6 results on '"Fons A. de Vogel"'
Search Results
2. Comparative Genomics of Marine Bacteria from a Historically Defined Plastic Biodegradation Consortium with the Capacity to Biodegrade Polyhydroxyalkanoates
- Author
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Fons A. de Vogel, Cathleen Schlundt, Robert E. Stote, Jo Ann Ratto, and Linda A. Amaral-Zettler
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biodegradation standard test methods ,plastic biodegradation ,polyhydroxyalkanoate (PHA) cycle ,PHA depolymerases ,comparative genomics ,plastisphere ,Biology (General) ,QH301-705.5 - Abstract
Biodegradable and compostable plastics are getting more attention as the environmental impacts of fossil-fuel-based plastics are revealed. Microbes can consume these plastics and biodegrade them within weeks to months under the proper conditions. The biobased polyhydroxyalkanoate (PHA) polymer family is an attractive alternative due to its physicochemical properties and biodegradability in soil, aquatic, and composting environments. Standard test methods are available for biodegradation that employ either natural inocula or defined communities, the latter being preferred for standardization and comparability. The original marine biodegradation standard test method ASTM D6691 employed such a defined consortium for testing PHA biodegradation. However, the taxonomic composition and metabolic potential of this consortium have never been confirmed using DNA sequencing technologies. To this end, we revived available members of this consortium and determined their phylogenetic placement, genomic sequence content, and metabolic potential. The revived members belonged to the Bacillaceae, Rhodobacteraceae, and Vibrionaceae families. Using a comparative genomics approach, we found all the necessary enzymes for both PHA production and utilization in most of the members. In a clearing-zone assay, three isolates also showed extracellular depolymerase activity. However, we did not find classical PHA depolymerases, but identified two potentially new extracellular depolymerases that resemble triacylglycerol lipases.
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- 2021
- Full Text
- View/download PDF
3. Identification of novel conserved Ixodes vaccine candidates; a promising role for non-secreted salivary gland proteins
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Jos J.A. Trentelman, Fons A. de Vogel, Emil Colstrup, Radek Sima, Jeroen Coumou, Joris Koetsveld, Michelle J. Klouwens, Abhijeet Nayak, Jasmin Ersoz, Diego Barriales, Julen Tomás-Cortázar, Sukanya Narasimhan, Ondrej Hajdusek, Juan Anguita, Joppe W. Hovius, Center of Experimental and Molecular Medicine, Graduate School, AII - Infectious diseases, and Infectious diseases
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Conserved ,Lyme Disease ,Vaccines ,General Veterinary ,General Immunology and Microbiology ,Ixodes ,Borrelia ,Guinea Pigs ,Public Health, Environmental and Occupational Health ,Salivary Glands ,Anti-tick vaccine ,Infectious Diseases ,Molecular Medicine ,Animals ,Humans ,Rabbits ,Tick salivary gland proteins ,Salivary Proteins and Peptides ,Yeast surface display - Abstract
Ixodes ricinus and Ixodes scapularis are the main vectors for the causative agents of Lyme borreliosis and a wide range of other pathogens. Repeated tick-bites are known to lead to tick rejection; a phenomenon designated as tick immunity. Tick immunity is mainly directed against tick salivary gland proteins (TSGPs) and has been shown to partially protect against experimental Lyme borreliosis. TSGPs recognized by antibodies from tick immune animals could therefore be interesting candidates for an anti-tick vaccine, which might also block pathogen transmission. To identify conserved Ixodes TSGPs that could serve as a universal anti-tick vaccine in both Europe and the US, a Yeast Surface Display containing salivary gland genes of nymphal I. ricinus expressed at 24, 48 and 72 h into tick feeding was probed with either sera from rabbits repeatedly exposed for 24 h to I. ricinus nymphal ticks and/or sera from rabbits immune to I. scapularis. Thus, we identified thirteen TSGP vaccine candidates, of which ten were secreted. For vaccination studies in rabbits, we selected six secreted TSGPs, five full length and one conserved peptide. None of these proteins hampered tick feeding. In contrast, vaccination of guinea pigs with four non-secreted TSGPs - two from the current and two from a previous human immunoscreening - did significantly reduce tick attachment and feeding. Therefore, non-secreted TSGPs appear to be involved in the development of tick immunity and are interesting candidates for an anti-tick vaccine.
