Deciphering and Engineering the overlooked but Universal phenomenon of Subpopulations in BIOtechnology

Project Information

DEUSBIO

Grant agreement ID: 949080

DOI

10.3030/949080

EC signature date 9 October 2020

Start date 1 March 2021

End date 28 February 2026

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 499 998,00

EU contribution

€ 1 499 998,00

Coordinated by

IMPERIAL COLLEGE OF SCIENCE TECHNOLOGY AND MEDICINE
United Kingdom

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (26)

<i>Vibrio natriegens</i> genome‐scale modeling reveals insights into halophilic adaptations and resource allocation

Author(s): Lucas Coppens, Tanya Tschirhart, Dagmar H Leary, Sophie M Colston, Jaimee R Compton, William Judson Hervey, Karl L Dana, Gary J Vora, Sergio Bordel, Rodrigo Ledesma‐Amaro
Published in: Molecular Systems Biology, Issue 19, 2023, ISSN 1744-4292
Publisher: Nature Publishing Group
DOI: 10.15252/msb.202110523

The microbial food revolution

Author(s): Alicia E. Graham, Rodrigo Ledesma-Amaro
Published in: Nature Communications, Issue 14, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-37891-1

Microbial conversion of ethanol to high-value products: progress and challenges

Author(s): Manman Sun, Alex Xiong Gao, Xiuxia Liu, Zhonghu Bai, Peng Wang, Rodrigo Ledesma-Amaro
Published in: Biotechnology for Biofuels and Bioproducts, Issue 17, 2024, ISSN 2731-3654
Publisher: Springer Science and Business Media LLC
DOI: 10.1186/s13068-024-02546-w

Synthetic, marine, light-driven, autotroph-heterotroph co-culture system for sustainable β-caryophyllene production

Author(s): Wenchao Chen, Young-Kyoung Park, Lucie Studená, David Bell, Piotr Hapeta, Jing Fu, Peter J. Nixon, Rodrigo Ledesma-Amaro
Published in: Bioresource Technology, Issue 410, 2024, Page(s) 131232, ISSN 0960-8524
Publisher: Elsevier BV
DOI: 10.1016/j.biortech.2024.131232

Metabolic engineering strategies to enable microbial utilization of C1 feedstocks

Author(s): Jiang, Wei; Hernandez Villamor, David; Peng, Huadong; Chen, Jian; Liu, Long; Haritos, Victoria; Ledesma-Amaro, Rodrigo
Published in: Nature Chemical Biology, 2022, ISSN 1552-4469
Publisher: Nature
DOI: 10.1038/s41589-021-00836-0

Fusarium-based mycoprotein: Advancements in the production of sustainable meat substitutes

Author(s): Rima Gnaim, Paul S. Dyer, Rodrigo Ledesma-Amaro
Published in: Trends in Food Science &amp; Technology, Issue 159, 2025, Page(s) 104981, ISSN 0924-2244
Publisher: Elsevier BV
DOI: 10.1016/j.tifs.2025.104981

Phenotypic heterogeneity follows a growth-viability tradeoff in response to amino acid identity

Author(s): Kiyan Shabestary, Cinzia Klemm, Benedict Carling, James Marshall, Juline Savigny, Marko Storch, Rodrigo Ledesma-Amaro
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-50602-8

A molecular toolkit of cross-feeding strains for engineering synthetic yeast communities

Author(s): Peng, H., Darlington, A.P.S., South, E.J. et al. Rodrigo Ledesma-Amaro
Published in: Nature Microbiology, 2024, ISSN 2058-5276
Publisher: Nature
DOI: 10.1038/s41564-023-01596-4

Advances in the biosynthesis of β-carotene and its derivatives in yeast

Author(s): Tingan Zhou, Young-Kyoung Park, Rodrigo Ledesma-Amaro
Published in: Bioresource Technology, Issue 435, 2025, Page(s) 132936, ISSN 0960-8524
Publisher: Elsevier BV
DOI: 10.1016/j.biortech.2025.132936

DELLA proteins recruit the Mediator complex subunit MED15 to coactivate transcription in land plants

Author(s): Jorge Hernández-García, Antonio Serrano-Mislata, María Lozano-Quiles, Cristina Úrbez, María A. Nohales, Noel Blanco-Touriñán, Huadong Peng, Rodrigo Ledesma-Amaro, Miguel A. Blázquez
Published in: Proceedings of the National Academy of Sciences, Issue 121, 2024, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2319163121

Designing synthetic microbial communities with the capacity to upcycle fermentation byproducts to increase production yields

Author(s): Razieh Rafieenia, Cinzia Klemm, Piotr Hapeta, Jing Fu, María Gallego García, Rodrigo Ledesma-Amaro
Published in: Trends in Biotechnology, Issue 43, 2025, Page(s) 601-619, ISSN 0167-7799
Publisher: Elsevier BV
DOI: 10.1016/j.tibtech.2024.10.015

Synthetic biology of Fusarium for the sustainable production of valuable bioproducts

Author(s): Rima Gnaim, Rodrigo Ledesma-Amaro
Published in: Biotechnology Advances, Issue 81, 2025, Page(s) 108579, ISSN 0734-9750
Publisher: Elsevier BV
DOI: 10.1016/j.biotechadv.2025.108579

Comparative Genomics Analysis of Keratin-Degrading Chryseobacterium Species Reveals Their Keratinolytic Potential for Secondary Metabolite Production

