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EmPowerPutida SIGNED

Exploiting native endowments by re-factoring, re-programming and implementing novel control loops in Pseudomonas putida for bespoke biocatalysis

Total Cost €

EC-Contrib. €

Partnership

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Outcomes and
results

EmPowerPutida project word cloud

Explore the words cloud of the EmPowerPutida project. It provides you a very rough idea of what is the project "EmPowerPutida" about.

attractive orthogonal changing structured accessible efficiency refactoring butene model thereby dna loops versatility tolerance glucose generate specialty drawing ingredients circuit protection chassis butadiene decoupled butanol putida overcoming versatile capitalises deploy factored market functions encoded szlig lactam plug synthesis strain compounds outstanding enhanced herbicide streamlined biosynthetic utilizing iso strains opening demand metabolic nature gaseous power game innovations engineering pseudomonas genome derivatives machinery bulk endowment bacterium industrially lifestyle crop secondary re matching starkly isobutanol efficacy bottlenecks route platform bde chemicals atp uncoupled regulatory concerted empowered tabtoxin huge stress engineer metabolite active starting door uncoupling

Project "EmPowerPutida" data sheet

The following table provides information about the project.

Coordinator	WAGENINGEN UNIVERSITY Organization address address: DROEVENDAALSESTEEG 4 city: WAGENINGEN postcode: 6708 PB website: http://www.wageningenur.nl/nl.htm contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.
Coordinator Country	Netherlands [NL]
Project website	http://www.empowerputida.eu
Total cost	6˙839˙673 €
EC max contribution	6˙020˙825 € (88%)
Programme	1. H2020-EU.2.1.4. (INDUSTRIAL LEADERSHIP - Leadership in enabling and industrial technologies – Biotechnology)
Code Call	H2020-LEIT-BIO-2014-1
Funding Scheme	RIA
Starting year	2015
Duration (year-month-day)	from 2015-05-01 to 2019-04-30

Partnership

Take a look of project's partnership.

#	participants	country	role	EC contrib. [€]
1	WAGENINGEN UNIVERSITY WAGENINGEN UNIVERSITY Organization address address: DROEVENDAALSESTEEG 4 city: WAGENINGEN postcode: 6708 PB website: http://www.wageningenur.nl/nl.htm contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NL (WAGENINGEN)	coordinator	1˙357˙753.00
2	UNIVERSITAET STUTTGART UNIVERSITAET STUTTGART Organization address address: KEPLERSTRASSE 7 city: STUTTGART postcode: 70174 website: www.uni-stuttgart.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (STUTTGART)	participant	1˙348˙266.00
3	AGENCIA ESTATAL CONSEJO SUPERIOR DEINVESTIGACIONES CIENTIFICAS AGENCIA ESTATAL CONSEJO SUPERIOR DEINVESTIGACIONES CIENTIFICAS Organization address address: CALLE SERRANO 117 city: MADRID postcode: 28006 website: http://www.csic.es contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	ES (MADRID)	participant	721˙875.00
4	UNIVERSIDADE NOVA DE LISBOA UNIVERSIDADE NOVA DE LISBOA Organization address address: CAMPUS DE CAMPOLIDE city: LISBOA postcode: 1099 085 website: n.a. contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	PT (LISBOA)	participant	621˙250.00
5	INGENZA LIMITED INGENZA LIMITED Organization address address: WALLACE BUILDING ROSLIN BIOCENTRE city: ROSLIN postcode: EH25 9PP website: www.ingenza.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	UK (ROSLIN)	participant	614˙500.00
6	BASF SE BASF SE Organization address address: CARL BOSCH STRASSE 38 city: LUDWIGSHAFEN AM RHEIN postcode: 67063 website: www.basf.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (LUDWIGSHAFEN AM RHEIN)	participant	592˙212.00
7	LIFEGLIMMER GMBH LIFEGLIMMER GMBH Organization address address: MARKELSTRASSE 38 city: BERLIN postcode: 12163 website: www.lifeglimmer.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (BERLIN)	participant	581˙750.00
8	ABENGOA RESEARCH SL ABENGOA RESEARCH SL Organization address address: CALLE ENERGIA SOLAR 1 - CAMPUS PALMAS ALTAS SECT SUNP GU I PARCELA ZE 3 city: SEVILLA postcode: 41014 website: www.abengoa.es contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	ES (SEVILLA)	participant	128˙217.00
9	LUCITE INTERNATIONAL UK LIMITED LUCITE INTERNATIONAL UK LIMITED Organization address address: CASSEL WORKS NEW ROAD city: BILLINGHAM postcode: TS23 1LE website: http://www.luciteinternational.com/ contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	UK (BILLINGHAM)	participant	55˙000.00
10	EIDGENOESSISCHE TECHNISCHE HOCHSCHULE ZUERICH EIDGENOESSISCHE TECHNISCHE HOCHSCHULE ZUERICH Organization address address: Raemistrasse 101 city: ZUERICH postcode: 8092 website: https://www.ethz.ch/de.html contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	CH (ZUERICH)	participant	0.00
11	INSTITUTO DE TECNOLOGIA QUIMICA E BIOLOGICA - UNIVERSIDADE NOVA DE LISBOA INSTITUTO DE TECNOLOGIA QUIMICA E BIOLOGICA - UNIVERSIDADE NOVA DE LISBOA Organization address address: Avenida da Republica, Estacao Agronomica Nacional city: OEIRAS postcode: 2784-505 website: n.a. contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	PT (OEIRAS)	participant	0.00

