New system-driven bioremediation of polluted habitats and environment

Project Information

NYMPHE

Grant agreement ID: 101060625

DOI

10.3030/101060625

EC signature date 5 December 2022

Start date 1 January 2023

End date 31 December 2026

Funded under

• Food, Bioeconomy Natural Resources, Agriculture and Environment

Total cost

€ 5 702 902,80

EU contribution

€ 5 499 973,50

Coordinated by

ALMA MATER STUDIORUM - UNIVERSITA DI BOLOGNA
Italy

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Websites, patent fillings, videos etc. (1)

Project website

Project website online – linked to Task 5.4

Documents, reports (4)

Chemical and toxicological characterization of all matrices from contaminated sites

Report on the initial chemical and toxicological characterization of all matrices from the Nymphe contaminated sites – linked to Task 4.2

Initial dissemination and communication plan

Preparation of a detailed plan outlining main target groups, communication channels, project outcomes to be disseminated and dissemination strategies – linked to Task 5.2

Report on the sites ready for field experiments

Report on the sites ready for field experiments, including site characterization for in situ remediation, infrastructures and permits – linked to Task 4.1

Report on stakeholder analysis and mapping

Report on stakeholder analysis and mapping – linked to Task 5.1

Data Management Plan (1)

Initial Data Management Plan

The DMP will provide the identification elements and the descriptions of the data sets and will include details regarding how the research data will be handled during the project and how they will be preserved after it is completed. It will specify which methodologies and standards will be used in the data creation and management and how and when the data will be shared and made open for re-use – linked to Task 5.6

Publications

Conference proceedings (17)

Synergistic Microplastic Degradation In Wastewater: How Can Electrochemical Oxidation Enhance Biodegradation?

Author(s): Ceballos-Escalera A., Pous N., Bañeras L., Balaguer MD., Puig S.
Published in: 9th World Conference of the International Society for Microbial Electrochemistry and Technology (ISMET), 2025, ISBN 978-3-944280-78-3
Publisher: Helmholtz-Zentrum für Umweltforschung
DOI: 10.5281/ZENODO.18299899

Plant Growth-Promoting Bacteria for Improved Phytoremediation of Contaminated Sites

Author(s): Jakubová L., Červená J., Šmrhová T., Mašek F., Šuman J., Uhlík O.
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18269576

Microbial community assemblies for the biodegradation of mixed hydrocarbon pollutants in industrial contaminated soil.

Author(s): Musmeci E, Giovanetti L, Palladino G, Candela M, Fava F, Biagi E, Zanaroli G
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18259733

NYMPHE Project: Eni Rewind’s bioremediation field tests

Author(s): Barompriori M, Decima MA, Santoro F, Villani F
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18377596

Guild composition of rhizosphere bacteria exploitable for hydrocarbon bioremediation is driven by ecological interactions

Author(s): Francesca Mapelli, Eleonora Rolli, Gabriele Capriglia, Luigi Bazzana, Elisa Ghitti, Lorenzo Vergani, Eliana Musmeci, Elena Biagi, Giulio Zanaroli, Sara Borin
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete

Adsorptive removal of Contaminants of Emerging Concern from Urban Wastewater using Bivalve Shells

Author(s): Jesus F, Pascoal E, Calisto V, Blasco-Gómez R, Esteve-Núñez A, Jiménez-Conde M, Blázquez-Hernández S, Heras IL, Vosáhlova S, Kodešová T, Kyclt R, Pereira JL
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18268533

Innovative Approaches to Engineer Enzymes for Plastic Recycling Solutions

Author(s): Vidal P, Gimenez J, Romero S… Ferrer M
Published in: 17th International Symposium on Biocatalysis and Biotransformations (Biotrans 2025), 2025
Publisher: LD Organisation srl
DOI: 10.5281/ZENODO.18329768

De la Naturaleza a la Inteligencia Artificial: Diseñando la Biocatálisis del futuro

