{"type": "FeatureCollection", "features": [{"id": "10.1002/cbic.202000051", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-13T16:14:06Z", "type": "Journal Article", "created": "2020-01-31", "title": "An Engineered E.\u2005coli Strain for Direct in Vivo Fluorination", "description": "Abstract<p>Selectively fluorinated compounds are found frequently in pharmaceutical and agrochemical products where currently 25\uffe2\uff80\uff9330\uffe2\uff80\uff89% of optimised compounds emerge from development containing at least one fluorine atom. There are many methods for the site\uffe2\uff80\uff90specific introduction of fluorine, but all are chemical and they often use environmentally challenging reagents. Biochemical processes for C\uffe2\uff88\uff92F bond formation are attractive, but they are extremely rare. In this work, the fluorinase enzyme, originally identified from the actinomycete bacterium Streptomyces cattleya, is engineered into Escherichia coli in such a manner that the organism is able to produce 5\uffe2\uff80\uffb2\uffe2\uff80\uff90fluorodeoxyadenosine (5\uffe2\uff80\uffb2\uffe2\uff80\uff90FDA) from S\uffe2\uff80\uff90adenosyl\uffe2\uff80\uff90l\uffe2\uff80\uff90methionine (SAM) and fluoride in live E.\uffe2\uff80\uff85coli cells. Success required the introduction of a SAM transporter and deletion of the endogenous fluoride efflux capacity in order to generate an E.\uffe2\uff80\uff85coli host that has the potential for future engineering of more elaborate fluorometabolites.</p>", "keywords": ["SAM transporters", "0301 basic medicine", "570", "S-Adenosylmethionine", "0303 health sciences", "Deoxyadenosines", "Halogenation", "DAS", "Fluorine", "Halogenations", "540", "QD Chemistry", "Streptomyces", "3. Good health", "03 medical and health sciences", "Bacterial Proteins", "Isomerism", "Escherichia coli", "QD", "Fluoride channels", "Genetic Engineering", "Oxidoreductases", "Fluorinases"]}, "links": [{"href": "https://onlinelibrary.wiley.com/doi/pdf/10.1002/cbic.202000051"}, {"href": "https://doi.org/10.1002/cbic.202000051"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/ChemBioChem", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1002/cbic.202000051", "name": "item", "description": "10.1002/cbic.202000051", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1002/cbic.202000051"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2020-03-03T00:00:00Z"}}, {"id": "10.1016/j.csbj.2022.08.002", "type": "Feature", "geometry": null, "properties": {"updated": "2026-04-13T16:16:07Z", "type": "Journal Article", "created": "2022-08-08", "title": "Streptomyces coelicolor macrodomain hydrolase SCO6735 cleaves thymidine-linked ADP-ribosylation of DNA", "description": "ADP-ribosylation is an ancient, highly conserved, and reversible covalent modification critical for a variety of endogenous processes in both prokaryotes and eukaryotes. ADP-ribosylation targets proteins, nucleic acids, and small molecules (including antibiotics). ADP-ribosylation signalling involves enzymes that add ADP-ribose to the target molecule, the (ADP-ribosyl)transferases; and those that remove it, the (ADP-ribosyl)hydrolases. Recently, the toxin/antitoxin pair DarT/DarG composed of a DNA ADP-ribosylating toxin, DarT, and (ADP-ribosyl)hydrolase antitoxin, DarG, was described. DarT modifies thymidine in single-stranded DNA in a sequence-specific manner while DarG reverses this modification, thereby rescuing cells from DarT toxicity. We studied the DarG homologue SCO6735 which is highly conserved in all Streptomyces species and known to be associated with antibiotic production in the bacterium S. coelicolor. SCO6735 shares a high structural similarity with the bacterial DarG and human TARG1. Like DarG and TARG1, SCO6735 can also readily reverse thymidine-linked ADP-ribosylation catalysed by DarT in vitro and in cells. SCO6735 active site analysis including molecular dynamic simulations of its complex with ADP-ribosylated thymidine suggests a novel catalytic mechanism of DNA-(ADP-ribose) hydrolysis. Moreover, a comparison of SCO6735 structure with ALC1-like homologues revealed an evolutionarily conserved feature characteristic for this subclass of macrodomain hydrolases.", "keywords": ["0301 basic medicine", "570", "0303 health sciences", "ADP-ribosylation", " DNA ADP-ribosylation", " Macrodomain", " Streptomyces", " SCO6735", "SCO6735", "540", "Streptomyces", "DNA ADP-ribosylation", "03 medical and health sciences", "TP248.13-248.65", "ADP-ribosylation", "Macrodomain", "Biotechnology", "Research Article"]}, "links": [{"href": "https://doi.org/10.1016/j.csbj.2022.08.002"}, {"rel": "related", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/Computational%20and%20Structural%20Biotechnology%20Journal", "name": "related record", "description": "related