Scientific Programme - Applied Synthetic Biology in Europe Conference

4 November
5 November
6 November
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4 November
Wednesday
Manchester
Registration
4 November
Manchester
12:00 - 13:00
Opening
4 November
Manchester
13:00 - 13:15
Welcome and introduction
Neil Dixon
University of Manchester
Verena Siewers
Chalmers University of Technology
Opening Keynote Lecture
4 November
Manchester
13:15 - 14:00
Engineering yeast cell factories for applications in food and agriculture
13:15 - 14:00
Irina Borodina
DTU - Technical University of Denmark
SUMMARY

Keynote lecture

Session 1.1: Factory – synthetic biology for clean growth
4 November
Manchester
14:00 - 15:20
Introduction - Session 1
14:00 - 14:05
Automated evolutionary engineering: a synthetic biology platform for bioeconomy growth
14:05 - 14:35
Adam Feist
SUMMARY

Invited speaker

CoMuTER 2.0: a Cas3-based platform for confined, kilobase-scale in vivo mutagenesis
14:35 - 14:50
Julian E Prieto-Vivas
VIB
Flash talks I
14:50 - 15:20
Coffee break and meet the speakers
4 November
Manchester
15:20 - 16:00
Session 1.2: Factory – synthetic biology for clean growth
4 November
Manchester
16:00 - 18:00
Renewable biological production of the green solvent anisole using Pseudomonas putida
16:00 - 16:15
Micaela Chacon
University of Manchester
Towards a standardized genetic toolbox for Lacticaseibacillus casei BL23
16:15 - 16:30
Luna Declerck
Centre for Synthetic Biology-Ghent University
Engineering Caldimonas thermodepolymerans as a thermophilic chassis for circular PHA bioproduction
16:30 - 16:45
Pavel Dvorak
Masaryk University
Engineering a synthetic cellulolytic Escherichia coli platform for textile cotton waste valorization
16:45 - 17:00
Daniela Gomes
University of Minho - Centre of Biological Engineering
Lactic acid from CO2 using the synthetic autotroph Komagataella phaffii
17:00 - 17:15
Michael Baumschabl
ACIB GmbH
Flash talks II
17:30 - 18:00
Poster session 1 (posters 1-45)
4 November
Manchester
18:00 - 20:00
Click below to view the posters and presenting authors.
SUMMARY
Posters
1 Disarming bacteria: a discovery platform for pathoblocker peptides
Maximilian Otto, Chalmers University of Technology, Sweden
2 Bi-level diversity optimisation for representative protein panel selection
Zhen Ou, Newcastle University, United Kingdom
3 Hydrogel supported co-culture biofilms of lactobacilli and phytoplankton for sustainable production of lactic acid
Viola Modenese, INM - Leibniz Institute for New Materials, Germany
4 AI driven discovery and design of cold-active alkaline alpha-amylase biocatalysts for sustainable detergents
Theodore Quinlan, Newcastle University, United Kingdom
5 Access to herbicidal fungal specialized metabolites
Francis Owuna Enyi, Leibniz Institute of Plant Biochemistry, Germany
6 Engineering biosensors for the screening of novel hydrolases against phthalate-based polymers in Acinetobacter baylyi ADP1
Alba Calonge García
7 Overcoming noise in bio-computing: engineering living computers with phase-based logic
Luiza Konkina, Newcastle University, United Kingdom
8 Sense, respond, recover: a biosensor-guided surface display strategy for adaptive multi-metal recovery
Viktor Van der Mensbrugghe, CSB – Centre for Synthetic Biology – Ghent University, Belgium
9 3R’s – react, respond and regulate. Designing a periplasmic stress responsive system that promotes tunability of recombinant protein production in bacteria
Ashwathi Valiyaparambil, School of Chemical Engineering, University of Birmingham, United Kingdom
10 Shining a light on solvent tolerance mechanisms: biosensor-based insights into intracellular solvent concentrations in Pseudomonas taiwanensis VLB120
Tobias Probanowski, Forschungszentrum Jülich GmbH, Germany
11 Engineering membrane targeting for functional expression of plant cytochrome P450 enzymes in bacteria
Miguel De Block, Ghent University - Biotechnology - CSB, Belgium
12 Modified metal-organic framework based multi-enzyme nanoreactors for in vitro drug biosynthesis and pathway transplantation into cells
Manar Farooqui, King Abdullah University of Science and Technology, Saudi Arabia
13 Engineering yeast as an orthogonal chassis for GPCR functional characterization and drug discovery
Elena Velazquez, University of Copenhagen, Department of Plant and Environmental Sciences, Denmark
14 Programmable transcriptional networks with recombination and CRISPR activation
Andrew Gutierrez, University of New Mexico, United States
15 Recoding regulation to boost methanol assimilation in Escherichia coli
Antoine Berger, Toulouse Biotechnology Institute, France
16 Genetic circuit-based stress-proofing of Cereibacter sphaeroides microbial cell factories
Carla Gil Piñeira, Ghent University, Belgium
17 Biofunnelling of plastic waste-derived paraffins into dicarboxylic acids through the non-conventional yeast Yarrowia lipolytica
Joost Woestenborghs, VIB/KU Leuven, Belgium