Map

Project objective

We aim to engineer the lifestyle of Pseudomonas putida to generate a tailored, re-factored chassis with highly attractive new-to-nature properties, thereby opening the door to the production of thus far non-accessible compounds. This industrially driven project capitalises on the outstanding metabolic endowment and stress tolerance capabilities of this versatile bacterium for the production of specialty and bulk chemicals. Specifically, we will build streamlined P. putida strains with improved ATP availability utilizing this power on demand, decoupled from growth. The well-characterized, streamlined and re-factored strain platform will offer easy-to-use plug-in opportunities for novel, DNA-encoded functions under the control of orthogonal regulatory systems. To this end, we will deploy a concerted approach of genome refactoring, model-driven circuit design, implementation of ATP control loops, structured modelling and metabolic engineering. By drawing on a starkly improved, growth-uncoupled ATP-biosynthetic machinery, empowered P. putida strains will be able to produce a) n-butanol and isobutanol and their challenging gaseous derivatives 1-butene (BE) and (iso-)butadiene (BDE) using a novel, new-to-nature route starting from glucose, as well as b) new active ingredients for crop protection, such as tabtoxin, a high-value, ß-lactam-based secondary metabolite with a huge potential as a new herbicide. The game-changing innovations brought in – in particular the uncoupling of ATP-synthesis and production from growth - will provide strong versatility, enhanced efficiency and efficacy to the production processes, thereby overcoming current bottlenecks, matching market needs and fostering high-level research growth and development.

Deliverables

List of deliverables.
SOPs	Websites, patent fillings, videos etc.	2019-09-05 12:41:46
Short-chain alcohols-resistant Pseudomonas strains	Demonstrators, pilots, prototypes	2019-04-25 16:30:28
Genome Edited P. Putida	Demonstrators, pilots, prototypes	2019-04-25 16:30:28
Public Dialogue	Websites, patent fillings, videos etc.	2019-09-05 12:41:41
(post-)Transcriptional genetic devices	Demonstrators, pilots, prototypes	2019-04-25 16:30:28
sRNA regulators for post-transcriptional control	Documents, reports	2019-04-25 16:30:27
Website & communication pipeline	Websites, patent fillings, videos etc.	2019-04-25 16:30:27

Take a look to the deliverables list in detail: detailed list of EmPowerPutida deliverables.

