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

Rezultaty

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

Publikacje

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

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

Metabolic Engineering for Unusual Lipid Production in Yarrowia lipolytica

Autorzy: Young-Kyoung Park, Jean-Marc Nicaud
Opublikowane w: Microorganisms, Numer 8/12, 2020, Strona(/y) 1937, ISSN 2076-2607
Wydawca: 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

Autorzy: Leonie Baumann, Stefan Bruder, Johannes Kabisch, Eckhard Boles, Mislav Oreb
Opublikowane w: ACS Synthetic Biology, 2021, ISSN 2161-5063
Wydawca: American Chemical Society
DOI: 10.1021/acssynbio.0c00600

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

Autorzy: Zhiwei Zhu, Yating Hu, Paulo Gonçalves Teixeira, Rui Pereira, Yun Chen, Verena Siewers, Jens Nielsen
Opublikowane w: Nature Catalysis, Numer 3/1, 2020, Strona(/y) 64-74, ISSN 2520-1158
Wydawca: 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

Autorzy: Linnea Österberg, Iván Domenzain, Julia Münch, Jens Nielsen, Stefan Hohmann, Marija Cvijovic
Opublikowane w: PLOS Computational Biology, Numer 17/4, 2021, Strona(/y) e1008891, ISSN 1553-7358
Wydawca: 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

Autorzy: Florian Wernig, Sandra Born, Eckhard Boles, Martin Grininger, Mislav Oreb
Opublikowane w: Scientific Reports, Numer 10/1, 2020, ISSN 2045-2322
Wydawca: Nature Publishing Group
DOI: 10.1038/s41598-020-66629-y

A Yarrowia lipolytica Strain Engineered for Pyomelanin Production

Autorzy: Macarena Larroude, Djamila Onésime, Olivier Rué, Jean-Marc Nicaud, Tristan Rossignol
Opublikowane w: Microorganisms, Numer 9/4, 2021, Strona(/y) 838, ISSN 2076-2607
Wydawca: MDPI
DOI: 10.3390/microorganisms9040838

Transcriptomic response of Saccharomyces cerevisiae to octanoic acid production

Autorzy: Leonie Baumann, Tyler Doughty, Verena Siewers, Jens Nielsen, Eckhard Boles, Mislav Oreb
Opublikowane w: FEMS Yeast Research, Numer 21/2, 2021, ISSN 1567-1356
Wydawca: Blackwell
DOI: 10.1093/femsyr/foab011

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

Autorzy: Leonie Wenning, Christer S. Ejsing, Florian David, Richard R. Sprenger, Jens Nielsen, Verena Siewers
Opublikowane w: Microbial Cell Factories, Numer 18/1, 2019, ISSN 1475-2859
Wydawca: BioMed Central
DOI: 10.1186/s12934-019-1098-9

Extracting novel hypotheses and findings from RNA-seq data

Autorzy: Tyler Doughty, Eduard Kerkhoven
Opublikowane w: FEMS Yeast Research, Numer 20/2, 2020, ISSN 1567-1356
Wydawca: Blackwell
DOI: 10.1093/femsyr/foaa007

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

Autorzy: Benjamín J Sánchez, Cheng Zhang, Avlant Nilsson, Petri‐Jaan Lahtvee, Eduard J Kerkhoven, Jens Nielsen
Opublikowane w: Molecular Systems Biology, Numer 13/8, 2017, Strona(/y) 935, ISSN 1744-4292
Wydawca: Nature Publishing Group
DOI: 10.15252/msb.20167411

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

Autorzy: Robert Mans, Jean-Marc G Daran, Jack T Pronk
Opublikowane w: Current Opinion in Biotechnology, Numer 50, 2018, Strona(/y) 47-56, ISSN 0958-1669
Wydawca: Elsevier BV
DOI: 10.1016/j.copbio.2017.10.011

Heterologous transporter expression for improved fatty alcohol secretion in yeast

Autorzy: Yating Hu, Zhiwei Zhu, Jens Nielsen, Verena Siewers
Opublikowane w: Metabolic Engineering, Numer 45, 2018, Strona(/y) 51-58, ISSN 1096-7176
Wydawca: 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

Autorzy: 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
Opublikowane w: FEMS Yeast Research, Numer 18/3, 2018, ISSN 1567-1364
Wydawca: Oxford Academic
DOI: 10.1093/femsyr/foy012

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

Autorzy: Michal A. Świat, Sofia Dashko, Maxime den Ridder, Melanie Wijsman, John van der Oost, Jean-Marc Daran, Pascale Daran-Lapujade
Opublikowane w: Nucleic Acids Research, Numer 45/21, 2017, Strona(/y) 12585-12598, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkx1007

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

Autorzy: Tao Yu, Yongjin J. Zhou, Leonie Wenning, Quanli Liu, Anastasia Krivoruchko, Verena Siewers, Jens Nielsen, Florian David
Opublikowane w: Nature Communications, Numer 8, 2017, Strona(/y) 15587, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/ncomms15587

Barriers and opportunities in bio-based production of hydrocarbons

Autorzy: Yongjin J. Zhou, Eduard J. Kerkhoven, Jens Nielsen
Opublikowane w: Nature Energy, 2018, ISSN 2058-7546
Wydawca: Nature
DOI: 10.1038/s41560-018-0197-x

