Deciphering the transport mechanisms of small xenobiotic molecules in synthetic yeast cell factories

Project Information

YEAST-TRANS

Grant agreement ID: 757384

DOI 10.3030/757384

Project closed

EC signature date 27 October 2017

Start date 1 December 2017

End date 30 November 2022

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 1 423 357,50

EU contribution € 1 423 357,50

Coordinated by

DANMARKS TEKNISKE UNIVERSITET
Denmark

Deliverables

Open Research Data Pilot (1)

Data Management Plan

The data management plan will address following issues: 1. Making data findable, 2. Making data openly Accessible, 3. Making data Interoperable, 4. Increase data Re-use, 5. Allocation of recourses and data security The data management plan will also specify if certain datasets remain closed and the reasons for not giving access will be given.

Publications

Peer reviewed articles (26)

Rational and evolutionary engineering of Saccharomyces cerevisiae for production of dicarboxylic acids from lignocellulosic biomass and exploring genetic mechanisms of the yeast tolerance to the biomass hydrolysate

Author(s): Vratislav Stovicek; Laura Dato; Henrik Almqvist; Marie Schöpping; Ksenia Chekina; Lasse Ebdrup Pedersen; Anna Koza; Diogo Figueira; Freddy Tjosås; Bruno Sommer Ferreira; Jochen Forster; Gunnar Lidén; Irina Borodina
Published in: Crossref, Issue 1, 2022, ISSN 2731-3654
Publisher: Biotechnology for Biofuels and Bioproducts
DOI: 10.1186/s13068-022-02121-1

Engineering Yeast Yarrowia lipolytica for Methanol Assimilation.

Author(s): Guokun Wang; Guokun Wang; Mattis Olofsson-Dolk; Frederik Gleerup Hansson; Stefano Donati; Xiaolin Li; Hong Chang; Jian Cheng; Jonathan Dahlin; Irina Borodina
Published in: ACS Synthetic Biology, Issue 1, 2021, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.1c00464

Metabolic Engineering of Saccharomyces cerevisiae for Rosmarinic Acid Production

Author(s): Mahsa Babaei, Gheorghe M. Borja Zamfir, Xiao Chen, Hanne Bjerre Christensen, Mette Kristensen, Jens Nielsen, Irina Borodina
Published in: ACS Synthetic Biology, Issue 9/8, 2020, Page(s) 1978-1988, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.0c00048

Production of abscisic acid in the oleaginous yeast <i>Yarrowia lipolytica</i>

Author(s): Jonathan Asmund Arnesen; Irene Hjorth Jacobsen; Jane Dannow Dyekjær; Daniela Rago; Mette Kristensen; Andreas Koedfoed Klitgaard; Milica Randelovic; José Luis Martinez; Irina Borodina
Published in: Crossref, Issue 1, 2022, ISSN 1567-1364
Publisher: Oxford University press
DOI: 10.1093/femsyr/foac015

Modulation of the cell wall protein Ecm33p in yeast <i>Saccharomyces cerevisiae</i> improves the production of small metabolites

Author(s): Verónica Ramos-Viana; Iben Møller-Hansen; Paul Kempen; Irina Borodina
Published in: FEMS Yeast Research, Issue 1, 2022, Page(s) foac037, ISSN 1567-1356
Publisher: Blackwell
DOI: 10.1093/femsyr/foac037

Efficient biodegradation of aliphatic polyester by genetically engineered strains of the yeast Yarrowia lipolytica

Author(s): Katarzyna E. Kosiorowska; Xymena Połomska; Guokun Wang; Irina Borodina; Aleksandra M. Mirończuk
Published in: International Biodeterioration and Biodegradation, Issue 09648305, 2021, Page(s) 105232, ISSN 0964-8305
Publisher: Elsevier BV
DOI: 10.1016/j.ibiod.2021.105232

Resveratrol Production from Hydrothermally Pretreated Eucalyptus Wood Using Recombinant Industrial Saccharomyces cerevisiae Strains.

Author(s): Carlos Costa; Iben Møller-Hansen; Aloia Romaní; José A. Teixeira; Irina Borodina; Lucília Domingues
Published in: reponame:Repositório Científico de Acesso Aberto de Portugal, Issue 1, 2021, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.1c00120

Engineering of molybdenum-cofactor-dependent nitrate assimilation in Yarrowia lipolytica

Author(s): Thomas Perli; Irina Borodina; Jean-Marc Daran
Published in: FEMS Yeast Research, Issue 1, 2021, ISSN 1567-1356
Publisher: Blackwell
DOI: 10.1093/femsyr/foab050

An integrated yeast-based process for cis,cis-muconic acid production

Author(s): Guokun Wang; Guokun Wang; Aline Tavares; Simone Schmitz; Simone Schmitz; Lucas Gabriel Souza França; Hugo Almeida; João Cavalheiro; Ana Carolas; Süleyman Øzmerih; Lars M. Blank; Bruno Sommer Ferreira; Irina Borodina
Published in: Biotechnology and Bioengineering, Issue 1, 2022, ISSN 0006-3592
Publisher: Wiley - V C H Verlag GmbbH & Co.
DOI: 10.1002/bit.27992

