Model-Based Construction And Optimisation Of Versatile Chassis Yeast Strains For Production Of Valuable Lipid And Aromatic Compounds

Risultati finali

Technological fact sheets on CHASSY strains

NOVA will produce a technological fact sheet of the chassis yeasts developed in this project. This will be used to inform specific SMEs identified by CHASSY as potential lead users of CHASSY technology and platform strains.

Library of branded publishable information (leaflets, posters, booklets, slide-set, etc.)

The development of an effective communication infrastructure to communicate to the relevant stakeholders outside CHASSY will be led by NOVA. Publishable information material (leaflets, brochures) that will be updated as the project progresses will feature in the communication strategy.

The CHASSY public access website up and running

NOVA is responsible for developing an effective communication infrastructure to communicate to the relevant stakeholders outside CHASSY. A website as well as an external platform for displaying information about the project objectives, activities and results to interested parties and stakeholders and the public is an activity that will feature in the communication strategy.

External stakeholder workshop

An external stakeholder workshop will be organised in the final year of the project

Pubblicazioni

Production of octanoic acid in Saccharomyces cerevisiae : Investigation of new precursor supply engineering strategies and intrinsic limitations

Autori: Florian Wernig, Leonie Baumann, Eckhard Boles, Mislav Oreb
Pubblicato in: Biotechnology and Bioengineering, 2021, ISSN 0006-3592
Editore: Wiley - V C H Verlag GmbbH & Co.
DOI: 10.1002/bit.27814

Metabolic Engineering for Unusual Lipid Production in Yarrowia lipolytica

Autori: Young-Kyoung Park, Jean-Marc Nicaud
Pubblicato in: Microorganisms, Numero 8/12, 2020, Pagina/e 1937, ISSN 2076-2607
Editore: MDPI
DOI: 10.3390/microorganisms8121937

High-Throughput Screening of an Octanoic Acid Producer Strain Library Enables Detection of New Targets for Increasing Titers in Saccharomyces cerevisiae

Autori: Leonie Baumann, Stefan Bruder, Johannes Kabisch, Eckhard Boles, Mislav Oreb
Pubblicato in: ACS Synthetic Biology, 2021, ISSN 2161-5063
Editore: American Chemical Society
DOI: 10.1021/acssynbio.0c00600

Multidimensional engineering of Saccharomyces cerevisiae for efficient synthesis of medium-chain fatty acids

Autori: Zhiwei Zhu, Yating Hu, Paulo Gonçalves Teixeira, Rui Pereira, Yun Chen, Verena Siewers, Jens Nielsen
Pubblicato in: Nature Catalysis, Numero 3/1, 2020, Pagina/e 64-74, ISSN 2520-1158
Editore: Nature
DOI: 10.1038/s41929-019-0409-1

A novel yeast hybrid modeling framework integrating Boolean and enzyme-constrained networks enables exploration of the interplay between signaling and metabolism

Autori: Linnea Österberg, Iván Domenzain, Julia Münch, Jens Nielsen, Stefan Hohmann, Marija Cvijovic
Pubblicato in: PLOS Computational Biology, Numero 17/4, 2021, Pagina/e e1008891, ISSN 1553-7358
Editore: PLOS Computational Biology
DOI: 10.1371/journal.pcbi.1008891

Fusing α and β subunits of the fungal fatty acid synthase leads to improved production of fatty acids

Autori: Florian Wernig, Sandra Born, Eckhard Boles, Martin Grininger, Mislav Oreb
Pubblicato in: Scientific Reports, Numero 10/1, 2020, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-020-66629-y

A Yarrowia lipolytica Strain Engineered for Pyomelanin Production

Autori: Macarena Larroude, Djamila Onésime, Olivier Rué, Jean-Marc Nicaud, Tristan Rossignol
Pubblicato in: Microorganisms, Numero 9/4, 2021, Pagina/e 838, ISSN 2076-2607
Editore: MDPI
DOI: 10.3390/microorganisms9040838

