New system-driven bioremediation of polluted habitats and environment
Food, Bioeconomy & Natural ResourcesHORIZON-RIAID: 101060625
EC Contribution
€55,000
Consortium Size
18 orgs
Start Year
2023
▶Summary
The objective of Nymphe is to develop bioremediation/revitalization strategies based on the assembly of systems of available and new biologics (enzymes, microorganisms, bivalves and earthworms, plants and their holobiont) developed and applied on matrices from different EU contaminated sites: groundwater, sediments (hyporheic zone), wastewater as well as industrial, and agricultural soils. The assembly of systems is guided using predictive microbial interaction models in the microbiome of the actual site matrix to be decontaminated. The best systems of biologics are reintroduced at the contaminated sites (4 plus 1 site for confined tests using genomically edited biologics). Nymphe target at least 90% removal of the pollutants occurring at the sites, e.g. plastics and pesticides in the agricultural soil, and chlorinated solvents/total petroleum hydrocarbon in groundwater and sediments of the industrial site. Besides, biologics and systems benefit from the development of platform technologies to: assemble stable consortia (adhesin+complementary auxotrophies), accelerate the evolution of the microorganisms, increase mobility of degradative plasmids, genomically edit bacteria to produce evolved enzymes, produce enzyme systems with recycling of cofactors, control the spatial distribution of biodegraders (3D-printing), protect them in harsh environments, facilitate redox processes by electromicrobiology, design self-sustaining redox biocatalysts. The bioremediation/revitalization strategies undergo a full assessment: ecological and environmental risk analyses (chemical, ecotoxicological and supportive analyses e.g., function and biodiversity of the microbiomes), technology risk analysis, life cycle assessment, life cycle cost, cost-efficiency analysis, biosafety & regulatory constraints analysis, and societal analysis to be finally benchmarked with current solutions. The ecological status of the bioremediated sites shall be closer to Natura 2000 specifications
Consortium (18)
ALMA MATER STUDIORUM - UNIVERSITA DI BOLOGNA
coordinator🇨🇿 ABITEC SROCZ
partner AGENCIA ESTATAL CONSEJO SUPERIOR DE INVESTIGACIONES CIENTIFICAS
partner🇷🇴 ASOCIATIA PENTRU DEZVOLTARE SI MEDIU ADEMEDRO
partner🇳🇱 BLOSSOM MICROBIAL TECHNOLOGIESNL
partner🇸🇰 CENTRUM ENVIRONMENTALNYCH SLUZIEB, SROSK
partner🇬🇷 CHQ TECHNOLOGIES IKEGR
partner🇮🇹 ENI REWIND SPAIT
partner🇨🇭 FACHHOCHSCHULE NORDWESTSCHWEIZ FHNWCH
partner🇩🇪 FORSCHUNGSVERBUND BERLIN EVDE
partner🇩🇪 GOTTFRIED WILHELM LEIBNIZ UNIVERSITAET HANNOVERDE
partner🇵🇱 INSTYTUT INNOWACJI I ODPOWIEDZIALNEGO ROZWOJUPL
partner🇪🇸 METFILTER SOCIEDAD LIMITADAES
partner🇧🇪 PERSEUSBE
partner🇵🇹 UNIVERSIDADE DE AVEIROPT
partner🇮🇹 UNIVERSITA DEGLI STUDI DI MILANOIT
partner🇪🇸 UNIVERSITAT DE GIRONAES
partner🇨🇿 VYSOKA SKOLA CHEMICKO-TECHNOLOGICKA V PRAZECZ
partnerProject Results (54)
Source: CORDIS, the EU research results database.
▶Publications (47)
Engineering Escherichia coli for polyethylene terephthalate powder biodegradation via computational rewiring of an outer membrane protein
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
Adsorptive removal of Contaminants of Emerging Concern from Urban Wastewater using Bivalve Shells
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
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
· 2025DOI
Benzi Giuly
Biocatalytic Strategies for the Degradation of Emerging Micropollutants: From Nanoplastics to Pharmaceuticals
Cervantes Dominguez, F. V., Almendral Nieto, D., Chernikova, T., Bargiela, R., Golyshin, P., & Ferrer, M.