Publications

List of publications.
year	authors and title	journal	last update
2019	Linde F. C. Kampers, Ruben G. A. van Heck, Stefano Donati, Edoardo Saccenti, Rita J. M. Volkers, Peter J. Schaap, Maria Suarez-Diez, Pablo I. Nikel, Vitor A. P. Martins dos Santos In silico-guided engineering of Pseudomonas putida towards growth under micro-oxic conditions published pages: , ISSN: 1475-2859, DOI: 10.1186/s12934-019-1227-5	Microbial Cell Factories 18/1	2019-11-14
2018	Erno Lindfors, Jesse C. J. van Dam, Carolyn Ming Chi Lam, Niels A. Zondervan, Vitor A. P. Martins dos Santos, Maria Suarez-Diez SyNDI: synchronous network data integration framework published pages: , ISSN: 1471-2105, DOI: 10.1186/s12859-018-2426-5	BMC Bioinformatics 19/1	2019-11-14
2019	Sanjeevan Jahagirdar, Maria Suarez-Diez, Edoardo Saccenti Simulation and Reconstruction of Metaboliteâ€“Metabolite Association Networks Using a Metabolic Dynamic Model and Correlation Based Algorithms published pages: 1099-1113, ISSN: 1535-3893, DOI: 10.1021/acs.jproteome.8b00781	Journal of Proteome Research 18/3	2019-11-14
2019	Linde F. C. Kampers, Rita J. M. Volkers, Vitor A. P. Martins dos Santos Pseudomonas putida KT 2440 is HV 1 certified, not GRAS published pages: , ISSN: 1751-7915, DOI: 10.1111/1751-7915.13443	Microbial Biotechnology	2019-08-29
2019	Nhung Pham, Ruben van Heck, Jesse van Dam, Peter Schaap, Edoardo Saccenti, Maria Suarez-Diez Consistency, Inconsistency, and Ambiguity of Metabolite Names in Biochemical Databases Used for Genome-Scale Metabolic Modelling published pages: 28, ISSN: 2218-1989, DOI: 10.3390/metabo9020028	Metabolites 9/2	2019-08-29
2016	Jasper J. Koehorst, Edoardo Saccenti, Peter J. Schaap, Vitor A. P. Martins dos Santos, Maria Suarez-Diez Protein domain architectures provide a fast, efficient and scalable alternative to sequence-based methods for comparative functional genomics published pages: 1987, ISSN: 2046-1402, DOI: 10.12688/f1000research.9416.3	F1000Research 5	2019-06-04
2018	Rebecca M. Demming, Stephan C. Hammer, Bettina M. Nestl, Sebastian Gergel, Silvia Fademrecht, JÃ¼rgen Pleiss, Bernhard Hauer Asymmetric Enzymatic Hydration of Unactivated, Aliphatic Alkenes published pages: , ISSN: 1433-7851, DOI: 10.1002/anie.201810005	Angewandte Chemie International Edition	2019-04-25
2016	David R. Espeso, Esteban MartÃnez-GarcÃa, VÃctor de Lorenzo, Ãngel GoÃ±i-Moreno Physical Forces Shape Group Identity of Swimming Pseudomonas putida Cells published pages: , ISSN: 1664-302X, DOI: 10.3389/fmicb.2016.01437	Frontiers in Microbiology 7	2019-06-04
2016	TomÃ¡s Aparicio, Sheila I. Jensen, Alex T. Nielsen, Victor de Lorenzo, Esteban MartÃnez-GarcÃa The Ssr protein (T1E_1405) from Pseudomonas putida DOT-T1E enables oligonucleotide-based recombineering in platform strain P. putida EM42 published pages: 1309-1319, ISSN: 1860-6768, DOI: 10.1002/biot.201600317	Biotechnology Journal 11/10	2019-06-04
2016	Esteban MartÃnez-GarcÃa, VÃctor de Lorenzo The quest for the minimal bacterial genome published pages: 216-224, ISSN: 0958-1669, DOI: 10.1016/j.copbio.2016.09.001	Current Opinion in Biotechnology 42	2019-06-04
2016	Markus Schmidt, VÃctor de Lorenzo Synthetic bugs on the loose: containment options for deeply engineered (micro)organisms published pages: 90-96, ISSN: 0958-1669, DOI: 10.1016/j.copbio.2016.01.006	Current Opinion in Biotechnology 38	2019-06-04