Transcriptomic response of Saccharomyces cerevisiae to octanoic acid production

Autori: Leonie Baumann, Tyler Doughty, Verena Siewers, Jens Nielsen, Eckhard Boles, Mislav Oreb
Pubblicato in: FEMS Yeast Research, Numero 21/2, 2021, ISSN 1567-1356
Editore: Blackwell
DOI: 10.1093/femsyr/foab011

Increasing jojoba-like wax ester production in Saccharomyces cerevisiae by enhancing very long-chain, monounsaturated fatty acid synthesis

Autori: Leonie Wenning, Christer S. Ejsing, Florian David, Richard R. Sprenger, Jens Nielsen, Verena Siewers
Pubblicato in: Microbial Cell Factories, Numero 18/1, 2019, ISSN 1475-2859
Editore: BioMed Central
DOI: 10.1186/s12934-019-1098-9

Extracting novel hypotheses and findings from RNA-seq data

Autori: Tyler Doughty, Eduard Kerkhoven
Pubblicato in: FEMS Yeast Research, Numero 20/2, 2020, ISSN 1567-1356
Editore: Blackwell
DOI: 10.1093/femsyr/foaa007

Improving the phenotype predictions of a yeast genome‐scale metabolic model by incorporating enzymatic constraints

Autori: Benjamín J Sánchez, Cheng Zhang, Avlant Nilsson, Petri‐Jaan Lahtvee, Eduard J Kerkhoven, Jens Nielsen
Pubblicato in: Molecular Systems Biology, Numero 13/8, 2017, Pagina/e 935, ISSN 1744-4292
Editore: Nature Publishing Group
DOI: 10.15252/msb.20167411

Under pressure: evolutionary engineering of yeast strains for improved performance in fuels and chemicals production

Autori: Robert Mans, Jean-Marc G Daran, Jack T Pronk
Pubblicato in: Current Opinion in Biotechnology, Numero 50, 2018, Pagina/e 47-56, ISSN 0958-1669
Editore: Elsevier BV
DOI: 10.1016/j.copbio.2017.10.011

Heterologous transporter expression for improved fatty alcohol secretion in yeast

Autori: Yating Hu, Zhiwei Zhu, Jens Nielsen, Verena Siewers
Pubblicato in: Metabolic Engineering, Numero 45, 2018, Pagina/e 51-58, ISSN 1096-7176
Editore: Academic Press
DOI: 10.1016/j.ymben.2017.11.008

Genome editing in Kluyveromyces and Ogataea yeasts using a broad-host-range Cas9/gRNA co-expression plasmid

Autori: Hannes Juergens, Javier A Varela, Arthur R Gorter de Vries, Thomas Perli, Veronica J M Gast, Nikola Y Gyurchev, Arun S Rajkumar, Robert Mans, Jack T Pronk, John P Morrissey, Jean-Marc G Daran
Pubblicato in: FEMS Yeast Research, Numero 18/3, 2018, ISSN 1567-1364
Editore: Oxford Academic
DOI: 10.1093/femsyr/foy012

FnCpf1: a novel and efficient genome editing tool for Saccharomyces cerevisiae

Autori: Michal A. Świat, Sofia Dashko, Maxime den Ridder, Melanie Wijsman, John van der Oost, Jean-Marc Daran, Pascale Daran-Lapujade
Pubblicato in: Nucleic Acids Research, Numero 45/21, 2017, Pagina/e 12585-12598, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkx1007

Metabolic engineering of Saccharomyces cerevisiae for production of very long chain fatty acid-derived chemicals

Autori: Tao Yu, Yongjin J. Zhou, Leonie Wenning, Quanli Liu, Anastasia Krivoruchko, Verena Siewers, Jens Nielsen, Florian David
Pubblicato in: Nature Communications, Numero 8, 2017, Pagina/e 15587, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/ncomms15587

Barriers and opportunities in bio-based production of hydrocarbons

Autori: Yongjin J. Zhou, Eduard J. Kerkhoven, Jens Nielsen
Pubblicato in: Nature Energy, 2018, ISSN 2058-7546
Editore: Nature
DOI: 10.1038/s41560-018-0197-x

