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  1. Article ; Online: Glycogen metabolism is required for optimal cyanobacterial growth in the rapid light-dark cycle of low-Earth orbit.

    Bishé, Bryan / Golden, Susan S / Golden, James W

    Life sciences in space research

    2022  Volume 36, Page(s) 18–26

    Abstract: Some designs for bioregenerative life support systems to enable human space missions incorporate cyanobacteria for removal of carbon dioxide, generation of oxygen, and treatment of wastewater, as well as providing a source of nutrition. In this study, we ...

    Abstract Some designs for bioregenerative life support systems to enable human space missions incorporate cyanobacteria for removal of carbon dioxide, generation of oxygen, and treatment of wastewater, as well as providing a source of nutrition. In this study, we examined the effects of the short light-dark (LD) cycle of low-Earth orbit on algal and cyanobacterial growth, approximating conditions on the International Space Station, which orbits Earth roughly every 90 min. We found that growth of green algae was similar in both normal 12 h light:12 h dark (12 h:12 h LD) and 45':45' LD cycles. Three diverse strains of cyanobacteria were not only capable of growth in short 45':45' LD cycles, but actually grew better than in 12 h:12 h LD cycles. We showed that 45':45' LD cycles do not affect the endogenous 24 h circadian rhythms of Synechococcus elongatus. Using a dense library of randomly barcoded transposon mutants, we identified genes whose loss is detrimental for the growth of S. elongatus under 45':45' LD cycles. These include several genes involved in glycogen metabolism and the oxidative pentose phosphate pathway. Notably, 45':45' LD cycles did not affect the fitness of strains that carry mutations in the biological circadian oscillator or the clock input and output regulatory pathways. Overall, this study shows that cultures of cyanobacteria could be grown under natural sunlight of low-Earth orbit and highlights the utility of a functional genomic study in a model organism to better understand key biological processes in conditions that are relevant to space travel.
    MeSH term(s) Humans ; Photoperiod ; Bacterial Proteins/genetics ; Circadian Rhythm/genetics ; Biological Clocks/genetics ; Glycogen/metabolism
    Chemical Substances Bacterial Proteins ; Glycogen (9005-79-2)
    Language English
    Publishing date 2022-11-04
    Publishing country Netherlands
    Document type Journal Article
    ISSN 2214-5532
    ISSN (online) 2214-5532
    DOI 10.1016/j.lssr.2022.11.001
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Systemic Obstacles to Addressing Research Misconduct in Higher Education: A Case Study.

    Golden, James / Mazzotta, Catherine M / Zittel-Barr, Kimberly

    Journal of academic ethics

    2021  Volume 21, Issue 1, Page(s) 71–82

    Abstract: Several widely publicized incidents of academic research misconduct, combined with the politicization of the role of science in public health and policy discourse (e.g., COVID, immunizations) threaten to undermine faith in the integrity of empirical ... ...

    Abstract Several widely publicized incidents of academic research misconduct, combined with the politicization of the role of science in public health and policy discourse (e.g., COVID, immunizations) threaten to undermine faith in the integrity of empirical research. Researchers often maintain that peer-review and study replication allow the field to self-police and self-correct; however, stark disparities between official reports of academic research misconduct and self-reports of academic researchers, specifically with regard to data fabrication, belie this argument. Further, systemic imperatives in academic settings often incentivize institutional responses that focus on minimizing reputational harm rather than the impact of fabricated data on the integrity of extant and future research.
    Language English
    Publishing date 2021-08-29
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 2098386-4
    ISSN 1572-8544 ; 1570-1727
    ISSN (online) 1572-8544
    ISSN 1570-1727
    DOI 10.1007/s10805-021-09438-w
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Altered Carbon Partitioning Enhances CO

    Li, Man / Long, Bin / Dai, Susie Y / Golden, James W / Wang, Xin / Yuan, Joshua S

    Biodesign research

    2022  Volume 2022, Page(s) 9897425

    Abstract: Photosynthetic terpene production represents one of the most carbon and energy-efficient routes for converting ... ...

