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

Resultado final

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

Publicaciones

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

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

Metabolic Engineering for Unusual Lipid Production in Yarrowia lipolytica

Autores: Young-Kyoung Park, Jean-Marc Nicaud
Publicado en: Microorganisms, Edición 8/12, 2020, Página(s) 1937, ISSN 2076-2607
Editor: 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

Autores: Leonie Baumann, Stefan Bruder, Johannes Kabisch, Eckhard Boles, Mislav Oreb
Publicado en: ACS Synthetic Biology, 2021, ISSN 2161-5063
Editor: American Chemical Society
DOI: 10.1021/acssynbio.0c00600

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

Autores: Zhiwei Zhu, Yating Hu, Paulo Gonçalves Teixeira, Rui Pereira, Yun Chen, Verena Siewers, Jens Nielsen
Publicado en: Nature Catalysis, Edición 3/1, 2020, Página(s) 64-74, ISSN 2520-1158
Editor: 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

Autores: Linnea Österberg, Iván Domenzain, Julia Münch, Jens Nielsen, Stefan Hohmann, Marija Cvijovic
Publicado en: PLOS Computational Biology, Edición 17/4, 2021, Página(s) e1008891, ISSN 1553-7358
Editor: 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

Autores: Florian Wernig, Sandra Born, Eckhard Boles, Martin Grininger, Mislav Oreb
Publicado en: Scientific Reports, Edición 10/1, 2020, ISSN 2045-2322
Editor: Nature Publishing Group
DOI: 10.1038/s41598-020-66629-y

A Yarrowia lipolytica Strain Engineered for Pyomelanin Production

Autores: Macarena Larroude, Djamila Onésime, Olivier Rué, Jean-Marc Nicaud, Tristan Rossignol
Publicado en: Microorganisms, Edición 9/4, 2021, Página(s) 838, ISSN 2076-2607
Editor: MDPI
DOI: 10.3390/microorganisms9040838

Transcriptomic response of Saccharomyces cerevisiae to octanoic acid production

Autores: Leonie Baumann, Tyler Doughty, Verena Siewers, Jens Nielsen, Eckhard Boles, Mislav Oreb
Publicado en: FEMS Yeast Research, Edición 21/2, 2021, ISSN 1567-1356
Editor: Blackwell
DOI: 10.1093/femsyr/foab011

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

Autores: Leonie Wenning, Christer S. Ejsing, Florian David, Richard R. Sprenger, Jens Nielsen, Verena Siewers
Publicado en: Microbial Cell Factories, Edición 18/1, 2019, ISSN 1475-2859
Editor: BioMed Central
DOI: 10.1186/s12934-019-1098-9

Extracting novel hypotheses and findings from RNA-seq data

Autores: Tyler Doughty, Eduard Kerkhoven
Publicado en: FEMS Yeast Research, Edición 20/2, 2020, ISSN 1567-1356
Editor: Blackwell
DOI: 10.1093/femsyr/foaa007

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

Autores: Benjamín J Sánchez, Cheng Zhang, Avlant Nilsson, Petri‐Jaan Lahtvee, Eduard J Kerkhoven, Jens Nielsen
Publicado en: Molecular Systems Biology, Edición 13/8, 2017, Página(s) 935, ISSN 1744-4292
Editor: Nature Publishing Group
DOI: 10.15252/msb.20167411

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

Autores: Robert Mans, Jean-Marc G Daran, Jack T Pronk
Publicado en: Current Opinion in Biotechnology, Edición 50, 2018, Página(s) 47-56, ISSN 0958-1669
Editor: Elsevier BV
DOI: 10.1016/j.copbio.2017.10.011

Heterologous transporter expression for improved fatty alcohol secretion in yeast

Autores: Yating Hu, Zhiwei Zhu, Jens Nielsen, Verena Siewers
Publicado en: Metabolic Engineering, Edición 45, 2018, Página(s) 51-58, ISSN 1096-7176
Editor: 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

Autores: 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
Publicado en: FEMS Yeast Research, Edición 18/3, 2018, ISSN 1567-1364
Editor: Oxford Academic
DOI: 10.1093/femsyr/foy012

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

Autores: Michal A. Świat, Sofia Dashko, Maxime den Ridder, Melanie Wijsman, John van der Oost, Jean-Marc Daran, Pascale Daran-Lapujade
Publicado en: Nucleic Acids Research, Edición 45/21, 2017, Página(s) 12585-12598, ISSN 0305-1048
Editor: Oxford University Press
DOI: 10.1093/nar/gkx1007

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

Autores: Tao Yu, Yongjin J. Zhou, Leonie Wenning, Quanli Liu, Anastasia Krivoruchko, Verena Siewers, Jens Nielsen, Florian David
Publicado en: Nature Communications, Edición 8, 2017, Página(s) 15587, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/ncomms15587