record", "type": "application/json"}, {"rel": "self", "type": "application/geo+json", "title": "10.1016/j.csbj.2022.08.002", "name": "item", "description": "10.1016/j.csbj.2022.08.002", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main/items/10.1016/j.csbj.2022.08.002"}, {"rel": "collection", "type": "application/json", "title": "Collection", "name": "collection", "description": "Collection", "href": "https://repository.soilwise-he.eu/cat/collections/metadata:main"}], "time": {"date": "2022-01-01T00:00:00Z"}}, {"id": "d5a4ef96-cd8e-4fed-bfa6-457e85f1ff19", "type": "Feature", "geometry": {"type": "Polygon", "coordinates": [[[9.68, 53.7], [9.68, 53.7], [9.68, 53.7], [9.68, 53.7], [9.68, 53.7]]]}, "properties": {"license": "CC BY", "rights": "Restrictions applied to assure the protection of privacy or intellectual property, and any special restrictions or limitations or warnings on using the resource or metadata. Reports, articles, papers, scientific and non - scientific works of any form, including tables, maps, or any other kind of output, in printed or electronic form, based in whole or in part on the data supplied, must contain an acknowledgement of the form: \"Data reused from the BonaRes Data Centre www.bonares.de. This data were created as part of the BonaRes Module A-Project - BonaRes - ORDIAmur's research activities.\" Although every care has been taken in preparing and testing the data, the BonaRes Module A-Project - BonaRes - ORDIAmur and the BonaRes Data Centre cannot guarantee that the data are correct; neither does the BonaRes Module A-Project - BonaRes - ORDIAmur and the BonaRes Data Centre accept any liability whatsoever for any error, missing data or omission in the data, or for any loss or damage arising from its use. 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Reports, articles, papers, scientific and non - scientific works of any form, including tables, maps, or any other kind of output, in printed or electronic form, based in whole or in part on the data supplied, must contain an acknowledgement of the form: \"Data reused from the BonaRes Data Centre www.bonares.de. This data were created as part of the BonaRes Module A-Project - BonaRes - ORDIAmur's research activities.\" Although every care has been taken in preparing and testing the data, the BonaRes Module A-Project - BonaRes - ORDIAmur and the BonaRes Data Centre cannot guarantee that the data are correct; neither does the BonaRes Module A-Project - BonaRes - ORDIAmur and the BonaRes Data Centre accept any liability whatsoever for any error, missing data or omission in the data, or for any loss or damage arising from its use. The BonaRes Module A-Project - BonaRes - ORDIAmur and BonaRes Data Centre will not be responsible for any direct or indirect use which might be made of the data.", "updated": "2026-01-15", "type": "Dataset", "created": "2025-12-02", "language": "eng", "title": "ORDIAmur Central Experiment 10", "description": "Young apple rootstocks (M.26, EMR.2 and G.935) were grown on apple replant disease affected soil or gamma-irradiated ARD soil (disinfected control) for eight weeks in a greenhouse. Roots were collected, surface disinfected and the genomic DNA was extracted.  This table contains the index of all tables forming this data collection.\n\nRelated datasets are listed in the metadata element 'Related Identifier'.\nDataset version 1.0", "formats": [{"name": "CSV"}], "keywords": ["Soil", "qPCR", "Streptomyces", "opendata", "apple replant disease", "M.26", "EMR.2", "G.935", "Illumina-MiSeq", "Boden", "Europe", "Germany", "Schleswig-Holstein"], "contacts": [{"name": "Leibniz Centre for Agricultural Landscape Research", "organization": "ZALF", "position": "Computation and Data Service Platform - Workgroup Research Data Management", "roles": ["publisher"], "phones": [{"value": "+49 33432 82 300"}], "emails": [{"value": "dataservice@zalf.de"}], "addresses": [{"deliveryPoint": ["Eberswalder Strasse 84"], "city": "M\u00fcncheberg", "administrativeArea": "Brandenburg", "postalCode": "15374", "country": "Germany"}], "links": [{"href": null}]}, {"name": "Nils Orth", "organization": "Leibniz University Hannover", "position": null, "roles": ["author"], "phones": [{"value": null}], "emails": [{"value": "orth@baum.uni-hannover.de"}], "addresses": [{"deliveryPoint": [null], "city": null, "administrativeArea": null, "postalCode": null, "country": null}], "links": [{"href": {"url": null, "protocol": null, "protocol_url": "", "name": "0009-0006-1026-9881", "name_url": "", "description": "ORCID", "description_url": "", "applicationprofile": null, "applicationprofile_url": "", "function": null}}]}, {"name": "Kristin Hauschild", "organization": "Julius K\u00fchn Institute", "position": null, "roles": ["author"], "phones": [{"value": null}], "emails": [{"value": "kristin.hauschild@ufz.de"}], "addresses": [{"deliveryPoint": [null], "city": null, "administrativeArea": null, "postalCode": null, "country": null}], "links": [{"href": {"url": null, "protocol": null, "protocol_url": "", "name": "0000-0001-5261-9583", "name_url": "", "description": "ORCID", "description_url": "", "applicationprofile": null, "applicationprofile_url": "", "function": null}}]}, {"name": "Silvia