Plastic waste as a novel substrate for Industrial Biotechnology

In: Microbial Biotechnology, 2015, 8, Thematic Issue: Fungal Biotechnology, 900–903

Development of synthetic biology tools for Pseudomonas putida

In: Apprimus Verlag, Applied Microbiology Volume 23

ISBN: 9783863598990

Phasin interactome reveals the interplay of PhaF with the polyhydroxyalkanoate transcriptional regulatory protein PhaD in Pseudomonas putida

In: Environmental Microbiology

Biocatalytic recycling of polyethylene terephthalate plastic

In: Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences

Characterization of Context-Dependent Effects on Synthetic Promoters

In: Frontiers in Bioengineering and Biotechnology (2020), 8(551)

ISBN: 22964185

Engineered PQQ-Dependent Alcohol Dehydrogenase for the Oxidation of 5-(Hydroxymethyl)furoic Acid

  • Matthias Wehrmann
  • Eslam M. Elsayed
  • Laura Bendz
  • Alexander Lepak
  • Johannes Schwabe
  • Gert Bange
  • Janosch Klebensberger
  • Dr. Nick Wierckx
  • Sebastian Köbbing

In: ACS Catalysis

ISBN: 21555435

Dissecting the Polyhydroxyalkanoate-Binding Domain of the PhaF Phasin: Rational Design of a Minimized Affinity Tag

  • Aranzazu Mato
  • Francisco G. Blanco
  • Beatriz Maestro
  • Jesús M. Sanz
  • Jesús Pérez-Gil
  • M. Auxiliadora Prieto

In: Applied and Environmental Microbiology, 10.1128/AEM.00570-20

ISBN: 00992240

A quantitative method for proteome reallocation using minimal regulatory interventions

In: Nature Chemical Biology, 16(3):1026-1033

ISBN: 15524450

Toward Biorecycling: Isolation of a Soil Bacterium That Grows on a Polyurethane Oligomer and Monomer

In: Frontiers in Microbiolology

Bio-upcycling of polyethylene terephthalate

In: Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, USA

Unraveling 1,4-Butanediol Metabolism in Pseudomonas putida KT2440

In: Frontiers in microbiology 11, 382

Exploiting the Natural Diversity of RhlA Acyltransferases for the Synthesis of the Rhamnolipid Precursor 3-(3-Hydroxyalkanoyloxy)Alkanoic Acid

  • Andrea Germer
  • Conrad Müller
  • Beate Behrens
  • Christian Vosse
  • Karen Scholz
  • Matti Froning
  • Heiko Hayen
  • Prof. Lars M. Blank
  • Till Tiso

In: Applied and Environmental Microbiology

ISBN: 00992240

Conformational fitting of a flexible oligomeric substrate does not explain the enzymatic PET degradation

In: Nature Communications 2019, 10(5581)

ISBN: 20411723

Laboratory evolution reveals the metabolic and regulatory basis of ethylene glycol metabolism by Pseudomonas putida KT2440

In: Environmental Microbiology, Volume 21, Issue 10 October 2019

Biocatalytic Degradation Efficiency of Postconsumer Polyethylene Terephthalate Packaging Determined by Their Polymer Microstructures

In: Advanced Science 2019, 6(1900491)

ISBN: 21983844

Structure of the plastic-degrading Ideonella sakaiensis MHETase bound to a substrate

  • Gottfried J. Palm
  • Lukas Reisky
  • Dominique Böttcher
  • Henrik Müller
  • Emil A.P. Michels
  • Miriam C. Walczak
  • Leona Berndt
  • Manfred S. Weiss
  • Uwe T. Bornscheuer
  • Gert Weber
  • Audrey Magnin

In: nature communications

Quantification of outer membrane vesicles: a potential tool to compare response in Pseudomonas putida KT2440 to stress caused by alkanols

In: Applied Microbiology and Biotechnology

Insights into an alternative pathway for glycerol metabolism in a glycerol kinase deficient Pseudomonas putida KT2440

In: bioRxiv, 10.1101/567230

Fast turbidimetric assay for analyzing the enzymatic hydrolysis of polyethylene terephthalate model substrates