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)
· 2025
František Mašek
ChemCatChem
Paula Vidal, Ana Robles‐Martín, Laura Fernandez‐Lopez, Jose L. Gonzalez‐Alfonso, David Almendral, Ruben Muñoz‐Tafalla, Francisco J. Plou, Víctor Guallar, Manuel Ferrer
Computationally guided genome rewiring of Escherichia coli and its application for nanopolyethylene terephthalate (PET) biodegradation and upcycling
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
De la Naturaleza a la Inteligencia Artificial: Diseñando la Biocatálisis del futuro
Ferrer, M., Vidal Ramon, P., Fernandez-Lopez, L., Robles Martín, A., Muñoz Tafalla, R., Gimenez Dejoz, J., Bargiela, R., & Guallar, V.
Differential effect of monoterpenes and flavonoids on the transcription of aromatic ring-hydroxylating dioxygenase genes in Rhodococcus opacus C1 and Rhodococcus sp. WAY2
Zubrova, Andrea; Tadrosová, Manuela; Semerád, Jaroslav; Cajthaml, Tomas; Pajer, Petr; Strejcek, Michal; Suman, Jachym; Uhlik, Ondrej
Embedding a feruloyl esterase active site into a thermophilic endoxylanase scaffold for the degradation of feruloylated xylans
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
Enhancing phthalate and phenol degradation in environmental bacteria via pSEVA428-ACBE3 induced random mutagenesis.
· 2025
Josep Maria Trullols Martínez
ENRICHMENT, ISOLATION AND CHARACTERIZATION OF PHARMACEUTICAL-DEGRADING BACTERIA FOR BIOFILM-MEDIATED BIOREMEDIATION IN THE ERPE RIVER HYPORHEIC ZONE
· 2025DOI
Sara Di Goia
Guild composition of rhizosphere bacteria exploitable for hydrocarbon bioremediation is driven by ecological interactions
9th European Bioremediation Conference (EBCIX)· 2025
Francesca Mapelli, Eleonora Rolli, Gabriele Capriglia, Luigi Bazzana, Elisa Ghitti, Lorenzo Vergani, Eliana Musmeci, Elena Biagi, Giulio Zanaroli, Sara Borin
Innovative Approaches to Engineer Enzymes for Plastic Recycling Solutions
Vidal P, Gimenez J, Romero S… Ferrer M
Journal of Hazardous Materials
Hairong Ma, Anna N. Khusnutdinova, Sofia Lemak, Tatyana N. Chernikova, Olga V. Golyshina, David Almendral, Manuel Ferrer, Peter N. Golyshin, Alexander F. Yakunin
Microbial community assemblies for the biodegradation of mixed hydrocarbon pollutants in industrial contaminated soil.
Musmeci E, Giovanetti L, Palladino G, Candela M, Fava F, Biagi E, Zanaroli G
Microbial electrochemistry in bioremediation
Puig, S., Bañeras, Ll., Pous, N., Balaguer, M.D. and Ceballos-Escalera, A
Mining of toluene and xylene degraders from contaminated soil
Smrhova T. ,Masek F., Suman J., Strejcek M., Rippelova V., McGachy L., Uhlik O.
Non-flavonoid root exudates shaped the plant ‘cry-for-help’ under polychlorinated biphenyl stress
9th European Bioremediation Conference (EBCIX)· 2025
Eleonora Rolli, Elisa Ghitti, Lorenzo Vergani, Francesca Mapelli, Sara Borin
Novel biocatalyst for sustainable plastic removal
Vidal P
NYMPHE Project: Eni Rewind’s bioremediation field tests
Barompriori M, Decima MA, Santoro F, Villani F
Phenol-driven cometabolic degradation of cis-1,2-dichloroethene (cDCE): insights from Acinetobacter pittii and Ectopseudomonas alcaliphila
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
Plant Growth-Promoting Bacteria for Improved Phytoremediation of Contaminated Sites
Jakubová L., Červená J., Šmrhová T., Mašek F., Šuman J., Uhlík O.
Potential of Bivalves for Bioremediation of Wastewater – Comparative Assessment of Biofiltration and Biosorption
Jesus F, Pascoal E, Sousa E, Abreu G, Mantas D, Monteiro L, Sousa M, Calisto V, Pereira JL
Removal of contaminants from wastewater using the bivalve Corbicula fluminea - Comparative assessment of biofiltration and biosorption
Jesus F, Pascoal E, Sousa EML, Mantas D, Sousa M, Vaz BMC, Gonçalves FJM, Coutinho JAP, Ventura SPM, Calisto V, Pereira JL
Synergistic Microplastic Degradation In Wastewater: How Can Electrochemical Oxidation Enhance Biodegradation?
