing date 2020-05-06
    Publishing country England
    Document type Journal Article ; Published Erratum
    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/gkaa537
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1067: Show issues Location:
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  4. Article: Frequency dependent growth of bacteria in living materials.

    Lewis, Daniel D / Gong, Ting / Xu, Yuanwei / Tan, Cheemeng

    Frontiers in bioengineering and biotechnology

    2022  Volume 10, Page(s) 948483

    Abstract: The fusion of living bacteria and man-made materials represents a new frontier in medical and biosynthetic technology. However, the principles of bacterial signal processing inside synthetic materials with three-dimensional and fluctuating environments ... ...

    Abstract The fusion of living bacteria and man-made materials represents a new frontier in medical and biosynthetic technology. However, the principles of bacterial signal processing inside synthetic materials with three-dimensional and fluctuating environments remain elusive. Here, we study bacterial growth in a three-dimensional hydrogel. We find that bacteria expressing an antibiotic resistance module can take advantage of ambient kinetic disturbances to improve growth while encapsulated. We show that these changes in bacterial growth are specific to disturbance frequency and hydrogel density. This remarkable specificity demonstrates that periodic disturbance frequency is a new input that engineers may leverage to control bacterial growth in synthetic materials. This research provides a systematic framework for understanding and controlling bacterial information processing in three-dimensional living materials.
    Language English
    Publishing date 2022-09-08
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2719493-0
    ISSN 2296-4185
    ISSN 2296-4185
    DOI 10.3389/fbioe.2022.948483
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  5. Article ; Online: Frequency dependent growth of bacteria in living materials

    Daniel D. Lewis / Ting Gong / Yuanwei Xu / Cheemeng Tan

    Frontiers in Bioengineering and Biotechnology, Vol

    2022  Volume 10

    Abstract: The fusion of living bacteria and man-made materials represents a new frontier in medical and biosynthetic technology. However, the principles of bacterial signal processing inside synthetic materials with three-dimensional and fluctuating environments ... ...

    Abstract The fusion of living bacteria and man-made materials represents a new frontier in medical and biosynthetic technology. However, the principles of bacterial signal processing inside synthetic materials with three-dimensional and fluctuating environments remain elusive. Here, we study bacterial growth in a three-dimensional hydrogel. We find that bacteria expressing an antibiotic resistance module can take advantage of ambient kinetic disturbances to improve growth while encapsulated. We show that these changes in bacterial growth are specific to disturbance frequency and hydrogel density. This remarkable specificity demonstrates that periodic disturbance frequency is a new input that engineers may leverage to control bacterial growth in synthetic materials. This research provides a systematic framework for understanding and controlling bacterial information processing in three-dimensional living materials.
    Keywords bacteria ; synthetic biology ; nonlinear dynamics ; growth ; materials ; engineered living materials ; Biotechnology ; TP248.13-248.65
    Subject code 612
    Language English
    Publishing date 2022-09-01T00:00:00Z
    Publisher Frontiers Media S.A.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Dead bacterial absorption of antimicrobial peptides underlies collective tolerance.

    Wu, Fan / Tan, Cheemeng

    Journal of the Royal Society, Interface

    2019  Volume 16, Issue 151, Page(s) 20180701

    Abstract: The collective tolerance towards antimicrobial peptides (APs) is thought to occur primarily through mechanisms associated with live bacterial cells. In contrast to the focus on live cells, we discover that the LL37 antimicrobial peptide kills a ... ...

    Abstract The collective tolerance towards antimicrobial peptides (APs) is thought to occur primarily through mechanisms associated with live bacterial cells. In contrast to the focus on live cells, we discover that the LL37 antimicrobial peptide kills a subpopulation of Escherichia coli, forming dead cells that absorb the remaining LL37 from the environment. Combining mathematical modelling with population and single-cell experiments, we show that bacteria absorb LL37 at a timing that coincides with the permeabilization of their cytoplasmic membranes. Furthermore, we show that one bacterial strain can absorb LL37 and protect another strain from killing by LL37. Finally, we demonstrate that the absorption of LL37 by dead bacteria can be reduced using a peptide adjuvant. In contrast to the known collective tolerance mechanisms, we show that the absorption of APs by dead bacteria is a dynamic process that leads to emergent population behaviour.
    MeSH term(s) Antimicrobial Cationic Peptides/pharmacokinetics ; Antimicrobial Cationic Peptides/pharmacology ; Escherichia coli/growth & development ; Humans ; Microbial Consortia/drug effects ; Models, Biological
    Chemical Substances Antimicrobial Cationic Peptides ; ropocamptide (3DD771JO2H)
    Language English
    Publishing date 2019-04-05
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2156283-0
    ISSN 1742-5662 ; 1742-5689
    ISSN (online) 1742-5662
    ISSN 1742-5689
    DOI 10.1098/rsif.2018.0701
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: High-Throughput Experimentation Using Cell-Free Protein Synthesis Systems.

    Meyer, Conary / Zhou, Chuqing / Fang, Zecong / Longo, Marjorie L / Pan, Tingrui / Tan, Cheemeng

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

    2022  Volume 2433, Page(s) 121–134

    Abstract: Cell-free protein synthesis can enable the combinatorial screening of many different components and concentrations. However, manual pipetting methods are unfit to handle many cell-free reactions. Here, we describe a microfluidic method that can generate ... ...