Synthetic biology tools for engineering Yarrowia lipolytica

Autori: M. Larroude, T. Rossignol, J.-M. Nicaud, R. Ledesma-Amaro
Pubblicato in: Biotechnology Advances, 2018, ISSN 0734-9750
Editore: Elsevier BV
DOI: 10.1016/j.biotechadv.2018.10.004

A Yeast-Based Biosensor for Screening of Short- and Medium-Chain Fatty Acid Production

Autori: Leonie Baumann, Arun S. Rajkumar, John P. Morrissey, Eckhard Boles, Mislav Oreb
Pubblicato in: ACS Synthetic Biology, 2018, ISSN 2161-5063
Editore: American Chemical Society
DOI: 10.1021/acssynbio.8b00309

Expansion and Diversification of MFS Transporters in Kluyveromyces marxianus

Autori: Javier A. Varela, Martina Puricelli, Noemi Montini, John P. Morrissey
Pubblicato in: Frontiers in Microbiology, Numero 9, 2019, ISSN 1664-302X
Editore: Frontiers Media
DOI: 10.3389/fmicb.2018.03330

Biological Parts for Kluyveromyces marxianus Synthetic Biology

Autori: Arun S. Rajkumar, Javier A. Varela, Hannes Juergens, Jean-Marc G. Daran, John P. Morrissey
Pubblicato in: Frontiers in Bioengineering and Biotechnology, Numero 7, 2019, ISSN 2296-4185
Editore: Frontiers Media SA
DOI: 10.3389/fbioe.2019.00097

A modular Golden Gate toolkit for Yarrowia lipolytica synthetic biology

Autori: Macarena Larroude, Young‐Kyoung Park, Paul Soudier, Monika Kubiak, Jean‐Marc Nicaud, Tristan Rossignol
Pubblicato in: Microbial Biotechnology, 2019, ISSN 1751-7915
Editore: John Wiley & Sons Ltd and Society for Applied Microbiology
DOI: 10.1111/1751-7915.13427

A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism

Autori: Hongzhong Lu, Feiran Li, Benjamín J. Sánchez, Zhengming Zhu, Gang Li, Iván Domenzain, Simonas Marcišauskas, Petre Mihail Anton, Dimitra Lappa, Christian Lieven, Moritz Emanuel Beber, Nikolaus Sonnenschein, Eduard J. Kerkhoven, Jens Nielsen
Pubblicato in: Nature Communications, Numero 10/1, 2019, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-019-11581-3

Connecting central carbon and aromatic amino acid metabolisms to improve de novo 2-phenylethanol production in Saccharomyces cerevisiae

Autori: Else-Jasmijn Hassing, Philip A. de Groot, Vita R. Marquenie, Jack T. Pronk, Jean-Marc G. Daran
Pubblicato in: Metabolic Engineering, Numero 56, 2019, Pagina/e 165-180, ISSN 1096-7176
Editore: Academic Press
DOI: 10.1016/j.ymben.2019.09.011

Author Correction: Metabolic engineering of Saccharomyces cerevisiae for production of very long chain fatty acid-derived chemicals

Autori: Yu, Tao; Zhou, Yongjin J.; Wenning, Leonie; Liu, Quanli; Krivoruchko, Anastasia; Siewers, Verena; Nielsen, Jens; David, Florian
Pubblicato in: Nature Communications, Numero 1, 2018, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/ncomms16220

Origin of Lactose Fermentation in Kluyveromyces lactis by Interspecies Transfer of a Neo-functionalized Gene Cluster during Domestication

Autori: Javier A. Varela, Martina Puricelli, Raúl A. Ortiz-Merino, Romina Giacomobono, Stephanie Braun-Galleani, Kenneth H. Wolfe, John P. Morrissey
Pubblicato in: Current Biology, 2019, ISSN 0960-9822
Editore: Cell Press
DOI: 10.1016/j.cub.2019.10.044

De novo biosynthesis of 8-hydroxyoctanoic acid via a medium-chain length specific fatty acid synthase and cytochrome P450 in Saccharomyces cerevisiae