In: Biotechnology Journal, Wiley - VCH Verlag GmbH & CO. KGaA

ISBN: 18606768

Engineering Translational Resource Allocation Controllers: Mechanistic Models, Design Guidelines, and Potential Biological Implementations

In: ACS Synthetic Biology

ISBN: 21615063

Biodegradable Plastic Blends Create New Possibilities for End-of-Life Management of Plastics but They Are Not a Panacea for Plastic Pollution

In: Environmental Science & Technology 2018 52 (18), 10441-10452

Engineering Pseudomonas putida KT2440 for efficient ethylene glycol utilization

  • Mary Ann Franden
  • Lahiru N. Jayakody
  • Neil J. Wagner
  • Nicholas S. Cleveland
  • William E. Michener
  • Bernhard Hauer
  • Janosch Klebensberger
  • Gregg T. Beckham
  • Dr. Nick Wierckx
  • Prof. Lars M. Blank
  • Wing-Jin Li

In: Metabolic Engineering, Volume 48, 197-207

ISBN: 10967176

Prospects for harnessing biocide resistance for bioremediation and detoxification

In: Science Vol. 360, Issue 6390, pp. 743-746

ISBN: 00368075

Immediate response mechanisms of Gram-negative solvent-tolerant bacteria to cope with environmental stress: cis-trans isomerization of unsaturated fatty acids and outer membrane vesicle secretion

In: Applied Microbiology and Biotechnology

ISBN: 01757598

Immediate response mechanisms of Gram-negative solvent tolerant bacteria to cope with environmental stress: cis-trans isomerization of unsaturated fatty acids and outer membrane vesicle secretion

In: Applied Microbiology and Biotechnology

Dynamic allocation of orthogonal ribosomes facilitates uncoupling of co-expressed genes

  • Alexander P. S. Darlington
  • Juhyun Kim
  • Declan G. Bates
  • Dr. Jose Jimenez

In: Nature Communications

ISBN: 20411723

Designer rhamnolipids by reduction of congener diversity: production and characterization

  • Rabea Zauter
  • Hannah Tulke
  • Bernd Leuchtle
  • Beate Behrens
  • Andreas Wittgens
  • Frank Rosenau
  • Heiko Hayen
  • Prof. Lars M. Blank
  • Till Tiso
  • Wing-Jin Li

In: Microbial Cell Factories 16:225

ISBN: 14752859

Regulation of solvent tolerance in Pseudomonas putida S12 mediated by mobile elements

In: Microbial Biotechnology (2017)

ISBN: 17517915

Cooperation in microbial communities and their biotechnological applications

  • Dr. Matteo Cavaliere
  • Dr. Song Feng
  • Prof. Dr. Orkun Soyer
  • Dr. Jose Jimenez

In: Environmental Microbiology 19(8), 2949-2963

ISBN: 14622920

About how to capture and exploit the CO2 surplus that nature, per se, is not capable of fixing

In: Microbial Biotechnology Volume 10, Issue 5

ISBN: 17517915

Microbial biotechnology addressing the plastic waste disaster

In: Microbial Biotechnology 2017

ISBN: 17517915

Let´s talk about flux or the importance of (intracellular) reaction rates

In: Microbial Biotechnology Vol. 10.1 2017 (p. 28 - 30)

Rhamnolipids: Production, Performance, and Application

  • Dr. Stephan Thies
  • Michaela Müller
  • MSc Lora Tsvetanova
  • Dr. Laura Carraresi
  • Prof. Dr. Stefanie Bröring
  • Prof. Dr. Karl-Erich Jaeger
  • Prof. Lars M. Blank
  • Till Tiso

In: Handbook of Hydrocarbon and Lipid Microbiology, Springer International Publishing, 2017

ISBN: 9783319314211

Microbial enzymes for the recycling of recalcitrant petroleum-based plastics: how far are we?