9th World Conference of the International Society for Microbial Electrochemistry and Technology (ISMET)· 2025DOI
Ceballos-Escalera A., Pous N., Bañeras L., Balaguer MD., Puig S.
The Structural Permissiveness of Triosephosphate Isomerase (TpiA) of <i>Escherichia coli</i>
Belén Calles, Borja Pitarch, Víctor de Lorenzo
Unravelling the petroleum hydrocarbon-triggered shift in root exudation of sunflower (Helianthus annuus)
9th European Bioremediation Conference (EBCIX)· 2025
Elisa Ghitti, Eleonora Rolli, Francesca Mapelli, Gabriele Capriglia, Luigi Bazzana, Leilei Zhang, Luigi Lucini, Sara Borin
AND Logic Based on Suppressor tRNAs Enables Stringent Control of Sliding Base Editors in <i>Pseudomonas putida</i>
Elena Velázquez, Víctor de Lorenzo
Avaliação do potencial de bivalves para o tratamento de águas residuais [EN transl: Assessment of the potential of bivalves for wastewater treatment]
· 2024
Pascoal, Érica Tavares
Carlos Asensio and the dawn of molecular microbial ecology
Víctor de Lorenzo; Fernando Baquero; Alfredo Aguilar
Development of an In Situ Approach for Monitoring the Biodegradation of Emerging Contaminants in Oxic/Anoxic Conditions
· 2024DOI
Paridhi Soni
Impact of Earthworms on pesticide degrading microorganisms - Der Einfluss von Regenwürmern auf pestizidabbauende Mikroorganismen
· 2024DOI
Julika Reddig
Pavlovian‐Type Learning in Environmental Bacteria: Regulation of Herbicide Resistance by Arsenic in <scp> <i>Pseudomonas putida</i> </scp>
David Paez‐Espino; Gonzalo Durante‐Rodríguez; Elena Alonso Fernandes; Manuel Carmona; Victor de Lorenzo
Penitentiaries: Bringing microbiological literacy to the fringes of society
Víctor de Lorenzo
Pesticide and plastic degradation by soil microorganisms
S. Monogyiou, K. Karkanorachaki, E. Syranidou, P. Seridou, and N. Kalogerakis
Pollutant profile complexity governs wastewater removal of recalcitrant pharmaceuticals
Suleiman M, Le Lay N, Demaria F, Kolvenbach BA, Cretoiu MS, Petchey OL, Jousset A, Corvini PF
Polychlorinated biphenyls modify Arabidopsis root exudation pattern to accommodate degrading bacteria, showing strain and functional trait specificity
Rolli E., Ghitti E, Mapelli F., Borin S.
Pseudomonas putida as a synthetic biology chassis and a metabolic engineering platform
Martínez-García E, de Lorenzo V
Removal of antibiotic contaminants by microalgae
P. Seridou, S. Monogyiou, E. Syranidou and N. Kalogerakis
The principle of uncertainty in biology: Will machine learning/artificial intelligence lead to the end of mechanistic studies?
PLoS biology· 2024
de Lorenzo V.
Analyzing microbial communities and their biodegradation of multiple pharmaceuticals in membrane bioreactors
Marcel Suleiman, Francesca Demaria, Cristina Zimmardi, Boris Alexander Kolvenbach & Philippe François-Xavier Corvini
In Vivo Sampling of Intracellular Heterogeneity of Pseudomonas putida Enables Multiobjective Optimization of Genetic Devices
Hueso-Gil A, Calles B, de Lorenzo V.
Pressure-dependent growth controls 3D architecture of Pseudomonas putida microcolonies
Juhyun Kim, Víctor de Lorenzo, Ángel Goñi-Moreno
Sub-micro- and nano-sized polyethylene terephthalate deconstruction with engineered protein nanopores
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
Metagenomic protocols and strategies.
· 2018DOI
Bargiela R, Méndez-García C, Martínez-Martínez M, Ferrer M
Thermophilic compost bacteria as a promising approach for removal of diclofenac and related pharmaceuticals from wastewater
Water ResearchDOI
Francesca Demaria, Ramona Blattner, Chasper Puorger, Boris Kolvenbach, Mariana S Cretoiu, Timm Hettich, Philippe Corvini, Georg Lipps, Marcel Suleiman
▶Deliverables (6)
Documents, reports
Data Management Plan
Documents, reports
Websites, patent fillings, videos etc.
Documents, reports
Documents, reports
▶Other Results (1)
Periodic Reporting for period 1 - NYMPHE (New system-driven bioremediation of polluted habitats and environment)