Energetic evolution of cellular Transportomes

Author(s): Behrooz Darbani, Douglas B. Kell, Irina Borodina
Published in: BMC Genomics, Issue 19/1, 2018, ISSN 1471-2164
Publisher: BioMed Central
DOI: 10.1186/s12864-018-4816-5

Engineering energetically efficient transport of dicarboxylic acids in yeast Saccharomyces cerevisiae

Author(s): Behrooz Darbani, Vratislav Stovicek, Steven Axel van der Hoek, Irina Borodina
Published in: Proceedings of the National Academy of Sciences, Issue 116 (39), 2019, Page(s) 201900287, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.1900287116

The Transcriptome and Flux Profiling of Crabtree‐Negative Hydroxy Acid‐Producing Strains of Saccharomyces cerevisiae Reveals Changes in the Central Carbon Metabolism

Author(s): Mathew M. Jessop‐Fabre, Jonathan Dahlin, Mathias B. Biron, Vratislav Stovicek, Birgitta E. Ebert, Lars M. Blank, Itay Budin, Jay D. Keasling, Irina Borodina
Published in: Biotechnology Journal, Issue 14/9, 2019, Page(s) 1900013, ISSN 1860-6768
Publisher: Wiley - VCH Verlag GmbH & CO. KGaA
DOI: 10.1002/biot.201900013

Engineering the Yeast Saccharomyces cerevisiae for the Production of L-(+)-Ergothioneine

Author(s): Steven A. van der Hoek, Behrooz Darbani, Karolina E. Zugaj, Bala Krishna Prabhala, Mathias Bernfried Biron, Milica Randelovic, Jacqueline B. Medina, Douglas B. Kell, Irina Borodina
Published in: Frontiers in Bioengineering and Biotechnology, Issue 7, 2019, ISSN 2296-4185
Publisher: Frontiers
DOI: 10.3389/fbioe.2019.00262

Multi-Omics Analysis of Fatty Alcohol Production in Engineered Yeasts Saccharomyces cerevisiae and Yarrowia lipolytica

Author(s): Jonathan Dahlin, Carina Holkenbrink, Eko Roy Marella, Guokun Wang, Ulf Liebal, Christian Lieven, Dieter Weber, Douglas McCloskey, Birgitta E. Ebert, Markus J. Herrgård, Lars Mathias Blank, Irina Borodina
Published in: Frontiers in Genetics, Issue 10, 2019, ISSN 1664-8021
Publisher: Frontiers Media
DOI: 10.3389/fgene.2019.00747

A single-host fermentation process for the production of flavor lactones from non-hydroxylated fatty acids

Author(s): Eko Roy Marella, Jonathan Dahlin, Marie Inger Dam, Jolanda ter Horst, Hanne Bjerre Christensen, Suresh Sudarsan, Guokun Wang, Carina Holkenbrink, Irina Borodina
Published in: Metabolic Engineering, 2019, ISSN 1096-7176
Publisher: Academic Press
DOI: 10.1016/j.ymben.2019.08.009

Improvement of cis , cis -Muconic Acid Production in Saccharomyces cerevisiae through Biosensor-Aided Genome Engineering

Author(s): Guokun Wang, Süleyman Øzmerih, Rogério Guerreiro, Ana C. Meireles, Ana Carolas, Nicholas Milne, Michael K. Jensen, Bruno S. Ferreira, Irina Borodina
Published in: ACS Synthetic Biology, Issue 9/3, 2020, Page(s) 634-646, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.9b00477

A teaching protocol demonstrating the use of EasyClone and CRISPR/Cas9 for metabolic engineering of Saccharomyces cerevisiae and Yarrowia lipolytica

Author(s): N Milne, L R R Tramontin, I Borodina
Published in: FEMS Yeast Research, Issue Volume 20, Issue 2, March 2020, foz062, 2020, ISSN 1567-1356
Publisher: Blackwell
DOI: 10.1093/femsyr/foz062

Enhancement of Astaxanthin Biosynthesis in Oleaginous Yeast Yarrowia lipolytica via Microalgal Pathway

Author(s): Larissa Ribeiro Ramos Tramontin, Kanchana Rueksomtawin Kildegaard, Suresh Sudarsan, Irina Borodina
Published in: Microorganisms, Issue 7/10, 2019, Page(s) 472, ISSN 2076-2607
Publisher: MDPI
DOI: 10.3390/microorganisms7100472

Metabolic engineering of Saccharomyces cerevisiae for the de novo production of psilocybin and related tryptamine derivatives

Author(s): N. Milne, P. Thomsen, N. Mølgaard Knudsen, P. Rubaszka, M. Kristensen, I. Borodina
Published in: Metabolic Engineering, Issue 60, 2020, Page(s) 25-36, ISSN 1096-7176
Publisher: Academic Press
DOI: 10.1016/j.ymben.2019.12.007