    Abstract Photosynthetic terpene production represents one of the most carbon and energy-efficient routes for converting CO
    Language English
    Publishing date 2022-02-07
    Publishing country United States
    Document type Journal Article
    ISSN 2693-1257
    ISSN (online) 2693-1257
    DOI 10.34133/2022/9897425
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Synechococcus elongatus

    Taton, Arnaud / Gilderman, Tami S / Ernst, Dustin C / Omaga, Carla A / Cohen, Lucas A / Rey-Bedon, Camilo / Golden, James W / Golden, Susan S

    mBio

    2023  Volume 14, Issue 5, Page(s) e0184323

    Abstract: Importance: S. ... ...

    Abstract Importance: S. elongatus
    MeSH term(s) Synechococcus/genetics ; Plasmids/genetics ; Circadian Clocks ; Genetic Engineering ; Bacterial Proteins/genetics
    Chemical Substances Bacterial Proteins
    Language English
    Publishing date 2023-10-04
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mbio.01843-23
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Phenotypically complex living materials containing engineered cyanobacteria.

    Datta, Debika / Weiss, Elliot L / Wangpraseurt, Daniel / Hild, Erica / Chen, Shaochen / Golden, James W / Golden, Susan S / Pokorski, Jonathan K

    Nature communications

    2023  Volume 14, Issue 1, Page(s) 4742

    Abstract: The field of engineered living materials lies at the intersection of materials science and synthetic biology with the aim of developing materials that can sense and respond to the environment. In this study, we use 3D printing to fabricate a ... ...

    Abstract The field of engineered living materials lies at the intersection of materials science and synthetic biology with the aim of developing materials that can sense and respond to the environment. In this study, we use 3D printing to fabricate a cyanobacterial biocomposite material capable of producing multiple functional outputs in response to an external chemical stimulus and demonstrate the advantages of utilizing additive manufacturing techniques in controlling the shape of the fabricated photosynthetic material. As an initial proof-of-concept, a synthetic riboswitch is used to regulate the expression of a yellow fluorescent protein reporter in Synechococcus elongatus PCC 7942 within a hydrogel matrix. Subsequently, a strain of S. elongatus is engineered to produce an oxidative laccase enzyme; when printed within a hydrogel matrix the responsive biomaterial can decolorize a common textile dye pollutant, indigo carmine, potentially serving as a tool in environmental bioremediation. Finally, cells are engineered for inducible cell death to eliminate their presence once their activity is no longer required, which is an important function for biocontainment and minimizing environmental impact. By integrating genetically engineered stimuli-responsive cyanobacteria in volumetric 3D-printed designs, we demonstrate programmable photosynthetic biocomposite materials capable of producing functional outputs including, but not limited to, bioremediation.
    MeSH term(s) Synechococcus/genetics ; Synechococcus/metabolism ; Photosynthesis ; Synthetic Biology/methods ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Metabolic Engineering/methods ; Hydrogels/metabolism
    Chemical Substances Bacterial Proteins ; Hydrogels
    Language English
    Publishing date 2023-08-07
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, N.I.H., Extramural
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-023-40265-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Modification of RSF1010-Based Broad-Host-Range Plasmids for Improved Conjugation and Cyanobacterial Bioprospecting.

    Bishé, Bryan / Taton, Arnaud / Golden, James W

    iScience

    2019  Volume 20, Page(s) 216–228

    Abstract: To facilitate the genetic engineering of diverse cyanobacterial strains, we have modified broad-host-range RSF1010-based plasmids to improve transmissibility, increase copy number, and facilitate cloning. RSF1010-based plasmids replicate in diverse ... ...