2016	Ilaria Benedetti, Pablo I. Nikel, VÃctor de Lorenzo Data on the standardization of a cyclohexanone-responsive expression system for Gram-negative bacteria published pages: 738-744, ISSN: 2352-3409, DOI: 10.1016/j.dib.2016.01.022	Data in Brief 6	2019-06-04
2016	Pablo I. Nikel, Danilo PÃ©rez-Pantoja, VÃctor de Lorenzo Pyridine nucleotide transhydrogenases enable redox balance of Pseudomonas putida during biodegradation of aromatic compounds published pages: 3565-3582, ISSN: 1462-2912, DOI: 10.1111/1462-2920.13434	Environmental Microbiology 18/10	2019-06-04
2016	Aitor de las Heras, Esteban MartÃnez-GarcÃa, Maria Rosa Domingo-Sananes, Sofia Fraile, VÃctor de Lorenzo Rationally rewiring the connectivity of the XylR/Pu regulatory node of the m-xylene degradation pathway in Pseudomonas putida published pages: 571-576, ISSN: 1757-9694, DOI: 10.1039/C5IB00310E	Integr. Biol. 8/4	2019-06-04
2017	Rebecca M. Demming, Konrad B. Otte, Bettina M. Nestl, Bernhard Hauer Inside Cover: Optimized Reaction Conditions Enable the Hydration of Non-natural Substrates by the Oleate Hydratase from Elizabethkingia meningoseptica (ChemCatChem 5/2017) published pages: 716-716, ISSN: 1867-3880, DOI: 10.1002/cctc.201700258	ChemCatChem 9/5	2019-06-04
2017	Rebecca M. Demming, Konrad B. Otte, Bettina M. Nestl, Bernhard Hauer Optimized Reaction Conditions Enable the Hydration of Non-natural Substrates by the Oleate Hydratase from Elizabethkingia meningoseptica published pages: 758-766, ISSN: 1867-3880, DOI: 10.1002/cctc.201601329	ChemCatChem 9/5	2019-06-04
2016	VÃctor de Lorenzo, Philippe MarliÃ¨re, Ricard SolÃ© Bioremediation at a global scale: from the test tube to planet Earth published pages: 618-625, ISSN: 1751-7915, DOI: 10.1111/1751-7915.12399	Microbial Biotechnology 9/5	2019-06-04
2017	Bettina M Nestl, Christopher Geinitz, Stephanie Popa, Sari Rizek, Robert J Haselbeck, Rosary Stephen, Michael A Noble, Max-Philipp Fischer, Erik C Ralph, Hoi Ting Hau, Henry Man, Muhiadin Omar, Johan P Turkenburg, Stephen van Dien, Stephanie J Culler, Gideon Grogan, Bernhard Hauer Structural and functional insights into asymmetric enzymatic dehydration of alkenols published pages: 275-281, ISSN: 1552-4450, DOI: 10.1038/nchembio.2271	Nature Chemical Biology 13/3	2019-06-04
2015	RaÃºl Guantes, Ilaria Benedetti, Rafael Silva-Rocha, VÃctor de Lorenzo Transcription factor levels enable metabolic diversification of single cells of environmental bacteria published pages: 1122-1133, ISSN: 1751-7362, DOI: 10.1038/ismej.2015.193	The ISME Journal 10/5	2019-06-04
2016	Alejandro Arce-RodrÃguez, BelÃ©n Calles, Pablo I. Nikel, VÃctor de Lorenzo The RNA chaperone Hfq enables the environmental stress tolerance super-phenotype of P seudomonas putida published pages: 3309-3326, ISSN: 1462-2912, DOI: 10.1111/1462-2920.13052	Environmental Microbiology 18/10	2019-04-25
2016	Juhyun Kim, Danilo PÃ©rez-Pantoja, Rafael Silva-Rocha, Juan Carlos Oliveros, VÃctor de Lorenzo High-resolution analysis of the m -xylene/toluene biodegradation subtranscriptome of P seudomonas putida mt-2 published pages: 3327-3341, ISSN: 1462-2912, DOI: 10.1111/1462-2920.13054	Environmental Microbiology 18/10	2019-06-04
2016	Ilaria Benedetti, VÃctor de Lorenzo, Pablo I. Nikel Genetic programming of catalytic Pseudomonas putida biofilms for boosting biodegradation of haloalkanes published pages: 109-118, ISSN: 1096-7176, DOI: 10.1016/j.ymben.2015.11.004	Metabolic Engineering 33	2019-06-04

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