Barriers and opportunities in bio-based production of hydrocarbons

Autores: Yongjin J. Zhou, Eduard J. Kerkhoven, Jens Nielsen
Publicado en: Nature Energy, 2018, ISSN 2058-7546
Editor: Nature
DOI: 10.1038/s41560-018-0197-x

Synthetic biology tools for engineering Yarrowia lipolytica

Autores: M. Larroude, T. Rossignol, J.-M. Nicaud, R. Ledesma-Amaro
Publicado en: Biotechnology Advances, 2018, ISSN 0734-9750
Editor: Elsevier BV
DOI: 10.1016/j.biotechadv.2018.10.004

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

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

Expansion and Diversification of MFS Transporters in Kluyveromyces marxianus

Autores: Javier A. Varela, Martina Puricelli, Noemi Montini, John P. Morrissey
Publicado en: Frontiers in Microbiology, Edición 9, 2019, ISSN 1664-302X
Editor: Frontiers Media
DOI: 10.3389/fmicb.2018.03330

Biological Parts for Kluyveromyces marxianus Synthetic Biology

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

A modular Golden Gate toolkit for Yarrowia lipolytica synthetic biology

Autores: Macarena Larroude, Young‐Kyoung Park, Paul Soudier, Monika Kubiak, Jean‐Marc Nicaud, Tristan Rossignol
Publicado en: Microbial Biotechnology, 2019, ISSN 1751-7915
Editor: 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

Autores: 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
Publicado en: Nature Communications, Edición 10/1, 2019, ISSN 2041-1723
Editor: 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

Autores: Else-Jasmijn Hassing, Philip A. de Groot, Vita R. Marquenie, Jack T. Pronk, Jean-Marc G. Daran
Publicado en: Metabolic Engineering, Edición 56, 2019, Página(s) 165-180, ISSN 1096-7176
Editor: 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

Autores: Yu, Tao; Zhou, Yongjin J.; Wenning, Leonie; Liu, Quanli; Krivoruchko, Anastasia; Siewers, Verena; Nielsen, Jens; David, Florian
Publicado en: Nature Communications, Edición 1, 2018, ISSN 2041-1723
Editor: 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

Autores: Javier A. Varela, Martina Puricelli, Raúl A. Ortiz-Merino, Romina Giacomobono, Stephanie Braun-Galleani, Kenneth H. Wolfe, John P. Morrissey
Publicado en: Current Biology, 2019, ISSN 0960-9822
Editor: 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

Autores: Florian Wernig, Eckhard Boles, Mislav Oreb
Publicado en: Metabolic Engineering Communications, Edición 10, 2020, Página(s) e00111, ISSN 2214-0301
Editor: Elsevier BV
DOI: 10.1016/j.mec.2019.e00111

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

Autores: Macarena Larroude, Heykel Trabelsi, Jean-Marc Nicaud, Tristan Rossignol
Publicado en: Biotechnology Letters, 2020, ISSN 0141-5492
Editor: Kluwer Academic Publishers
DOI: 10.1007/s10529-020-02805-4

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

Autores: 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
Publicado en: Nature Communications, Edición 11/1, 2020, ISSN 2041-1723
Editor: 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

Autores: Arun S. Rajkumar, John P. Morrissey
Publicado en: Microbial Cell Factories, Edición 19/1, 2020, ISSN 1475-2859
Editor: BioMed Central
DOI: 10.1186/s12934-020-01461-7

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

Autores: Macarena Larroude, Jean‐Marc Nicaud, Tristan Rossignol
Publicado en: Microbial Biotechnology, 2020, ISSN 1751-7915
Editor: Wiley
DOI: 10.1111/1751-7915.13745

Microbiological strategies to produce beer and wine with reduced ethanol concentration

Autores: Javier Varela, Cristian Varela
Publicado en: Current Opinion in Biotechnology, Edición 56, 2019, Página(s) 88-96, ISSN 0958-1669
Editor: Elsevier BV
DOI: 10.1016/j.copbio.2018.10.003

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

Autores: Iván Domenzain, Feiran Li, Eduard J Kerkhoven, Verena Siewers
Publicado en: FEMS Yeast Research, Edición 21/1, 2021, ISSN 1567-1364
Editor: FEMS Yeast Research
DOI: 10.1093/femsyr/foab002

An atlas of human metabolism

Autores: 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
Publicado en: Science Signaling, Edición 13/624, 2020, Página(s) eaaz1482, ISSN 1937-9145
Editor: 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

Autores: Lu, Hongzhong; Zhu, Zhengming; Kerkhoven, Eduard J; Nielsen, Jens
Publicado en: Edición 5, 2019
Editor: BioRxiv
DOI: 10.1101/662056

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

Autores: Hu, Yating
Publicado en: Edición 1, 2019, ISBN 978-91-7905-174-7
Editor: not applicable

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

Autores: Millan Oropeza, Aaron; Blein-Nicolas, Melisande; Zivy, Michel; Monnet, Véronique; Henry, Celine
Publicado en: http://sfeap2018.ipbs.fr/, Edición 3, 2018
Editor: HAL archive

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