    Abstract To facilitate the genetic engineering of diverse cyanobacterial strains, we have modified broad-host-range RSF1010-based plasmids to improve transmissibility, increase copy number, and facilitate cloning. RSF1010-based plasmids replicate in diverse bacterial strains but produce low amounts of useable DNA for cloning. We previously engineered a mobAY25F mutation in RSF1010-based plasmids that improved cloning but decreased conjugation efficiency. Here, we engineered RSF1010-based plasmids to restore conjugation efficiency, which was demonstrated in three diverse laboratory strains of cyanobacteria. We then used an improved RSF1010-based plasmid in mating experiments with cultured samples of wild cyanobacteria. This plasmid, which confers antibiotic resistance and carries a yfp reporter gene, allowed selection of exconjugant cyanobacteria and facilitated the isolation of genetically tractable strains from mixed wild cultures. Improved RSF1010 vectors can be used for bioprospecting genetically tractable strains and are compatible with the CYANO-VECTOR cloning system, a versatile toolbox for constructing plasmids for cyanobacterial genetic engineering.
    Language English
    Publishing date 2019-09-10
    Publishing country United States
    Document type Journal Article
    ISSN 2589-0042
    ISSN (online) 2589-0042
    DOI 10.1016/j.isci.2019.09.002
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Excision of the 59-kb fdxN DNA element is required for transcription of the nifD gene in Anabaena PCC 7120 Heterocysts

    Kumar, Krithika / Golden, James W / Ota, Mizuho / Taton, Arnaud

    New Zealand journal of botany. 2019 Apr. 3, v. 57, no. 2

    2019  

    Abstract: In the heterocyst-forming cyanobacterium Anabaena (also Nostoc) sp. strain PCC 7120, the nitrogen-fixation (nif) genes are expressed specifically in heterocysts during the late stages of development. We used gfp-reporter fusions to examine the regulation ...

    Abstract In the heterocyst-forming cyanobacterium Anabaena (also Nostoc) sp. strain PCC 7120, the nitrogen-fixation (nif) genes are expressed specifically in heterocysts during the late stages of development. We used gfp-reporter fusions to examine the regulation of the nifH and nifD genes. Plasmid-borne reporter fusions containing up to 500-bp of the nifH upstream region, which extended into the nifU gene, did not show developmentally regulated GFP fluorescence after removal of a nitrogen source from the growth medium, which indicated that sequences essential for transcriptional regulation are outside of the tested regions. Therefore, a gfp-reporter fusion was engineered into the chromosome at the 5′ end of nifD to produce strain AMC1774. This reporter construct at the native locus showed strong developmentally regulated GFP expression in differentiating heterocysts by 18 h after removal of combined nitrogen. We then screened for UV-induced mutants of AMC1774 that differentiated heterocysts but failed to show GFP-reporter fluorescence. Several dark mutants were obtained and then complemented with an expression library. One mutant was complemented with a clone that contained the xisF and alr1460 genes. The xisF gene is required for excision of a 59,428-bp DNA element present within the fdxN gene in the nifB-fdxN-nifS-nifU gene cluster, which is upstream of the nifHDK gene cluster. Analysis of the original UV-induced mutant showed that it was defective for excision of the fdxN DNA element. Together, our data shows that transcription of the nifHDK genes requires a distant promoter upstream of the fdxN DNA element. We used a gfp transcriptional reporter to demonstrate developmentally regulated promoter activity from the intergenic region upstream of nifB. We also show that the promoter for a second nifH gene, nifH2 (alr0874), lies proximal to nifH2 in its upstream intergenic region.
    Keywords Anabaena ; culture media ; developmental stages ; fluorescence ; intergenic DNA ; loci ; multigene family ; mutants ; nitrogen ; nitrogen fixation ; Nostoc ; transcription (genetics)
    Language English
    Dates of publication 2019-0403
    Size p. 76-92.
    Publishing place Taylor & Francis
    Document type Article
    ZDB-ID 2098798-5
    ISSN 1175-8643 ; 0028-825X
    ISSN (online) 1175-8643
    ISSN 0028-825X
    DOI 10.1080/0028825X.2018.1555767
    Database NAL-Catalogue (AGRICOLA)

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  8. Article: Two-fisted mousing: not just a macho thing!

    Golden, James

    Occupational health & safety (Waco, Tex.)

