Skip to main content

Industrial Applications of Marine Enzymes: Innovative screening and expression platforms to discover and use the functional protein diversity from the sea

Leistungen

D8.6 Two articles on main highlights of the INMARE project in a non-scientific journal

Two articles on main highlights of the INMARE project in a non-scientific journal

D8.8 Report on the inter-disciplinary symposium on ‘Marine Biodiversity: Ownership, Sharing and intellectual Property Protection’

Report on the inter-disciplinary symposium on ‘Marine Biodiversity: Ownership, Sharing and intellectual Property Protection’

D8-15 Two articles on main highlights of the INMARE project in a non-scientific jornal

Second article on main highlights of the INMARE project in a non-scientific jornal

D8.10 At least two peer-reviewed papers in legal or inter-disciplinary journals on IP issues

At least two peer-reviewed papers in legal or inter-disciplinary journals on IP issues

D8.5 Report on INMARE Workshop on metagenomics and bioprospecting

Report on INMARE Workshop on metagenomics and bioprospecting

D8.7 Report on INMARE Bioinformatics training Workshop

Report on INMARE Bioinformatics training Workshop

D8.2 INMARE Project Website published online

INMARE Project Website published online

D8.9 INMARE Project Leaflet with summary information and noteworthy outputs for wide distribution

INMARE Project Leaflet with summary information and noteworthy outputs for wide distribution

D8.11 At least two patents filed

At least two patents filed

D8.14 Two INMARE Science Policy Briefs for management-level personnel and decision makers/advisors with a focus on the research efforts of INMARE

Second INMARE Science Policy Brief for management-level personnel and decision makers/advisors with a focus on the research efforts of INMARE

D8.1 Communication and Dissemination Strategy

Communication and Dissemination Strategy

D8.3 INMARE Project Brochure with general information for wide distribution

INMARE Project Brochure with general information for wide distribution

D8.4 Two INMARE Science Policy Briefs for management-level personnel and decision makers/advisors with a focus on the research efforts of INMARE

Two INMARE Science Policy Briefs for managementlevel personnel and decision makersadvisors with a focus on the research efforts of INMARE

Veröffentlichungen

Degradation Network Reconstruction in Uric Acid and Ammonium Amendments in Oil-Degrading Marine Microcosms Guided by Metagenomic Data

Autoren: Rafael Bargiela, Christoph Gertler, Mirko Magagnini, Francesca Mapelli, Jianwei Chen, Daniele Daffonchio, Peter N. Golyshin, Manuel Ferrer
Veröffentlicht in: Frontiers in Microbiology, 6, 2015, ISSN 1664-302X
Herausgeber: Frontiers Media
DOI: 10.3389/fmicb.2015.01270

Diversity of hydrolases from hydrothermal vent sediments of the Levante Bay, Vulcano Island (Aeolian archipelago) identified by activity-based metagenomics and biochemical characterization of new esterases and an arabinopyranosidase

Autoren: Antonio Placido, Tran Hai, Manuel Ferrer, Tatyana N. Chernikova, Marco Distaso, Dale Armstrong, Alexander F. Yakunin, Stepan V. Toshchakov, Michail M. Yakimov, Ilya V. Kublanov, Olga V. Golyshina, Graziano Pesole, Luigi R. Ceci, Peter N. Golyshin
Veröffentlicht in: Applied Microbiology and Biotechnology, 99/23, 2015, Page(s) 10031-10046, ISSN 0175-7598
Herausgeber: Springer Verlag
DOI: 10.1007/s00253-015-6873-x

The novel extremely acidophilic, cell-wall-deficient archaeon Cuniculiplasma divulgatum gen. nov., sp. nov. represents a new family, Cuniculiplasmataceae fam. nov., of the order Thermoplasmatales

Autoren: Olga V. Golyshina, Peter N. Golyshin, Nadine I. Goldenstein, Heinrich Lünsdorf, Kai-Uwe Hinrichs, Ilya V. Kublanov
Veröffentlicht in: International Journal of Systematic and Evolutionary Microbiology, 66/1, 2016, Page(s) 332-340, ISSN 1466-5026
Herausgeber: Society for General Microbiology
DOI: 10.1099/ijsem.0.000725

Structural and Functional Characterization of a Ruminal β-Glycosidase Defines a Novel Subfamily of Glycoside Hydrolase Family 3 with Permuted Domain Topology