Autori: Florian Wernig, Eckhard Boles, Mislav Oreb
Pubblicato in: Metabolic Engineering Communications, Numero 10, 2020, Pagina/e e00111, ISSN 2214-0301
Editore: Elsevier BV
DOI: 10.1016/j.mec.2019.e00111

A set of Yarrowia lipolytica CRISPR/Cas9 vectors for exploiting wild-type strain diversity

Autori: Macarena Larroude, Heykel Trabelsi, Jean-Marc Nicaud, Tristan Rossignol
Pubblicato in: Biotechnology Letters, 2020, ISSN 0141-5492
Editore: Kluwer Academic Publishers
DOI: 10.1007/s10529-020-02805-4

Stress-induced expression is enriched for evolutionarily young genes in diverse budding yeasts

Autori: Tyler W. Doughty, Iván Domenzain, Aaron Millan-Oropeza, Noemi Montini, Philip A. de Groot, Rui Pereira, Jens Nielsen, Céline Henry, Jean-Marc G. Daran, Verena Siewers, John P. Morrissey
Pubblicato in: Nature Communications, Numero 11/1, 2020, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-020-16073-3

Rational engineering of Kluyveromyces marxianus to create a chassis for the production of aromatic products

Autori: Arun S. Rajkumar, John P. Morrissey
Pubblicato in: Microbial Cell Factories, Numero 19/1, 2020, ISSN 1475-2859
Editore: BioMed Central
DOI: 10.1186/s12934-020-01461-7

Yarrowia lipolytica chassis strains engineered to produce aromatic amino acids via the shikimate pathway

Autori: Macarena Larroude, Jean‐Marc Nicaud, Tristan Rossignol
Pubblicato in: Microbial Biotechnology, 2020, ISSN 1751-7915
Editore: Wiley
DOI: 10.1111/1751-7915.13745

Microbiological strategies to produce beer and wine with reduced ethanol concentration

Autori: Javier Varela, Cristian Varela
Pubblicato in: Current Opinion in Biotechnology, Numero 56, 2019, Pagina/e 88-96, ISSN 0958-1669
Editore: Elsevier BV
DOI: 10.1016/j.copbio.2018.10.003

Evaluating accessibility, usability and interoperability of genome-scale metabolic models for diverse yeasts species

Autori: Iván Domenzain, Feiran Li, Eduard J Kerkhoven, Verena Siewers
Pubblicato in: FEMS Yeast Research, Numero 21/1, 2021, ISSN 1567-1364
Editore: FEMS Yeast Research
DOI: 10.1093/femsyr/foab002

An atlas of human metabolism

Autori: Jonathan L. Robinson, Pınar Kocabaş, Hao Wang, Pierre-Etienne Cholley, Daniel Cook, Avlant Nilsson, Mihail Anton, Raphael Ferreira, Iván Domenzain, Virinchi Billa, Angelo Limeta, Alex Hedin, Johan Gustafsson, Eduard J. Kerkhoven, L. Thomas Svensson, Bernhard O. Palsson, Adil Mardinoglu, Lena Hansson, Mathias Uhlén, Jens Nielsen
Pubblicato in: Science Signaling, Numero 13/624, 2020, Pagina/e eaaz1482, ISSN 1937-9145
Editore: American Association for the Advancement of Science
DOI: 10.1126/scisignal.aaz1482

FALCONET: an R package to accelerate automatic visualisation of genome scale metabolic models

Autori: Lu, Hongzhong; Zhu, Zhengming; Kerkhoven, Eduard J; Nielsen, Jens
Pubblicato in: Numero 5, 2019
Editore: BioRxiv
DOI: 10.1101/662056

Multidimensional engineering for the production of fatty acid derivatives in Saccharomyces cerevisiae

Autori: Hu, Yating
Pubblicato in: Numero 1, 2019, ISBN 978-91-7905-174-7
Editore: not applicable

Approaching absolute quantification using label-free shotgun proteomics coupled with external protein standards spiked in yeast extracts

Autori: Millan Oropeza, Aaron; Blein-Nicolas, Melisande; Zivy, Michel; Monnet, Véronique; Henry, Celine
Pubblicato in: http://sfeap2018.ipbs.fr/, Numero 3, 2018
Editore: HAL archive

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