Author(s): Ferrer, M., Vidal Ramon, P., Fernandez-Lopez, L., Robles Martín, A., Muñoz Tafalla, R., Gimenez Dejoz, J., Bargiela, R., & Guallar, V.
Published in: Congress of the Spanish Society of Biotechnology (Biotec2025), 2025
Publisher: Universitata Autonoma de Barcelona
DOI: 10.5281/ZENODO.18373122

Unravelling the petroleum hydrocarbon-triggered shift in root exudation of sunflower (Helianthus annuus)

Author(s): Elisa Ghitti, Eleonora Rolli, Francesca Mapelli, Gabriele Capriglia, Luigi Bazzana, Leilei Zhang, Luigi Lucini, Sara Borin
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete

Mining of toluene and xylene degraders from contaminated soil

Author(s): Smrhova T. ,Masek F., Suman J., Strejcek M., Rippelova V., McGachy L., Uhlik O.
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18299124

Microbial electrochemistry in bioremediation

Author(s): Puig, S., Bañeras, Ll., Pous, N., Balaguer, M.D. and Ceballos-Escalera, A
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18299712

Pesticide and plastic degradation by soil microorganisms

Author(s): S. Monogyiou, K. Karkanorachaki, E. Syranidou, P. Seridou, and N. Kalogerakis
Published in: 18th International Symposium on Persistent Toxic Substances & Health, 2024, ISBN 978-618-5558-08-6
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18385158

Removal of antibiotic contaminants by microalgae

Author(s): P. Seridou, S. Monogyiou, E. Syranidou and N. Kalogerakis
Published in: 18th International Symposium on Persistent Toxic Substances & Health, 2024, ISBN 978-618-5558-08-6
Publisher: Technical University of Crete
DOI: 10.5281/ZENODO.18385090

Biocatalytic Strategies for the Degradation of Emerging Micropollutants: From Nanoplastics to Pharmaceuticals

Author(s): Cervantes Dominguez, F. V., Almendral Nieto, D., Chernikova, T., Bargiela, R., Golyshin, P., & Ferrer, M.
Published in: Congress of the Spanish Society of Biotechnology (Biotec2025), 2025
Publisher: Universitata autonoma de Barcelona
DOI: 10.5281/ZENODO.18373505

Novel biocatalyst for sustainable plastic removal

Author(s): Vidal P
Published in: Congress of the Spanish Society of Catalysis (SECAT2025), 2025
Publisher: University of Alcalà
DOI: 10.5281/ZENODO.18325332

Non-flavonoid root exudates shaped the plant ‘cry-for-help’ under polychlorinated biphenyl stress

Author(s): Eleonora Rolli, Elisa Ghitti, Lorenzo Vergani, Francesca Mapelli, Sara Borin
Published in: 9th European Bioremediation Conference (EBCIX), 2025, ISBN 978-618-5558-13-0
Publisher: Technical University of Crete

Potential of Bivalves for Bioremediation of Wastewater – Comparative Assessment of Biofiltration and Biosorption

Author(s): Jesus F, Pascoal E, Sousa E, Abreu G, Mantas D, Monteiro L, Sousa M, Calisto V, Pereira JL
Published in: SETAC Europe 35th Annual Meeting, 2025, ISSN 2310-3043
Publisher: SOCIETY OF ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY
DOI: 10.5281/ZENODO.18269141

Peer reviewed articles (21)

Engineering Escherichia coli for polyethylene terephthalate powder biodegradation via computational rewiring of an outer membrane protein

Author(s): Joan Giménez-Dejoz, Paula Vidal, Sonia Romero, David Almendral, Miguel Luengo, Mireia Martinez-Sugrañes, Jose L. Gonzalez-Alfonso, Ana Robles-Martín, Francisco J. Plou, Rafael Bargiela, Martin Floor, Manuel Ferrer, Víctor Guallar, Laura Fernandez-Lopez
Published in: iScience, 2026, ISSN 2589-0042
Publisher: Elsevier
DOI: 10.5281/ZENODO.17578239

Computationally guided genome rewiring of Escherichia coli and its application for nanopolyethylene terephthalate (PET) biodegradation and upcycling