Autoren: Mercedes Ramírez-Escudero, Mercedes V. del Pozo, Julia Marín-Navarro, Beatriz González, Peter N. Golyshin, Julio Polaina, Manuel Ferrer, Julia Sanz-Aparicio
Veröffentlicht in: Journal of Biological Chemistry, 291/46, 2016, Page(s) 24200-24214, ISSN 0021-9258
Herausgeber: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1074/jbc.M116.747527

Metagenomic discovery of novel enzymes and biosurfactants in a slaughterhouse biofilm microbial community

Autoren: Stephan Thies, Sonja Christina Rausch, Filip Kovacic, Alexandra Schmidt-Thaler, Susanne Wilhelm, Frank Rosenau, Rolf Daniel, Wolfgang Streit, Jörg Pietruszka, Karl-Erich Jaeger
Veröffentlicht in: Scientific Reports, 6, 2016, Page(s) 27035, ISSN 2045-2322
Herausgeber: Nature Publishing Group
DOI: 10.1038/srep27035

Enzyme Shielding in an Enzyme-thin and Soft Organosilica Layer

Autoren: M. Rita Correro, Negar Moridi, Hansjörg Schützinger, Sabine Sykora, Erik M. Ammann, E. Henrik Peters, Yves Dudal, Philippe F.-X. Corvini, Patrick Shahgaldian
Veröffentlicht in: Angewandte Chemie International Edition, 55/21, 2016, Page(s) 6285-6289, ISSN 1433-7851
Herausgeber: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201600590

Metaproteomics and metabolomics analyses of chronically petroleum-polluted sites reveal the importance of general anaerobic processes uncoupled with degradation

Autoren: Rafael Bargiela, Florian-Alexander Herbst, Mónica Martínez-Martínez, Jana Seifert, David Rojo, Simone Cappello, María Genovese, Francesca Crisafi, Renata Denaro, Tatyana N. Chernikova, Coral Barbas, Martin von Bergen, Michail M. Yakimov, Manuel Ferrer, Peter N. Golyshin
Veröffentlicht in: PROTEOMICS, 15/20, 2015, Page(s) 3508-3520, ISSN 1615-9853
Herausgeber: John Wiley & Sons Ltd.
DOI: 10.1002/pmic.201400614

Reversible Supramolecular Surface Attachment of Enzyme-Polymer Conjugates for the Design of Biocatalytic Filtration Membranes

Autoren: Negar Moridi, Philippe F.-X. Corvini, Patrick Shahgaldian
Veröffentlicht in: Angewandte Chemie International Edition, 54/49, 2015, Page(s) 14800-14804, ISSN 1433-7851
Herausgeber: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201507020

Bacterial population and biodegradation potential in chronically crude oil-contaminated marine sediments are strongly linked to temperature

Autoren: Rafael Bargiela, Francesca Mapelli, David Rojo, Bessem Chouaia, Jesús Tornés, Sara Borin, Michael Richter, Mercedes V. Del Pozo, Simone Cappello, Christoph Gertler, María Genovese, Renata Denaro, Mónica Martínez-Martínez, Stilianos Fodelianakis, Ranya A. Amer, David Bigazzi, Xifang Han, Jianwei Chen, Tatyana N. Chernikova, Olga V. Golyshina, Mouna Mahjoubi, Atef Jaouanil, Fatima Benzha, Mirk
Veröffentlicht in: Scientific Reports, 5, 2015, Page(s) 11651, ISSN 2045-2322
Herausgeber: Nature Publishing Group
DOI: 10.1038/srep11651

Biodiversity for biocatalysis: A review of the α/β-hydrolase fold superfamily of esterases-lipases discovered in metagenomes

Autoren: Manuel Ferrer, Rafael Bargiela, Mónica Martínez-Martínez, Jaume Mir, Rainhard Koch, Olga V. Golyshina, Peter N. Golyshin
Veröffentlicht in: Biocatalysis and Biotransformation, 33/5-6, 2015, Page(s) 235-249, ISSN 1024-2422
Herausgeber: Taylor & Francis
DOI: 10.3109/10242422.2016.1151416

Whole cell biocatalysts: essential workers from Nature to the industry

Autoren: Carla C. C. R. de Carvalho
Veröffentlicht in: Microbial Biotechnology, 2016, ISSN 1751-7915
Herausgeber: John Wiley & Sons Ltd and Society for Applied Microbiology
DOI: 10.1111/1751-7915.12363

Supramolecular enzyme engineering in complex nanometer-thin biomimetic organosilica layers

Autoren: M. Rita Correro, Michael Takacs, Sabine Sykora, Philippe F.-X. Corvini, Patrick Shahgaldian
Veröffentlicht in: RSC Adv., 6/92, 2016, Page(s) 89966-89971, ISSN 2046-2069
Herausgeber: Royal Society of Chemistry
DOI: 10.1039/C6RA17775A