Engineering Oleaginous Yeast as the Host for Fermentative Succinic Acid Production From Glucose

Author(s): Mahsa Babaei, Kanchana Rueksomtawin Kildegaard, Aligholi Niaei, Maryam Hosseini, Sirous Ebrahimi, Suresh Sudarsan, Irini Angelidaki, Irina Borodina
Published in: Frontiers in Bioengineering and Biotechnology, Issue 7, 2019, ISSN 2296-4185
Publisher: Frontiers Media S.A.
DOI: 10.3389/fbioe.2019.00361

Identification and characterisation of two high-affinity glucose transporters from the spoilage yeast Brettanomyces bruxellensis

Author(s): Ievgeniia A Tiukova, Iben Møller-Hansen, Zeinu M Belew, Behrooz Darbani, Eckhard Boles, Hussam H Nour-Eldin, Tomas Linder, Jens Nielsen, Irina Borodina
Published in: FEMS Microbiology Letters, Issue 366/17, 2019, ISSN 0378-1097
Publisher: Blackwell
DOI: 10.1093/femsle/fnz222

Engineering ergothioneine production in Yarrowia lipolytica.

Author(s): Steven Axel van der Hoek; Matej Rusnák; Irene Hjorth Jacobsen; José L. Martínez; Douglas B. Kell; Douglas B. Kell; Irina Borodina
Published in: van der Hoek , S A , Rusnák , M , Jacobsen , I H , Martínez , J L , Kell , D B & Borodina , I 2022 , ' Engineering ergothioneine production in Yarrowia lipolytica ' , FEBS Letters , vol. 596 , no. 10 , pp. 1356-1364 . https://doi.org/10.1002/1873-3468.14239, Issue 00145793, 2022, ISSN 0014-5793
Publisher: Elsevier BV
DOI: 10.1002/1873-3468.14239

Transporter engineering in microbial cell factories: the ins, the outs, and the in-betweens.

Author(s): Steven Axel van der Hoek; Irina Borodina
Published in: van der Hoek , S A & Borodina , I 2020 , ' Transporter engineering in microbial cell factories: the ins, the outs, and the in-betweens ' , Current Opinion in Biotechnology , vol. 66 , pp. 186-194 . https://doi.org/10.1016/j.copbio.2020.08.002, Issue 09581669, 2020, Page(s) 186-194, ISSN 0958-1669
Publisher: Elsevier BV
DOI: 10.1016/j.copbio.2020.08.002

Yarrowia lipolytica Strains Engineered for the Production of Terpenoids

Author(s): Jonathan Asmund Arnesen, Kanchana Rueksomtawin Kildegaard, Marc Cernuda Pastor, Sidharth Jayachandran, Mette Kristensen, Irina Borodina
Published in: Frontiers in Bioengineering and Biotechnology, Issue 8, 2020, ISSN 2296-4185
Publisher: Frontiers
DOI: 10.3389/fbioe.2020.00945

Transportome-wide engineering of Saccharomyces cerevisiae

Author(s): Guokun Wang, Iben Møller-Hansen, Mahsa Babaei, Vasil D'Ambrosio, Hanne Bjerre Christensen, Behrooz Darbani, Michael Krogh Jensen, Irina Borodina
Published in: Metabolic Engineering, Issue 64, 2021, Page(s) 52-63, ISSN 1096-7176
Publisher: Academic Press
DOI: 10.1016/j.ymben.2021.01.007

Valorisation of wine wastes by <i>de novo</i> biosynthesis of resveratrol using a recombinant xylose-consuming industrial <i>Saccharomyces cerevisiae</i> strain

Author(s): Carlos E. Costa; Aloia Romaní; Iben Møller-Hansen; José A. Teixeira; Irina Borodina; Lucília Domingues
Published in: Green Chem, Issue 24, 2022, Page(s) 9128-9142, ISSN 1463-9262
Publisher: Royal Society of Chemistry
DOI: 10.1039/d2gc02429b

Non-peer reviewed articles (1)

Understanding metabolite transport gives an upper hand in strain development

Author(s): Irina Borodina
Published in: Microbial Biotechnology, Issue 12/1, 2019, Page(s) 69-70, ISSN 1751-7915
Publisher: Wiley
DOI: 10.1111/1751-7915.13347

Other (1)

A Novel Efficient L-Lysine Exporter Identified by Functional Metagenomics

Author(s): Sailesh Malla, Eric van der Helm, Behrooz Darbani, Stefan Wieschalka, Jochen Forster, Irina Borodina, Morten O. A. Sommer
Published in: 2020
Publisher: biorxiv
DOI: 10.1101/2020.04.30.071142

Intellectual Property Rights

Patent (3)

METHODS FOR PRODUCTION OF ERGOTHIONEINE

Application/Publication number: 20 20061866
Date: 2020-04-29

METHODS FOR PRODUCTION OF ERGOTHIONEINE

Application/Publication number: 20 20061866
Date: 2020-04-29

METHODS FOR PRODUCTION OF ERGOTHIONEINE

Application/Publication number: 20 20061866
Date: 2020-04-29