Gschwendtner", "organization": "Helmholtz Munich", "position": null, "roles": ["author"], "phones": [{"value": null}], "emails": [{"value": "silvia.gschwendtner@helmholtz-munich.de"}], "addresses": [{"deliveryPoint": [null], "city": null, "administrativeArea": null, "postalCode": null, "country": null}], "links": [{"href": {"url": null, "protocol": null, "protocol_url": "", "name": "0000-0002-6379-3728", "name_url": "", "description": "ORCID", "description_url": "", "applicationprofile": null, "applicationprofile_url": "", "function": null}}]}, {"name": "Fatma M. 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Reports, articles, papers, scientific and non - scientific works of any form, including tables, maps, or any other kind of output, in printed or electronic form, based in whole or in part on the data supplied, must contain an acknowledgement of the form: \"Data reused from the BonaRes Data Centre www.bonares.de. This data were created as part of the BonaRes Module A-Project - BonaRes - ORDIAmur's research activities.\" Although every care has been taken in preparing and testing the data, the BonaRes Module A-Project - BonaRes - ORDIAmur and the BonaRes Data Centre cannot guarantee that the data are correct; neither does the BonaRes Module A-Project - BonaRes - ORDIAmur and the BonaRes Data Centre accept any liability whatsoever for any error, missing data or omission in the data, or for any loss or damage arising from its use. The BonaRes Module A-Project - BonaRes - ORDIAmur and BonaRes Data Centre will not be responsible for any direct or indirect use which might be made of the data.", "updated": "2026-01-15", "created": "2025-12-02", "language": "eng", "title": "ORDIAmur Central Experiment 10 - Rhizosphere Bacteria Reads", "description": "Illumina-MiSeq sequencing was performed using the primer pair 515F/806R to amplify a bacterial fragment of the 16S rRNA gene (V4 region). The sequences were bioinformatically processed, annotated and reads were rarefied to 14,401 reads. The raw sequences are available at NCBI.\n\nGeneral description see mother table: (https://doi.org/10.20387/bonares-r5cg-rx85); Related datasets are listed in the metadata element 'Related Identifier'.\nDataset version 1.0", "formats": [{"name": "CSV"}], "keywords": ["Soil", "qPCR", "Streptomyces", "opendata", "apple replant disease", "M.26", "EMR.2", "G.935", "Illumina-MiSeq", "Boden", "Europe", "Germany", "Schleswig-Holstein"], "contacts": [{"name": "Leibniz Centre for Agricultural Landscape Research", "organization": "ZALF", "position": "Computation and Data Service Platform - Workgroup Research Data Management", "roles": ["publisher"], "phones": [{"value": "+49 33432 82 300"}], "emails": [{"value": "dataservice@zalf.de"}], "addresses": [{"deliveryPoint": ["Eberswalder Strasse 84"], "city": "M\u00fcncheberg", "administrativeArea": "Brandenburg", "postalCode": "15374", "country": "Germany"}], "links": [{"href": null}]}, {"name": "Nils Orth", "organization": "Leibniz University Hannover", "position": null, "roles": ["author"], "phones": [{"value": null}], "emails": [{"value": "orth@baum.uni-hannover.de"}], "addresses": [{"deliveryPoint": [null], "city": null, "administrativeArea": null, "postalCode": null, "country": null}], "links": [{"href": {"url": null, "protocol": null, "protocol_url": "", "name": "0009-0006-1026-9881", "name_url": "", "description": "ORCID", "description_url": "", "applicationprofile": null, "applicationprofile_url": "", "function": null}}]}, {"name": "Kristin Hauschild", "organization": "Julius K\u00fchn Institute", "position": null, "roles": ["author"], "phones": [{"value": null}], "emails": [{"value": "kristin.hauschild@ufz.de"}], "addresses": [{"deliveryPoint": [null], "city": null, "administrativeArea": null, "postalCode": null, "country": null}], "links": [{"href": {"url": null, "protocol": null, "protocol_url": "", "name": "0000-0001-5261-9583", "name_url": "", "description": "ORCID", "description_url": "", "applicationprofile": null, "applicationprofile_url": "", "function": null}}]}, {"name": "Silvia Gschwendtner", "organization": "Helmholtz Munich", "position": null, "roles": ["author"], "phones": [{"value": null}], "emails": [{"value": "silvia.gschwendtner@helmholtz-munich.de"}], "addresses": [{"deliveryPoint": [null], "city": null, "administrativeArea": null, "postalCode": null, "country": null}], "links": [{"href": {"url": null, "protocol": null, "protocol_url": "", "name": "0000-0002-6379-3728", "name_url": "", "description": "ORCID", "description_url": "", "applicationprofile": null, "applicationprofile_url": "", "function": null}}]}, {"name": "Fatma M. 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