High Throughput Screening of Esterases, Lipases and Phospholipases in Mutant and Metagenomic Libraries: A Review

Autoren: Carlina Peña-García, Mónica Martínez-Martínez, Dolores Reyes-Duarte, Manuel Ferrer
Veröffentlicht in: Combinatorial Chemistry & High Throughput Screening, 19/8, 2016, Page(s) 605-615, ISSN 1386-2073
Herausgeber: Bentham Science Publishers
DOI: 10.2174/1386207319666151110123927

Activity screening of environmental metagenomic libraries reveals novel carboxylesterase families

Autoren: Ana Popovic, Tran Hai, Anatoly Tchigvintsev, Mahbod Hajighasemi, Boguslaw Nocek, Anna N. Khusnutdinova, Greg Brown, Julia Glinos, Robert Flick, Tatiana Skarina, Tatyana N. Chernikova, Veronica Yim, Thomas Brüls, Denis Le Paslier, Michail M. Yakimov, Andrzej Joachimiak, Manuel Ferrer, Olga V. Golyshina, Alexei Savchenko, Peter N. Golyshin, Alexander F. Yakunin
Veröffentlicht in: Scientific Reports, 7, 2017, Page(s) 44103, ISSN 2045-2322
Herausgeber: Nature Publishing Group
DOI: 10.1038/srep44103

Comparative Genomic Analysis Reveals a Diverse Repertoire of Genes Involved in Prokaryote-Eukaryote Interactions within the Pseudovibrio Genus

Autoren: Stefano Romano, Antonio Fernàndez-Guerra, F. Jerry Reen, Frank O. Glöckner, Susan P. Crowley, Orla O'Sullivan, Paul D. Cotter, Claire Adams, Alan D. W. Dobson, Fergal O'Gara
Veröffentlicht in: Frontiers in Microbiology, 7, 2016, ISSN 1664-302X
Herausgeber: Frontiers Media
DOI: 10.3389/fmicb.2016.00387

Cultivation-based strategies to find efficient marine biocatalysts

Autoren: Carlos J. C. Rodrigues, Ricardo F.S. Pereira, Pedro Fernandes, Joaquim M.S. Cabral, Carla C. C. R. de Carvalho
Veröffentlicht in: Biotechnology Journal, 12/7, 2017, Page(s) 1700036, ISSN 1860-6768
Herausgeber: Wiley - VCH Verlag GmbH & CO. KGaA
DOI: 10.1002/biot.201700036

Harnessing Bacterial Signals for Suppression of Biofilm Formation in the Nosocomial Fungal Pathogen Aspergillus fumigatus

Autoren: F. Jerry Reen, John P. Phelan, David F. Woods, Rachel Shanahan, Rafael Cano, Sarah Clarke, Gerard P. McGlacken, Fergal O’Gara
Veröffentlicht in: Frontiers in Microbiology, 7, 2016, ISSN 1664-302X
Herausgeber: Frontiers Media
DOI: 10.3389/fmicb.2016.02074

Synthesis and electrochemical detection of a thiazolyl-indole natural product isolated from the nosocomial pathogen Pseudomonas aeruginosa

Autoren: Alyah Buzid, Eoin Ó Muimhneacháin, F. Jerry Reen, Phyllis E. Hayes, Leticia M. Pardo, Fengjun Shang, Fergal O’Gara, Jonathan Sperry, John H. T. Luong, Jeremy D. Glennon, Gerard P. McGlacken
Veröffentlicht in: Analytical and Bioanalytical Chemistry, 408/23, 2016, Page(s) 6361-6367, ISSN 1618-2642
Herausgeber: Springer Verlag
DOI: 10.1007/s00216-016-9749-8

Discovery of anaerobic lithoheterotrophic haloarchaea, ubiquitous in hypersaline habitats

Autoren: Dimitry Y Sorokin, Enzo Messina, Francesco Smedile, Pawel Roman, Jaap S Sinninghe Damsté, Sergio Ciordia, Maria Carmen Mena, Manuel Ferrer, Peter N Golyshin, Ilya V Kublanov, Nazar I Samarov, Stepan V Toshchakov, Violetta La Cono, Michail M Yakimov
Veröffentlicht in: The ISME Journal, 11/5, 2017, Page(s) 1245-1260, ISSN 1751-7362
Herausgeber: Nature Publishing Group
DOI: 10.1038/ismej.2016.203