    2004  Volume 73, Issue 1, Page(s) 44–48

    MeSH term(s) Efficiency ; Ergonomics ; Hand/physiology ; Humans ; Microcomputers ; Occupational Health ; United States ; User-Computer Interface
    Language English
    Publishing date 2004-01
    Publishing country United States
    Document type Journal Article
    ZDB-ID 752994-6
    ISSN 0362-4064
    ISSN 0362-4064
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Novel Development of Predictive Feature Fingerprints to Identify Chemistry-Based Features for the Effective Drug Design of SARS-CoV-2 Target Antagonists and Inhibitors Using Machine Learning.

    Cooper, Kelvin / Baddeley, Christopher / French, Bernie / Gibson, Katherine / Golden, James / Lee, Thiam / Pierre, Sadrach / Weiss, Brent / Yang, Jason

    ACS omega

    2021  Volume 6, Issue 7, Page(s) 4857–4877

    Abstract: A unique approach to bioactivity and chemical data curation coupled with random forest analyses has led to a series of target-specific and cross-validated predictive feature fingerprints (PFF) that have high predictability across multiple therapeutic ... ...

    Abstract A unique approach to bioactivity and chemical data curation coupled with random forest analyses has led to a series of target-specific and cross-validated predictive feature fingerprints (PFF) that have high predictability across multiple therapeutic targets and disease stages involved in the severe acute respiratory syndrome due to coronavirus 2 (SARS-CoV-2)-induced COVID-19 pandemic, which include plasma kallikrein, human immunodeficiency virus (HIV)-protease, nonstructural protein (NSP)5, NSP12, Janus kinase (JAK) family, and AT-1. The approach was highly accurate in determining the matched target for the different compound sets and suggests that the models could be used for virtual screening of target-specific compound libraries. The curation-modeling process was successfully applied to a SARS-CoV-2 phenotypic screen and could be used for predictive bioactivity estimation and prioritization for clinical trial selection; virtual screening of drug libraries for the repurposing of drug molecules; and analysis and direction of proprietary data sets.
    Language English
    Publishing date 2021-02-05
    Publishing country United States
    Document type Journal Article
    ISSN 2470-1343
    ISSN (online) 2470-1343
    DOI 10.1021/acsomega.0c05303
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article: Development of a cyanobacterial heterologous polyketide production platform

    Roulet, Julia / Taton, Arnaud / Golden, James W / Arabolaza, Ana / Burkart, Michael D / Gramajo, Hugo

    International Metabolic Engineering Society Metabolic engineering. 2018 Sept., v. 49

    2018  

    Abstract: The development of new heterologous hosts for polyketides production represents an excellent opportunity to expand the genomic, physiological, and biochemical backgrounds that better fit the sustainable production of these valuable molecules. ... ...

    Abstract The development of new heterologous hosts for polyketides production represents an excellent opportunity to expand the genomic, physiological, and biochemical backgrounds that better fit the sustainable production of these valuable molecules. Cyanobacteria are particularly attractive for the production of natural compounds because they have minimal nutritional demands and several strains have well established genetic tools. Using the model strain Synechococcus elongatus, a generic platform was developed for the heterologous production of polyketide synthase (PKS)-derived compounds. The versatility of this system is based on interchangeable modules harboring promiscuous enzymes for PKS activation and the production of PKS extender units, as well as inducible circuits for a regulated expression of the PKS biosynthetic gene cluster. To assess the capability of this platform, we expressed the mycobacterial PKS-based mycocerosic biosynthetic pathway to produce multimethyl-branched esters (MBE). This work is a foundational step forward for the production of high value polyketides in a photosynthetic microorganism.
    Keywords Synechococcus elongatus ; biochemical pathways ; biosynthesis ; esters ; genetically modified organisms ; genomics ; models ; multigene family ; photosynthesis ; polyketide synthases ; polyketides
    Language English
    Dates of publication 2018-09
    Size p. 94-104.
    Publishing place Elsevier Inc.
    Document type Article
    ZDB-ID 1470383-x
    ISSN 1096-7184 ; 1096-7176
    ISSN (online) 1096-7184
    ISSN 1096-7176
    DOI 10.1016/j.ymben.2018.07.013
    Database NAL-Catalogue (AGRICOLA)

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