Synthetic biology tools for engineering Yarrowia lipolytica

Autorzy: M. Larroude, T. Rossignol, J.-M. Nicaud, R. Ledesma-Amaro
Opublikowane w: Biotechnology Advances, 2018, ISSN 0734-9750
Wydawca: Elsevier BV
DOI: 10.1016/j.biotechadv.2018.10.004

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

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

Expansion and Diversification of MFS Transporters in Kluyveromyces marxianus

Autorzy: Javier A. Varela, Martina Puricelli, Noemi Montini, John P. Morrissey
Opublikowane w: Frontiers in Microbiology, Numer 9, 2019, ISSN 1664-302X
Wydawca: Frontiers Media
DOI: 10.3389/fmicb.2018.03330

Biological Parts for Kluyveromyces marxianus Synthetic Biology

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

A modular Golden Gate toolkit for Yarrowia lipolytica synthetic biology

Autorzy: Macarena Larroude, Young‐Kyoung Park, Paul Soudier, Monika Kubiak, Jean‐Marc Nicaud, Tristan Rossignol
Opublikowane w: Microbial Biotechnology, 2019, ISSN 1751-7915
Wydawca: 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

Autorzy: 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
Opublikowane w: Nature Communications, Numer 10/1, 2019, ISSN 2041-1723
Wydawca: 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

Autorzy: Else-Jasmijn Hassing, Philip A. de Groot, Vita R. Marquenie, Jack T. Pronk, Jean-Marc G. Daran
Opublikowane w: Metabolic Engineering, Numer 56, 2019, Strona(/y) 165-180, ISSN 1096-7176
Wydawca: 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

Autorzy: Yu, Tao; Zhou, Yongjin J.; Wenning, Leonie; Liu, Quanli; Krivoruchko, Anastasia; Siewers, Verena; Nielsen, Jens; David, Florian
Opublikowane w: Nature Communications, Numer 1, 2018, ISSN 2041-1723
Wydawca: 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

Autorzy: Javier A. Varela, Martina Puricelli, Raúl A. Ortiz-Merino, Romina Giacomobono, Stephanie Braun-Galleani, Kenneth H. Wolfe, John P. Morrissey
Opublikowane w: Current Biology, 2019, ISSN 0960-9822
Wydawca: 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

Autorzy: Florian Wernig, Eckhard Boles, Mislav Oreb
Opublikowane w: Metabolic Engineering Communications, Numer 10, 2020, Strona(/y) e00111, ISSN 2214-0301
Wydawca: Elsevier BV
DOI: 10.1016/j.mec.2019.e00111

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

Autorzy: Macarena Larroude, Heykel Trabelsi, Jean-Marc Nicaud, Tristan Rossignol
Opublikowane w: Biotechnology Letters, 2020, ISSN 0141-5492
Wydawca: Kluwer Academic Publishers
DOI: 10.1007/s10529-020-02805-4

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

Autorzy: 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
Opublikowane w: Nature Communications, Numer 11/1, 2020, ISSN 2041-1723
Wydawca: 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

Autorzy: Arun S. Rajkumar, John P. Morrissey
Opublikowane w: Microbial Cell Factories, Numer 19/1, 2020, ISSN 1475-2859
Wydawca: BioMed Central
DOI: 10.1186/s12934-020-01461-7

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

Autorzy: Macarena Larroude, Jean‐Marc Nicaud, Tristan Rossignol
Opublikowane w: Microbial Biotechnology, 2020, ISSN 1751-7915
Wydawca: Wiley
DOI: 10.1111/1751-7915.13745

Microbiological strategies to produce beer and wine with reduced ethanol concentration

Autorzy: Javier Varela, Cristian Varela
Opublikowane w: Current Opinion in Biotechnology, Numer 56, 2019, Strona(/y) 88-96, ISSN 0958-1669
Wydawca: Elsevier BV
DOI: 10.1016/j.copbio.2018.10.003

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

Autorzy: Iván Domenzain, Feiran Li, Eduard J Kerkhoven, Verena Siewers
Opublikowane w: FEMS Yeast Research, Numer 21/1, 2021, ISSN 1567-1364
Wydawca: FEMS Yeast Research
DOI: 10.1093/femsyr/foab002

An atlas of human metabolism

Autorzy: 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
Opublikowane w: Science Signaling, Numer 13/624, 2020, Strona(/y) eaaz1482, ISSN 1937-9145
Wydawca: 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

Autorzy: Lu, Hongzhong; Zhu, Zhengming; Kerkhoven, Eduard J; Nielsen, Jens
Opublikowane w: Numer 5, 2019
Wydawca: BioRxiv
DOI: 10.1101/662056

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

Autorzy: Hu, Yating
Opublikowane w: Numer 1, 2019, ISBN 978-91-7905-174-7
Wydawca: not applicable

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

Autorzy: Millan Oropeza, Aaron; Blein-Nicolas, Melisande; Zivy, Michel; Monnet, Véronique; Henry, Celine
Opublikowane w: http://sfeap2018.ipbs.fr/, Numer 3, 2018
Wydawca: HAL archive

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