Dissecting the regulation of bile-induced biofilm formation in Staphylococcus aureus

Autoren: Dulantha Ulluwishewa, Liang Wang, Callen Pereira, Stephanie Flynn, Elizabeth Cain, Stephen Stick, F. Jerry Reen, Joshua P. Ramsay, Fergal O’Gara
Veröffentlicht in: Microbiology, 162/8, 2016, Page(s) 1398-1406, ISSN 1350-0872
Herausgeber: Society for General Microbiology
DOI: 10.1099/mic.0.000317

Bile signalling promotes chronic respiratory infections and antibiotic tolerance

Autoren: F. Jerry Reen, Stephanie Flynn, David F. Woods, Niall Dunphy, Muireann Ní Chróinín, David Mullane, Stephen Stick, Claire Adams, Fergal O’Gara
Veröffentlicht in: Scientific Reports, 6/1, 2016, ISSN 2045-2322
Herausgeber: Nature Publishing Group
DOI: 10.1038/srep29768

Direct and Rapid Electrochemical Detection of Pseudomonas aeruginosa Quorum Signaling Molecules in Bacterial Cultures and Cystic Fibrosis Sputum Samples through Cationic Surfactant-Assisted Membrane Disruption

Autoren: Alyah Buzid, F. Jerry Reen, Victor K. Langsi, Eoin Ó Muimhneacháin, Fergal O'Gara, Gerard P. McGlacken, John H. T. Luong, Jeremy D. Glennon
Veröffentlicht in: ChemElectroChem, 4/3, 2017, Page(s) 533-541, ISSN 2196-0216
Herausgeber: Wiley-VCH Verlag GmbH & Co. KGaA
DOI: 10.1002/celc.201600590

The requirements at the C-3 position of alkylquinolones for signalling in Pseudomonas aeruginosa

Autoren: Rachel Shanahan, F. Jerry Reen, Rafael Cano, Fergal O'Gara, Gerard P. McGlacken
Veröffentlicht in: Org. Biomol. Chem., 15/2, 2017, Page(s) 306-310, ISSN 1477-0520
Herausgeber: Royal Society of Chemistry
DOI: 10.1039/C6OB01930G

Bile acids destabilise HIF-1α and promote anti-tumour phenotypes in cancer cell models

Autoren: J. P. Phelan, F. J. Reen, N. Dunphy, R. O’Connor, F. O’Gara
Veröffentlicht in: BMC Cancer, 16/1, 2016, ISSN 1471-2407
Herausgeber: BioMed Central
DOI: 10.1186/s12885-016-2528-2

Integrated (Meta) Genomic and Synthetic Biology Approaches to Develop New Biocatalysts

Autoren: María Parages, José Gutiérrez-Barranquero, F. Reen, Alan Dobson, Fergal O’Gara
Veröffentlicht in: Marine Drugs, 14/3, 2016, Page(s) 62, ISSN 1660-3397
Herausgeber: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/md14030062

Molecular Signature of Pseudomonas aeruginosa with Simultaneous Nanomolar Detection of Quorum Sensing Signaling Molecules at a Boron-Doped Diamond Electrode

Autoren: Alyah Buzid, Fengjun Shang, F. Jerry Reen, Eoin Ó Muimhneacháin, Sarah L. Clarke, Lin Zhou, John H. T. Luong, Fergal O’Gara, Gerard P. McGlacken, Jeremy D. Glennon
Veröffentlicht in: Scientific Reports, 6/1, 2016, ISSN 2045-2322
Herausgeber: Nature Publishing Group
DOI: 10.1038/srep30001

Exploiting Interkingdom Interactions for Development of Small-Molecule Inhibitors of Candida albicans Biofilm Formation

Autoren: F. Jerry Reen, John P. Phelan, Lorna Gallagher, David F. Woods, Rachel M. Shanahan, Rafael Cano, Eoin Ó Muimhneacháin, Gerard P. McGlacken, Fergal O'Gara
Veröffentlicht in: Antimicrobial Agents and Chemotherapy, 60/10, 2016, Page(s) 5894-5905, ISSN 0066-4804
Herausgeber: American Society for Microbiology
DOI: 10.1128/AAC.00190-16

Is There Potential for Repurposing Statins as Novel Antimicrobials?