Author(s): Dingrong Kang, Saeed Shoaie, Samuel Jacquiod, Søren J. Sørensen, Rodrigo Ledesma-Amaro
Published in: Microorganisms, Issue 9, 2025, Page(s) 1042, ISSN 2076-2607
Publisher: MDPI AG
DOI: 10.3390/microorganisms9051042

Division of labor for substrate utilization in natural and synthetic microbial communities

Author(s): Razieh Rafieenia; Eliza Atkinson; Rodrigo Ledesma-Amaro
Published in: Current opinion in Biotechnology, Issue 09581669, 2022, ISSN 0958-1669
Publisher: Elsevier BV
DOI: 10.1016/j.copbio.2022.102706

Metabolic engineering of Yarrowia lipolytica for the production and secretion of the saffron ingredient crocetin

Author(s): Tingan Zhou, Young-Kyoung Park, Jing Fu, Piotr Hapeta, Cinzia Klemm, Rodrigo Ledesma-Amaro
Published in: Biotechnology for Biofuels and Bioproducts, Issue 18, 2025, ISSN 2731-3654
Publisher: Springer Science and Business Media LLC
DOI: 10.1186/s13068-024-02598-y

Resource-aware whole-cell model of division of labour in a microbial consortium for complex-substrate degradation

Author(s): Ledesma Amaro, R; Stan, G-B; Atkinson, E; Perrino, G; Tuza, Z
Published in: Microbial cell factories, Issue 14752859, 2022, ISSN 1475-2859
Publisher: BioMed Central
DOI: 10.1186/s12934-022-01842-0

Inducible expression of large gRNA arrays for multiplexed CRISPRai applications

Author(s): Shaw, W.M., Studená, L., Roy, K. et al.
Published in: Nature Communications, Issue 20411723, 2022, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-022-32603-7

New synthetic biology tools for metabolic control

Author(s): Xueqin Lv, Angeles Hueso-Gil, Xinyu Bi, Yaokang Wu, Yanfeng Liu, Long Liu, RodrigoLedesma-Amaro
Published in: Current opinion in Biotechnology, Issue 09581669, 2022, ISSN 0958-1669
Publisher: Elsevier BV
DOI: 10.1016/j.copbio.2022.102724

Engineered cross-feeding creates inter- and intra-species synthetic yeast communities with enhanced bioproduction

Author(s): Young-Kyoung Park, Huadong Peng, Piotr Hapeta, Lara Sellés Vidal, Rodrigo Ledesma-Amaro
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-53117-4

Modular Metabolic Engineering and Synthetic Coculture Strategies for the Production of Aromatic Compounds in Yeast

Author(s): Huadong Peng; Ruiqi Chen; William M. Shaw; Piotr Hapeta; Wei Jiang; David J. Bell; Tom Ellis; Rodrigo Ledesma-Amaro
Published in: ACS synthetic Biology, Issue 9, 2023, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.3c00047

Efficient synthesis of limonene production in Yarrowia lipolytica by combinatorial engineering strategies

Author(s): Young-Kyoung Park, Lara Sellés Vidal, David Bell, Jure Zabret, Mladen Soldat, Martin Kavšček, Rodrigo Ledesma-Amaro
Published in: Biotechnology for Biofuels and Bioproducts, Issue 17, 2024, ISSN 2731-3654
Publisher: Springer Science and Business Media LLC
DOI: 10.1186/s13068-024-02535-z

Spontaneously established syntrophic yeast communities improve bioproduction

Author(s): "Simran Kaur Aulakh # 1 2 , Lara Sellés Vidal # 3 , Eric J South # 3 , Huadong Peng 3 , Sreejith Jayasree Varma 4 , Lucia Herrera-Dominguez 1 4 , Markus Ralser 5 6 7 8 , Rodrigo Ledesma-Amaro 9"
Published in: Nature Chemical Biology, 2023, ISSN 1552-4469
Publisher: Nature
DOI: 10.1038/s41589-023-01341-2

What makes Yarrowia lipolytica well suited for industry?

Author(s): Young-KyoungPark, RodrigoLedesma-Amaro
Published in: Trends in Biotechnology, Issue 18793096, 2022, ISSN 1879-3096
Publisher: Cell Press
DOI: 10.1016/j.tibtech.2022.07.006

A primer to directed evolution: current methodologies and future directions

Author(s): Lara Sellés Vidal, Mark Isalan, John T. Heap, Rodrigo Ledesma-Amaro
Published in: RSC Chemical Biology, Issue 4, 2024, Page(s) 271-291, ISSN 2633-0679
Publisher: Royal Society of Chemistry (RSC)
DOI: 10.1039/d2cb00231k

Investigating the Potential of Division of Labor in Synthetic Bacterial Communities for the Production of Violacein

Author(s): Harman Mehta, Jose Jimenez, Rodrigo Ledesma-Amaro, Guy-Bart Stan
Published in: ACS Synthetic Biology, Issue 14, 2025, Page(s) 2703-2709, ISSN 2161-5063
Publisher: American Chemical Society
DOI: 10.1021/acssynbio.5c00120

Synthetic biology and bioelectrochemical tools for electrogenetic system engineering

Author(s): Joshua M. Lawrence, et al [...]Rodrigo Ledesma-Amaro
Published in: Science Advances, Issue 23752548, 2022, ISSN 2375-2548
Publisher: Sciences Advanced
DOI: 10.1126/sciadv.abm5091