In: Microbial Biotechnology Vol. 10, 2017 (p.15)

ISBN: 17517915

Biocatalysis as a green route for recycling the recalcitrant plastic polyethylene terephthalate

In: Microbial Biotechnology Vol.10, 2017 (p.6)

ISBN: 17517915

Biogenesis of Medium-Chain-Length Polyhydroxyalkanoates

In: Biogenesis of Fatty Acids, Lipids and Membranes, p. 1 - 25

ISBN: 9783319436760

Shedding light on the black box models of the cell

In: Microbial Biotechnology (January 2017), 43 - 45

ISBN: 17517915

Properties of alternative microbial hosts used in synthetic biology: towards the design of a modular chassis

In: Portland Press (2016)

Interim report on scientific dissemination and exploitation of results incl. risk assessment, ethical, societal, and intellectual property aspects

In: Deliverable D8.4 (public report)

To be, or not to be biodegradable... that is the question for the bio-based plastics

In: Microbial Biotechnology (2016), 9 (5), 652 – 657

Recycling of poly(ethylene terephthalate) – A review focusing on chemical methods

  • Björn Geyer
  • Prof. Dr. Günter Lorenz
  • Prof. Dr. Andreas Kandelbauer

In: eXPRESS Polymer Letters Vol.10, No.7 (2016) 559–586

Microplastics profile along the Rhine River

  • Thomas Mani
  • Armin Hauk
  • Ulrich Walter
  • Patricia Burkhardt-Holm

In: Scientific Reports

Initial Data Management Plan

In: Deliverable D8.3 (public report)

Prospects for microbiological solutions to environmental pollution with plastics

  • Martin C. Krueger
  • Hauke Harms
  • Dietmar Schlosser

In: Appl Microbiol Biotechnol (2015)

Isocost Lines Describe the Cellular Economy of Genetic Circuits

  • Andras Gyorgy
  • John Yazbek
  • Hsin-Ho Huang
  • Hattie Chung
  • Ron Weiss
  • Domitilla Del Vecchio
  • Dr. Jose Jimenez

In: Biophysical Journal

Enzymatic hydrolysis of polyethylene terephthalate films in an ultrafiltration membrane reactor

In: Journal of Membrane Science 194:182–187

Tn7-Based Device for Calibrated Heterologous Gene Expression in Pseudomonas putida

In: ACS Synth. Biol., 2015, 4 (12), pp. 1341–1351

Phenotypic knockouts of selected metabolic pathways by targeting enzymes with camel derived nanobodies (VHHs)

In: Metab. Eng. 30:40-48.

Non-pathogenic Pseudomonas as platform for industrial biocatalysis.

In: Industrial Biocatalysis. Peter Grunwald (ed.)

ISBN: 9789814463881

Project overview presentation

In: Presentation

Smart polyhydroxyalkanoate nanobeads by protein based functionalization

In: Nanomedicine: Nanotechnology, Biology, and Medicine, Vol. 11 (4)

A synthetic tunable amplifying genetic circuit in E. coli

  • Kayzad Soli Nilgiriwala
  • Phillip Michael Rivera
  • Domitilla Del Vecchio
  • Dr. Jose Jimenez

In: ACS Synth. Biol. 4(5):577-84

Ca2+ and Mg2+ binding site engineering increases the degradation of polyethylene terephthalate films by polyester hydrolases from Thermobifida fusca

In: Biotechnology Journal 10:592–598

Effect of hydrolysis products on the enzymatic degradation of polyethylene terephthalate nanoparticles by a polyester hydrolase from Thermobifida fusca

In: Biochemical Engineering Journal 93:222-228

A holistic view of polyhydroxyalkanoate metabolism in Pseudomonas putida

  • Isabel F. Escapa
  • Virginia Martínez
  • Nina Dinjaski
  • Cristina Herencias
  • Fernando de la Peña
  • Natalia Tarazona
  • Olga Revelles
  • Dr. M. Auxiliadora Prieto

In: Environmental Microbiology

Structural and functional studies on a thermostable polyethylene terephthalate degrading hydrolase from Thermobifida fusca

In: Applied Microbiology and Biotechnology 98:7815-7823

Enzymatic surface treatment of poly (3-hydroxybutyrate) (PHB), and poly (3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV)