Autoren: Emma Hennessy, Claire Adams, F. Jerry Reen, Fergal O'Gara
Veröffentlicht in: Antimicrobial Agents and Chemotherapy, 60/9, 2016, Page(s) 5111-5121, ISSN 0066-4804
Herausgeber: American Society for Microbiology
DOI: 10.1128/AAC.00192-16

Analysis of defence systems and a conjugative IncP-1 plasmid in the marine polyaromatic hydrocarbons-degrading bacterium Cycloclasticus sp. 78-ME

Autoren: Michail M. Yakimov, Francesca Crisafi, Enzo Messina, Francesco Smedile, Anna Lopatina, Renata Denaro, Dietmar H. Pieper, Peter N. Golyshin, Laura Giuliano
Veröffentlicht in: Environmental Microbiology Reports, 8/4, 2016, Page(s) 508-519, ISSN 1758-2229
Herausgeber: Wiley-Blackwell
DOI: 10.1111/1758-2229.12424

Screening for Enantioselective Lipases

Autoren: Thomas Classen, Filip Kovacic, Benjamin Lauinger, Jörg Pietruszka, Karl-Erich Jaeger
Veröffentlicht in: Springer Protocols Handbooks, 2016
Herausgeber: Humana Press
DOI: 10.1007/8623_2016_218

Metagenomics and the Search for Industrial Enzymes

Autoren: Mónica Martínez-Martínez, Rafael Bargiela, Manuel Ferrer
Veröffentlicht in: Biotechnology of Microbial Enzymes, 2017, Page(s) 167-184, ISBN 978-0-12-803725-6
Herausgeber: Elsevier
DOI: 10.1016/b978-0-12-803725-6.00007-8

Mining microbial signals for enhanced biodiscovery of secondary metabolites

Autoren: F. Jerry Reen, Jose A. Gutiérrez-Barranquero, Fergal O’Gara
Veröffentlicht in: Methods in Molecular Biology, 2016, Page(s) 287-300
Herausgeber: Springer New York
DOI: 10.1007/978-1-4939-6691-2_19

Bile Aspiration; a host factor modulating chronic respiratory infection.

Autoren: Flynn, S., Woods, D., Ní Chróinín, M., Mullane, D., Adams, C., Reen, F.J. & F O’Gara.
Veröffentlicht in: Bile Aspiration; a host factor modulating chronic respiratory infection., Bile Acids: Biosynthesis, Metabolic Regulation and Biological Functions, 2016, ISBN 978-1-63484-075-0
Herausgeber: Nova Science Publishers

Novel Tools for the Functional Expression of Metagenomic DNA

Autoren: Nadine Katzke, Andreas Knapp, Anita Loeschcke, Thomas Drepper, Karl-Erich Jaeger
Veröffentlicht in: Novel Tools for the Functional Expression of Metagenomic DNA, Meth. Mol. Biol, 2016, Page(s) 159-196
Herausgeber: Springer New York
DOI: 10.1007/978-1-4939-6691-2_10

The Marine Microbiome

Autoren: Lucas J. Stal, Mariana Silvia Cretoiu
Veröffentlicht in: Metagenomics as a tool for biodiscovery and enhancement of production of bioactives, The marine microbiome – an untold resource of biodiversity and biotechnological potential, 2016, ISBN 978-3-319-33000-6
Herausgeber: Springer International Publishing
DOI: 10.1007/978-3-319-33000-6

Datensätze

Additional file 2 of What lies on macroalgal surface: diversity of polysaccharide degraders in culturable epiphytic bacteria

Autoren: Barbato, Marta; Vacchini, Violetta; Engelen, Aschwin H.; Patania, Giovanni; Mapelli, Francesca; Borin, Sara; Crotti, Elena
Veröffentlicht in: figshare

MOESM1 of Use of chitin and chitosan to produce new chitooligosaccharides by chitinase Chit42: enzymatic activity and structural basis of protein specificity

Autoren: Kidibule, Peter; Santos-Moriano, Paloma; Jiménez-Ortega, Elena; Ramírez-Escudero, Mercedes; M. Limón; Remacha, Miguel; Plou, Francisco; Sanz-Aparicio, Julia; Fernández-Lobato, María
Veröffentlicht in: figshare

Additional file 10: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 7: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 1: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 6: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; GlĂśckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 4: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 11: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 9: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; GlĂśckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 3: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 2: of Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data

Autoren: Pereira-Flores, Emiliano; Glรถckner, Frank; Fernandez-Guerra, Antonio
Veröffentlicht in: figshare

Additional file 3: of A-GAME: improving the assembly of pooled functional metagenomics sequence data

Autoren: Chiara, Matteo; Placido, Antonio; Picardi, Ernesto; Ceci, Luigi; Horner, David; Pesole, Graziano
Veröffentlicht in: figshare