Author(s): Vidal, Paula; Giménez-Dejoz, Joan; Fernandez-Lopez, Laura; Romero, Sonia; Nazemi, Seyed Amirabbas; Luengo, Miguel; Gonzalez-Alfonso, Jose L.; Martinez-Sugrañes, Mireia; Robles-Martín, Ana; Almendral, David; Roda, Sergi; Pérez-García, Pablo; Kruse, Luzie; Jaeger, Karl-Erich; Streit, Wolfgang R.; Plou, Francisco J.; Floor, Martin; Shahgaldian, Patrick; Bargiela, Rafael; Guallar, Víctor; Ferrer, Manuel
Published in: Trends in Biotechnology, 2025, ISSN 1879-3096
Publisher: Cell Press
DOI: 10.5281/ZENODO.12568116

The Structural Permissiveness of Triosephosphate Isomerase (TpiA) of <i>Escherichia coli</i>

Author(s): Belén Calles, Borja Pitarch, Víctor de Lorenzo
Published in: ChemBioChem, Issue 26, 2025, ISSN 1439-4227
Publisher: Wiley
DOI: 10.1002/CBIC.202400863

Pavlovian‐Type Learning in Environmental Bacteria: Regulation of Herbicide Resistance by Arsenic in <scp> <i>Pseudomonas putida</i> </scp>

Author(s): David Paez‐Espino; Gonzalo Durante‐Rodríguez; Elena Alonso Fernandes; Manuel Carmona; Victor de Lorenzo
Published in: Environmental Microbiology, 2024, ISSN 1462-2920
Publisher: Wiley
DOI: 10.1111/1462-2920.70012

Polychlorinated biphenyls modify Arabidopsis root exudation pattern to accommodate degrading bacteria, showing strain and functional trait specificity

Author(s): Rolli E., Ghitti E, Mapelli F., Borin S.
Published in: Frontiers in plant science, 2024, ISSN 1664-462X
Publisher: Lausanne Frontiers Media
DOI: 10.3389/fpls.2024.1429096

Differential effect of monoterpenes and flavonoids on the transcription of aromatic ring-hydroxylating dioxygenase genes in Rhodococcus opacus C1 and Rhodococcus sp. WAY2

Author(s): Zubrova, Andrea; Tadrosová, Manuela; Semerád, Jaroslav; Cajthaml, Tomas; Pajer, Petr; Strejcek, Michal; Suman, Jachym; Uhlik, Ondrej
Published in: Microbial Genomics, 2025, ISSN 2057-5858
Publisher: Microbiology Society
DOI: 10.5281/ZENODO.15090620

Pressure-dependent growth controls 3D architecture of Pseudomonas putida microcolonies

Author(s): Juhyun Kim, Víctor de Lorenzo, Ángel Goñi-Moreno
Published in: Environmental Microbiology Reports, 2023, ISSN 1758-2229
Publisher: Wiley
DOI: 10.1111/1758-2229.13182

ChemCatChem

Author(s): Paula Vidal, Ana Robles‐Martín, Laura Fernandez‐Lopez, Jose L. Gonzalez‐Alfonso, David Almendral, Ruben Muñoz‐Tafalla, Francisco J. Plou, Víctor Guallar, Manuel Ferrer
Published in: ChemCatChem, Issue 16, 2025, ISSN 1867-3880
Publisher: Wiley - VCH Verlag GmbH & CO. KGaA
DOI: 10.1002/CCTC.202400765

Thermophilic compost bacteria as a promising approach for removal of diclofenac and related pharmaceuticals from wastewater

Author(s): Francesca Demaria, Ramona Blattner, Chasper Puorger, Boris Kolvenbach, Mariana S Cretoiu, Timm Hettich, Philippe Corvini, Georg Lipps, Marcel Suleiman
Published in: Water Research, ISSN 1879-2448
Publisher: Elsevier
DOI: 10.1016/J.WATRES.2025.124629