In: Journal of Chemical Technology & Biotechnology

Synthetic polyester-hydrolyzing enzymes from thermophilic actinomycetes

In: Advances in Applied Microbiology 89:267-305

Near-Infrared fluorescence imaging as an alternative to bioluminescent bacteria to monitor biomaterial-associated infections

In: Acta Biomaterialia, Vol. 10 (7)

A second chromosomal copy of the catA gene endows Pseudomonas putida mt-2 with an enzymatic safety valve for excess of catechol

  • D. Pérez-Pantoja
  • M. Chavarría
  • E. Díaz
  • V. de Lorenzo
  • Dr. Jose Jimenez

In: Environ. Microbiol. 16(6):1767-78

Functional characterization and structural modeling of synthetic polyester-degrading hydrolases from Thermomonospora curvata

In: AMB Express 4:44

Turbidimetric analysis of the enzymatic hydrolysis of polyethylene terephthalate nanoparticles

In: Journal of Molecular Catalysis B: Enzymatic 103:72-78

Conversion of post consumer polyethylene to the biodegradable polymer polyhydroxyalkanoate

In: Applied microbiology and biotechnology 98; 4223-4232

PHACOS, a functionalized bacterial polyester with bactericidal activity against methicillin-resistant Staphylococcus aureus

  • Nina Dinjaski
  • Mar Fernández-Gutiérrez
  • Shivaram Selvam
  • Francisco J. Parra-Ruiz
  • Susan M. Lehman
  • Julio San Román
  • Ernesto García
  • José L. García
  • Andrés J. García
  • Dr. M. Auxiliadora Prieto

In: Biomaterials, Vol. 35 (1)

Resource-efficient Ireland – Biodegradable Plastic from Farm-waste Plastic

In: EPA STRIVE report

ISBN: 9781840954913

Swapping of phasin modules to optimize the in vivo immobilization of proteins to medium-chain-length polyhydroxyalkanoate granules in Pseudomonas putida

In: Biomacromolecules, Vol. 14 (9)


In: Reactive and Functional Polymers 73:1327

Aerobic degradation of aromatic compounds

In: Curr. Opin. Biotechnol. 24:1-12

Conversion of waste resources to biodegradable polymers

In: Advances in Applied Microbiology Vol 84

ISBN: 00652164

Current progress on biobased polymers and their future trends.

In: Progress in Biomaterials. 2:8

Second-generation functionalized medium chain length polyhydroxyalkanoates: the gateway to high-value bioplastic applications

In: International Microbiology, Vol. 16

The role of GlpR repressor in Pseudomonas putida KT2440 growth and PHA production from glycerol.

In: Environmental Microbiology, Vol. 15 (1)

Genome-wide transcriptional response of Fusarium graminearum to plant cell wall substrates

In: FEMS Microbiology Letters, 340, 129-134

Engineering of solvent-tolerant Pseudomonas putida S12 for bioproduction of phenol from glucose

In: Appl. Environ. Microbiol., Vol. 71

A high-throughput assay for enzymatic polyester hydrolysis activity by fluorimetric detection

In: Biotechnology Journal 7:1517–1521

Development of a bioprocess to convert PET derived terephthalic acid and biodiesel derived glycerol to medium chain length polyhydroxyalkanoate

In: Applied Microbiology and Biotechnology. 95(3):623-633

Membrane vesicle formation as multiple stress response mechanism enhances cell surface hydrophobicity and biofilm formation of Pseudomonas putida DOT-T1E

In: Appl. Environ. Microbiol. 78:6217-6224

The polyhydroxyalkanoate metabolism controls carbon and energy spillage in Pseudomonas putida

In: Environmental Microbiology, Vol. 14 (4)

The metabolic response of P. putida KT2442 producing high levels of polyhydroxyalkanoate under single- and multiple-nutrient-limited growth: Highlights from a multi-level omics approach

In: Microbial Cell Factories, Vol. 11

Alkanols and chlorophenols cause different physiological adaptive responses on the level of cell surface properties and membrane vesicle formation in Pseudomonas putida DOT-T1E