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- 2022
4. Biocatalytic, one-pot diterminal oxidation and esterification of n-alkanes for production of α,ω-diol and α,ω-dicarboxylic acid esters
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Fons A. de Vogel, Elinor L. Scott, Ruud A. Weusthuis, Gerrit Eggink, and Youri M. van Nuland
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0301 basic medicine ,Bio Process Engineering ,Biobased Chemistry and Technology ,α,ω-dicarboxylic acids ,α ,030106 microbiology ,Diol ,AlkB ,Bioengineering ,medicine.disease_cause ,Applied Microbiology and Biotechnology ,Mixed Function Oxygenases ,03 medical and health sciences ,chemistry.chemical_compound ,Bacterial Proteins ,Alkanes ,Escherichia coli ,medicine ,Organic chemistry ,Dicarboxylic Acids ,α,ω-diols ,VLAG ,Alkane ,chemistry.chemical_classification ,ω-diols ,Whole-cell biocatalysis ,N alkanes ,Esterification ,biology ,Pseudomonas putida ,Monooxygenases ,Monooxygenase ,BBP Bioconversion ,030104 developmental biology ,Monomer ,Dicarboxylic acid ,chemistry ,ω-dicarboxylic acids ,biology.protein ,Microorganisms, Genetically-Modified ,Oxidation-Reduction ,Biotechnology - Abstract
Direct and selective terminal oxidation of medium-chain n-alkanes is a major challenge in chemistry. Efforts to achieve this have so far resulted in low specificity and overoxidized products. Biocatalytic oxidation of medium-chain n-alkanes – with for example the alkane monooxygenase AlkB from P. putida GPo1- on the other hand is highly selective. However, it also results in overoxidation. Moreover, diterminal oxidation of medium-chain n-alkanes is inefficient. Hence, α,ω-bifunctional monomers are mostly produced from olefins using energy intensive, multi-step processes. By combining biocatalytic oxidation with esterification we drastically increased diterminal oxidation upto 92 mol% and reduced overoxidation to 3% for n-hexane. This methodology allowed us to convert medium-chain n-alkanes into α,ω-diacetoxyalkanes and esterified α,ω-dicarboxylic acids. We achieved this in a one-pot reaction with resting-cell suspensions of genetically engineered Escherichia coli. The combination of terminal oxidation and esterification constitutes a versatile toolbox to produce α,ω-bifunctional monomers from n-alkanes.
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- 2017
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5. INTO THE MED: Searching for Microplastics from Space to Deep-Sea
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Vincenzo Donnarumma, Linda A. Amaral-Zettler, Erik R. Zettler, Victor Onink, Alexandre Epinoux, Kara Lavender Law, Clara Loureiro, Ethan C. Edson, Ana Martins, Catharina Pieper, Fons A. de Vogel, and Anu Heikkilä
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Microplastics ,Materials science ,010504 meteorology & atmospheric sciences ,Solid particle ,Irregular shape ,Polymeric matrix ,Mineralogy ,010501 environmental sciences ,Space (mathematics) ,01 natural sciences ,Deep sea ,0105 earth and related environmental sciences - Abstract
Microplastics (MP) are defined as “any synthetic solid particle or polymeric matrix, with regular or irregular shape and with size ranging from 1 μm to 5 mm, of either primary or secondary manufacturing origin, which are insoluble in water”.
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- 2020
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6. Expansion of the ω-oxidation system AlkBGTL of Pseudomonas putida GPo1 with AlkJ and AlkH results in exclusive mono-esterified dicarboxylic acid production in E. coli
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Gerrit Eggink, Youri M. van Nuland, Fons A. de Vogel, and Ruud A. Weusthuis
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0301 basic medicine ,Bio Process Engineering ,030106 microbiology ,AlkB ,Bioengineering ,medicine.disease_cause ,Applied Microbiology and Biotechnology ,Biochemistry ,Metabolic engineering ,03 medical and health sciences ,Escherichia coli ,medicine ,Life Science ,Organic chemistry ,Dicarboxylic Acids ,Research Articles ,Alcohol dehydrogenase ,VLAG ,chemistry.chemical_classification ,biology ,Pseudomonas putida ,Alcohol Dehydrogenase ,Fatty acid ,Substrate (chemistry) ,Esters ,Aldehyde Dehydrogenase ,biology.organism_classification ,030104 developmental biology ,Dicarboxylic acid ,BBP Bioconversion ,Metabolic Engineering ,chemistry ,biology.protein ,Oxidation-Reduction ,Metabolic Networks and Pathways ,Research Article ,Biotechnology - Abstract
Summary The AlkBGTL proteins coded on the alk operon from Pseudomonas putida GPo1 can selectively ω‐oxidize ethyl esters of C6 to C10 fatty acids in whole‐cell conversions with Escherichia coli. The major product in these conversions is the ω‐alcohol. However, AlkB also has the capacity to overoxidize the substrate to the ω‐aldehyde and ω‐acid. In this study, we show that alcohol dehydrogenase AlkJ and aldehyde dehydrogenase AlkH are able to oxidize ω‐alcohols and ω‐aldehydes of esterified fatty acids respectively. Resting E. coli expressing AlkBGTHJL enabled exclusive mono‐ethyl azelate production from ethyl nonanoate, with an initial specific activity of 61 U gcdw −1. Within 2 h, this strain produced 3.53 mM mono‐ethyl azelate, with a yield of 0.68 mol mol−1. This strain also produced mono‐ethyl dicarboxylic acids from ethyl esters of C6 to C10 fatty acids and mono‐methyl azelate from methyl nonanoate. Adding ethyl nonanoate dissolved in carrier solvent bis‐(2‐ethylhexyl) phthalate enabled an increase in product titres to 15.55 mM in two‐liquid phase conversions. These findings indicate that E. coli expressing AlkBGTHJL is an effective producer of mono‐esterified dicarboxylic acids from fatty acid esters.
- Published
- 2017
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