Embedding a feruloyl esterase active site into a thermophilic endoxylanase scaffold for the degradation of feruloylated xylans

Author(s): Rubén Muñoz-Tafalla; Isabel Cea-Rama; Fadia V. Cervantes; Jose L. Gonzalez-Alfonso; Francisco J. Plou; Julio Polaina; Julia Sanz-Aparicio; Manuel Ferrer; Víctor Guallar; David Talens-Perales
Published in: Computational and Structural Biotechnology Journal, 2025, ISSN 2001-0370
Publisher: Elsevier
DOI: 10.1016/J.CSBJ.2025.09.003

Penitentiaries: Bringing microbiological literacy to the fringes of society

Author(s): Víctor de Lorenzo
Published in: Microbial Biotechnology, 2024, ISSN 1751-7915
Publisher: Wiley
DOI: 10.1111/1751-7915.70052

Analyzing microbial communities and their biodegradation of multiple pharmaceuticals in membrane bioreactors

Author(s): Marcel Suleiman, Francesca Demaria, Cristina Zimmardi, Boris Alexander Kolvenbach & Philippe François-Xavier Corvini
Published in: Applied Microbiology and Biotechnology, 2023, ISSN 2191-0855
Publisher: Springer Nature
DOI: 10.1007/s00253-023-12677-z

In Vivo Sampling of Intracellular Heterogeneity of Pseudomonas putida Enables Multiobjective Optimization of Genetic Devices

Author(s): Hueso-Gil A, Calles B, de Lorenzo V.
Published in: ACS Synthetic Biology, 2023, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.3c00009

Pollutant profile complexity governs wastewater removal of recalcitrant pharmaceuticals

Author(s): Suleiman M, Le Lay N, Demaria F, Kolvenbach BA, Cretoiu MS, Petchey OL, Jousset A, Corvini PF
Published in: ISME Journal, 2024, ISSN 1751-7370
Publisher: Oxford University Press
DOI: 10.1093/ISMEJO/WRAE033

Journal of Hazardous Materials

Author(s): Hairong Ma, Anna N. Khusnutdinova, Sofia Lemak, Tatyana N. Chernikova, Olga V. Golyshina, David Almendral, Manuel Ferrer, Peter N. Golyshin, Alexander F. Yakunin
Published in: Journal of Hazardous Materials, Issue 481, 2025, ISSN 0304-3894
Publisher: Elsevier
DOI: 10.1016/J.JHAZMAT.2024.136540

Removal of contaminants from wastewater using the bivalve Corbicula fluminea - Comparative assessment of biofiltration and biosorption

Author(s): Jesus F, Pascoal E, Sousa EML, Mantas D, Sousa M, Vaz BMC, Gonçalves FJM, Coutinho JAP, Ventura SPM, Calisto V, Pereira JL
Published in: Journal of Environmental Management, 2025, ISSN 1095-8630
Publisher: Elsevier
DOI: 10.1016/J.JENVMAN.2025.128039

AND Logic Based on Suppressor tRNAs Enables Stringent Control of Sliding Base Editors in <i>Pseudomonas putida</i>

Author(s): Elena Velázquez, Víctor de Lorenzo
Published in: ACS Synthetic Biology, Issue 13, 2024, ISSN 2161-5063
Publisher: American Chemical Society (ACS)
DOI: 10.1021/ACSSYNBIO.4C00640

Carlos Asensio and the dawn of molecular microbial ecology

Author(s): Víctor de Lorenzo; Fernando Baquero; Alfredo Aguilar
Published in: International Microbiology, 2024, ISSN 1618-1905
Publisher: Springer
DOI: 10.1007/S10123-024-00596-6

Pseudomonas putida as a synthetic biology chassis and a metabolic engineering platform

Author(s): Martínez-García E, de Lorenzo V
Published in: Current Opinion in Biotechnology, 2024, ISSN 0958-1669
Publisher: Elsevier
DOI: 10.1016/J.COPBIO.2023.103025

Phenol-driven cometabolic degradation of cis-1,2-dichloroethene (cDCE): insights from Acinetobacter pittii and Ectopseudomonas alcaliphila