  • Thomas Baumgarten
  • José Vazquez
  • Christian Bastisch
  • Wilfried Veron
  • Marc G. J. Feuilloley
  • Sandor Nietzsche
  • Lukas Y. Wick
  • Dr. Hermann J. Heipieper

In: Appl. Microbiol. Biotechnol. 93:837-845

Process analysis of the conversion of styrene to biomass and medium chain length polyhydroxyalkanoate (mcl-PHA) in a two-phase bioreactor

In: Biotechnology and bioengineering 108:2447-2455

Medium chain length polyhydroxyalkanoate production by newly isolated Pseudomonas sp. TN301 from a wide range of poly- and monoaromatic hydrocarbons

In: J. Appl Microbiol 113:508-520

Growth independent rhamnolipid production from glucose using the non-pathogenic Pseudomonas putida

  • Andreas Wittgens
  • Torsten T Arndt
  • Pamela Wenk
  • Johannes Hemmerich
  • Carsten Müller
  • Rolf Wichmann
  • Benjamin Küpper
  • Michaela Zwick
  • Susanne Wilhelm
  • Rudolf Hausmann
  • Christoph Syldatk
  • Frank Rosenau
  • Prof. Lars M. Blank
  • Till Tiso

In: KT2440 Microbial Cell Factories , Vol. 10

A finely tuned regulatory circuit of the nicotinic acid degradation pathway in Pseudomonas putida

In: Environ. Microbiol. 13(7):1718-32

Enzymatic surface hydrolysis of PET: effect of structural diversity on kinetic properties of cutinases from Thermobifida

In: Macromolecules 44:4632–4640

Disruption of β-oxidation pathway in Pseudomonas putida KT2442 to produce new functionalized PHAs with thioester groups

In: Applied Microbiology and Biotechnology, Vol. 89 (5)

Hydrolysis of cutin by PET-hydrolases

In: Macromolecular Symposia 296:342–346

Enzymes for the biofunctionalization of poly(ethylene terephthalate)

In: Advances in Biochemical Engineering/Biotechnology 125:97-120

Hydrolysis of cyclic poly(ethylene terephthalate) trimers by a carboxylesterase from Thermobifida fusca KW3

In: Applied Microbiology and Biotechnology 87:1753-1764

Biochemical characterization of the cutinases from Thermobifida fusca

In: Journal of Molecular Catalysis B: Enzymatic 63:121-127

High level expression of a hydrophobic poly(ethylene terephthalate)-hydrolyzing carboxylesterase from Thermobifida fusca KW3 in Escherichia coli BL21(DE3)

In: Journal of Biotechnology 146:100-104

A preliminary crystallographic study of recombinant NicX, an Fe(2+)-dependent 2,5-dihydroxypyridine dioxygenase from Pseudomonas putida KT2440

  • Iván Acebrón
  • José Luis García
  • Eduardo Díaz
  • José Miguel Mancheño
  • Dr. Jose Jimenez

In: Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 66(Pt 5):549-53

Metabolic flux analysis of a phenol producing mutant of Pseudomonas putida

In: Journal of Biotechnology , Vol. 143

Molecular basis of arabinobio-hydrolase activity in phytopathogenic fungi. Crystal structure and catalytic mechanism of Fusarium graminearum GH93 EXO-alpha-L-arabinanase

In: J. Biol. Chem. 284, 12285-12296.

Efficient hydrolysis of hemicellulose by a Fusarium graminearum xylanase blend produced at high levels in Escherichia coli

In: Bioresource Technology. 100, 845-850.

Up-Cycling of PET (Polyethylene Terephthalate) to the Biodegradable Plastic PHA (Polyhydroxyalkanoate)

In: Environ. Sci. Technol. 42:7696–7701

Deciphering the genetic determinants for aerobic nicotinic acid degradation: The nic cluster from Pseudomonas putida KT2440

  • Ángeles Canales
  • Jesús Jiménez-Barbero
  • Krzysztof Ginalski
  • Leszek Rychlewski
  • José L. García
  • Eduardo Díaz
  • Dr. Jose Jimenez

In: PNAS. 105(32):11329-34

Gene expression in Fusarium graminearum grown on plant cell wall.