    Abstract Cell-free protein synthesis can enable the combinatorial screening of many different components and concentrations. However, manual pipetting methods are unfit to handle many cell-free reactions. Here, we describe a microfluidic method that can generate hundreds of unique submicroliter scale reactions. The method is coupled with a high yield cell-free system that can be applied for broad protein screening assays.
    MeSH term(s) Biological Assay ; Cell-Free System ; High-Throughput Screening Assays/methods ; Microfluidic Analytical Techniques ; Microfluidics/methods
    Language English
    Publishing date 2022-01-08
    Publishing country United States
    Document type Journal Article ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-0716-1998-8_7
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  8. Article ; Online: Synthetic control of living cells by intracellular polymerization.

    Baghdasaryan, Ofelya / Khan, Shahid / Lin, Jung-Chen / Lee-Kin, Jared / Hsu, Chung-Yao / Hu, Che-Ming Jack / Tan, Cheemeng

    Trends in biotechnology

    2023  Volume 42, Issue 2, Page(s) 241–252

    Abstract: An emerging cellular engineering method creates synthetic polymer matrices inside cells. By contrast with classical genetic, enzymatic, or radioactive techniques, this materials-based approach introduces non-natural polymers inside cells, thus modifying ... ...

    Abstract An emerging cellular engineering method creates synthetic polymer matrices inside cells. By contrast with classical genetic, enzymatic, or radioactive techniques, this materials-based approach introduces non-natural polymers inside cells, thus modifying cellular states and functionalities. Here, we cover various materials and chemistries that have been exploited to create intracellular polymer matrices. In addition, we discuss emergent cellular properties due to the intracellular polymerization, including nonreplicating but active metabolism, maintenance of membrane integrity, and resistance to environmental stressors. We also discuss past work and future opportunities for developing and applying synthetic cells that contain intracellular polymers. The materials-based approach will usher in new applications of synthetic cells for broad biotechnological applications.
    MeSH term(s) Polymerization ; Polymers ; Biotechnology ; Cell Engineering ; Biocompatible Materials
    Chemical Substances Polymers ; Biocompatible Materials
    Language English
    Publishing date 2023-09-23
    Publishing country England
    Document type Journal Article ; Review
    ZDB-ID 47474-5
    ISSN 1879-3096 ; 0167-7799
    ISSN (online) 1879-3096
    ISSN 0167-7799
    DOI 10.1016/j.tibtech.2023.08.006
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2750: Show issues Location:
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  9. Article ; Online: Orthogonal tuning of gene expression noise using CRISPR-Cas.

    Wu, Fan / Shim, Jiyoung / Gong, Ting / Tan, Cheemeng

    Nucleic acids research

    2020  Volume 48, Issue 13, Page(s) e76

    Abstract: The control of gene expression noise is important for improving drug treatment and the performance of synthetic biological systems. Previous work has tuned gene expression noise by changing the rate of transcription initiation, mRNA degradation, and mRNA ...

    Abstract The control of gene expression noise is important for improving drug treatment and the performance of synthetic biological systems. Previous work has tuned gene expression noise by changing the rate of transcription initiation, mRNA degradation, and mRNA translation. However, these methods are invasive: they require changes to the target genetic components. Here, we create an orthogonal system based on CRISPR-dCas9 to tune gene expression noise. Specifically, we modulate the gene expression noise of a reporter gene in Escherichia coli by incorporating CRISPR activation and repression (CRISPRar) simultaneously in a single cell. The CRISPRar uses a single dCas9 that recognizes two different single guide RNAs (sgRNA). We build a library of sgRNA variants with different expression activation and repression strengths. We find that expression noise and mean of a reporter gene can be tuned independently by CRISPRar. Our results suggest that the expression noise is tuned by the competition between two sgRNAs that modulate the binding of RNA polymerase to promoters. The CRISPRar may change how we tune expression noise at the genomic level. Our work has broad impacts on the study of gene functions, phenotypical heterogeneity, and genetic circuit control.
    MeSH term(s) CRISPR-Cas Systems/genetics ; Cloning, Molecular/methods ; Escherichia coli/genetics ; Gene Expression/genetics ; Gene Expression Regulation, Bacterial ; Genes, Reporter/genetics ; RNA, Guide, CRISPR-Cas Systems/genetics
    Chemical Substances RNA, Guide, CRISPR-Cas Systems
    Language English
    Publishing date 2020-05-28
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural
    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/gkaa451
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    In stock of ZB MED Cologne/Königswinter

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  10. Article ; Online: High-throughput screening of biomolecules using cell-free gene expression systems.

    Contreras-Llano, Luis E / Tan, Cheemeng

    Synthetic biology (Oxford, England)

    2018  Volume 3, Issue 1, Page(s) ysy012

    Abstract: The incorporation of cell-free transcription and translation systems into high-throughput screening applications enables ... ...

    Abstract The incorporation of cell-free transcription and translation systems into high-throughput screening applications enables the
    Language English
    Publishing date 2018-07-07
    Publishing country England
    Document type Journal Article ; Review
    ISSN 2397-7000
    ISSN (online) 2397-7000
    DOI 10.1093/synbio/ysy012
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