Author(s): Miguel Desmarais; Serena Fraraccio; Jakub Ridl; Jachym Suman; Andre Perez-Potti; Kenneth A. Dawson; Iva Dolinova; Lenka McGachy; Miluse Hradilova; Alena Sevcu; Michal Strejcek; Ondrej Uhlik
Published in: Environmental Sciences Europe, 2025, ISSN 2190-4715
Publisher: Springer
DOI: 10.1186/S12302-025-01237-Z

Sub-micro- and nano-sized polyethylene terephthalate deconstruction with engineered protein nanopores

Author(s): Ana Robles-Martín, Ana, Rafael Amigot-Sánchez, Laura Fernandez-Lopez, Jose L. Gonzalez-Alfonso, Sergi Roda, Víctor Alcolea-Rodriguez, Diego Heras-Márquez, David Almendral, Cristina Coscolín, Francisco J. Plou, Raquel Portela, Miguel A. Bañares, Álvaro Mar
Published in: Nature Catalysis, 2023, ISSN 2520-1158
Publisher: Springer Nature
DOI: 10.1038/S41929-023-01048-6

Thesis and dissertations (7)

Assemblaggio di comunità microbiche e monitoraggio della biodegradazione di idrocarburi alifatici e aromatici in matrici ambientali contaminate-EN:Assembly of microbial communities and monitoring of the biodegradation of aliphatic and aromatic hydrocarbon

Author(s): Benzi Giuly
Published in: 2025
Publisher: University of Bologna
DOI: 10.5281/ZENODO.18377568

Impact of Earthworms on pesticide degrading microorganisms - Der Einfluss von Regenwürmern auf pestizidabbauende Mikroorganismen

Author(s): Julika Reddig
Published in: 2024
Publisher: LUH-Institute of Microbiology
DOI: 10.5281/ZENODO.18385808

Development of an In Situ Approach for Monitoring the Biodegradation of Emerging Contaminants in Oxic/Anoxic Conditions

Author(s): Paridhi Soni
Published in: 2024
Publisher: Leibniz University Hannover - Institut of Microbiology
DOI: 10.5281/ZENODO.18385878

Charakterizace bakteriálních izolátů ze zeminy kontaminované petrochemickým průmyslem degradujících toluen a xylen (English: Characterization of toluene- and xylene-degrading bacterial isolates from soil contaminated by the petroleum industry)

Author(s): František Mašek
Published in: 2025
Publisher: University of Chemistry and Technology, Prague, Department of Biochemistry and Microbiology

Enhancing phthalate and phenol degradation in environmental bacteria via pSEVA428-ACBE3 induced random mutagenesis.

Author(s): Josep Maria Trullols Martínez
Published in: 2025
Publisher: Universiotat deGirona, Department of Biology

ENRICHMENT, ISOLATION AND CHARACTERIZATION OF PHARMACEUTICAL-DEGRADING BACTERIA FOR BIOFILM-MEDIATED BIOREMEDIATION IN THE ERPE RIVER HYPORHEIC ZONE

Author(s): Sara Di Goia
Published in: 2025
Publisher: University of Milan
DOI: 10.5281/ZENODO.18385648

Avaliação do potencial de bivalves para o tratamento de águas residuais [EN transl: Assessment of the potential of bivalves for wastewater treatment]

Author(s): Pascoal, Érica Tavares
Published in: 2024
Publisher: University of Aveiro, Department of Biology

Other (1)

The principle of uncertainty in biology: Will machine learning/artificial intelligence lead to the end of mechanistic studies?

Author(s): de Lorenzo V.
Published in: PLoS biology, 2024, ISSN 1545-7885
Publisher: Public Library of Science

Book chapters (1)

Metagenomic protocols and strategies.

Author(s): Bargiela R, Méndez-García C, Martínez-Martínez M, Ferrer M
Published in: 2018
Publisher: Elsevier
DOI: 10.1016/B978-0-323-91631-8.00018-4