In: Fungal Genet. Biol. 45, 738-748

Transcriptome analysis of a phenol producing Pseudomonas putida

  • Hendrik Ballerstedt
  • Jan A. M. de Bont
  • Johannes H. de Winde
  • Harald J. Ruijssenaars
  • Jan Wery
  • Dr. Nick Wierckx

In: J. Bacteriol., Vol. 190

Biocatalytic surface modification of knitted fabrics made of poly(ethylene terephthalate) with hydrolytic enzymes from Thermobifida fusca KW3b

In: Biocatalysis and Biotransformation, 26:357-364

Improvement of the conversion of polystyrene to polyhydroxyalkanoate through the manipulation of the microbial aspect of the process: A nitrogen feeding strategy for bacterial cells in a stirred tank reactor

In: J. Biotechnology. 132:283-286

Solvent-tolerant bacteria for biotransformations in two-phase fermentation systems

In: Appl. Microbiol. Biotechnol. 74:961-973

Fusarium graminearum on plant cell wall: no fewer than 30 xylanase genes transcribed

In: Biochem. Biophys. Res. Comm. 345, 959-966.

Energetics and surface properties of Pseudomonas putida DOT-T1E in a two-phase fermentation system with 1-decanol as second phase

In: Appl. Environ. Microbiol. 72:4232-4238

A two step chemo-biotechnological conversion of polystyrene to a biodegradable thermoplastic

In: Environmental Science and Technology. 40:2433-2437

Growth-phase dependent expression of the Pseudomonas putida KT2440 transcriptional machinery throughout the growth phase analyzed by means of a genome-wide microarray

  • Luis Yuste
  • Ana B. Hervás
  • Inés Canosa
  • Raquel Tobes
  • Juan Nogales
  • Manuel M. Pérez‐Pérez
  • Eduardo Santero
  • Juan‐Luis Ramos
  • Víctor De Lorenzo
  • Fernando Rojo
  • Dr. Jose Jimenez

In: Environ. Microbiol. 8(1):165-177

Diversity of the exoproteome of Fusarium graminearum grown on plant cell wall

  • François Delalande
  • Christine Carapito
  • Florence Goubet
  • Didier Hatsch
  • Emmanuelle Leize-Wagner
  • Paul Dupree
  • Alain Van Dorsselaer
  • Jean-Marc Jeltsch
  • Prof. Vincent Phalip

In: Curr. Genet. 48, 366-379.

Prediction of the adaptability of Pseudomonas putida DOT-T1E to a second phase of a solvent for economically sound two-phase biotransformations

In: Appl. Environ. Microbiol. 71: 6606-6612

Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440

In: Environ. Microbiol. 4(12):824-841

Mechanisms of resistance of whole cells to toxic organic solvents

In: Trends Biotechnol. 12:409-415

Conversion of cis unsaturated fatty acids to trans, a possible mechanism for the protection of phenol-degrading Pseudomonas putida P8 from substrate toxicity

In: Appl. Environ. Microbiol. 58:1847-1852

Plastic Biodegradation: Challenges and Opportunities

In: Handbook of Hydrocarbon and Lipid Microbiology

ISBN: 9783319445359

Isolation and characterization of different promising fungi for biological waste management of polyurethanes

In: Microbial Biotechnology, p. 1-12

Interfacial Activity of Phasin PhaF from Pseudomonas putida KT2440 at Hydrophobic–Hydrophilic Biointerfaces

In: Langmuir 35/3, 678–686

ISBN: 07437463

Role of leucine zipper-like motifs in the oligomerization of Pseudomonas putida phasins

In: Biochimica et Biophysica Acta (BBA) - General Subjects, 1863/2, 362-370

ISBN: 03044165

Molecular Insights into the Physical Adsorption of Amphiphilic Protein PhaF onto Copolyester Surfaces

In: Biomacromolecules

ISBN: 15257797

Microbial Genes for a Circular and Sustainable Bio-PET Economy

In: Genes

ISBN: 20734425