18 Synthetic biology as a tool for (mycelium) material functionalisation
Hannelore Wilssens, Ghent University, Belgium
19 Improving the properties of mycelium materials through fungal-bacterial cocultures
Marc Kessels Solé, Centre for Synthetic Biology - UGhent, Belgium
20 SynThera: biocontainment strategy for therapeutic Escherichia coli Nissle 1917
Alina Kuzembayeva, Leibniz Institute for Natural Product Research and Infection Biology, HKI, Germany
21 Engineering cargo release in Pseudomonas putida via autolysis: from inducer-dependent to autoinducible, growth-dependent systems
Matúš Pešta, Masaryk University, Czech Republic
22 Biosensor-guided screening and engineering of yeast aquaporins for xylitol transport – a platform for microbial cell factory optimization
Lobke Sips, Ghent University - Centre for Synthetic Biology, Belgium
23 Ocean plastisphere study: harnessing deep-sea microbes for plastic degradation
Erin Garza, J. Craig Venter Institute, United States
24 Structure and function of P. aeruginosa targeting endolysin PAX as a novel antimicrobial
Mackenzie Aitken, University of Canterbury, New Zealand
25 How to design a pathogen-killing microorganism?
Alexandre Chamas, Institute of Microbiology, Friedrich Schiller University Jena, Germany
26 Bursting with benefits: asynchronous lysis for cell factories
Miguel Silva, Department of Experimental Biology, Faculty of Science, Masaryk University, Brno, Czech Republic
27 High-throughput sequence–function mapping in Saccharomyces cerevisiae for system engineering
Izabella Pomykalska, Laboratory of Synthetic and Applied Microbiology (LSAM), École Polytechnique Fédérale de Lausanne (EPFL), Switzerland
28 Co-utilization of hexose and acetate by Saccharomyces cerevisiae for bioproduction
Anthony Carneiro, Toulouse Biotechnology Institute, France
29 Decoding the regulatory landscape of synthetic methylotrophy in Escherichia coli
Léa Breton, Toulouse Biotechnology Institute, France
30 High-throughput sequence-function mapping for biosensor engineering
Ricardo Javier Farrera Muro, EPFL, Switzerland
31 Molecular recognition of the renewable monomer 2,5-furandicarboxylic acid by the transcription factor HmfR
Lani Peel, University of Manchester, United Kingdom
32 Using biomolecular condensates as a tool to enhance the mevalonate pathway towards rapid isoprenoid biosynthesis
Myles Landon, University of Canterbury, New Zealand
33 Structural modelling and recombinant production of phage endolysins targeting zoonotic bacterial pathogens with antimicrobial resistance
Ana Torrejón Cabello, AINIA, Spain
34 Untangling metabolic and gene expression constraints in E. coli cell factories with systems modelling and high throughput experimentation
Sepideh Bourenjanshirazi, University of Warwick, United Kingdom
35 Just-in-time gene delivery for toxic protein production using phage Lambda (λ)
Flo Baert, KU Leuven, Belgium
36 High-throughput artificial olfaction for the discovery and classification of lignin-derived fragrance molecules
Cecilia Roque, NOVA University Lisbon - UCIBIO, Portugal
37 Exploring yeasts isolated from the Brazilian biodiversity for the bioconversion of lignin-derived aromatic compounds
Fernanda Miyuki Kashiwagi, Brazilian Center for Research in Energy and Materials (CNPEM), Brazil
38 Reprogramming a pathogen as a vaccine: phage-inspired attenuation of Pseudomonas aeruginosa
Riet Dehaene, KU Leuven, Belgium
39 Turning toxicity into productivity: transcription factor-based growth coupling for stable production of hydrophobic aromatics in Pseudomonas taiwanensis
Alina Grankin, Forschungszentrum Jülich, Germany
40 Engineering logic gates that work across many bacteria
Panagiotis Gklekas, Centro Nacional de Biotecnología, CNB-CSIC, Spain
41 TBC
42 TBC
43 TBC
44 TBC
45 TBC
Welcome reception
4 November
Manchester
19:00 - 21:00
Session 2.1: Pharma – synthetic biology for medicine and health
5 November
Manchester
8:55 - 10:30
Introduction - Session 2
8:55 - 9:00
TBC
9:00 - 9:30
Jennifer Molloy
University of Cambridge and ICGEB
SUMMARY

Invited speaker

Engineering microbes and microbiota for practical applications
9:30 - 9:45
Tae Seok Moon
J. Craig Venter Institute
Sustainable manufacturing of pharmaceuticals using novel cellular systems: from discovery to industrial translation
9:45 - 10:00
Jonathan Jones
CPI
CRISPR-based targeted genomic integration enables modular strain engineering in Komagataella phaffii for biopharmaceutical production
10:00 - 10:15
Daniel Degreif
SANOFI (Sanofi-Aventis Deutschland GmbH)
Improving the activity of heterologous redox enzymes by engineering Synechocystis chassis with streamlining the electron flow
10:15 - 10:30
Filipe Pinto
i3S - Instituto de Investigação e Inovação em Saúde
Coffee break and meet the speakers
5 November
Manchester
10:30 - 11:00
Session 2.2: Pharma – synthetic biology for medicine and health
5 November
Manchester
11:00 - 12:45
Programming protein assembly and function for synthetic cellular decisions
11:00 - 11:45
Roman Jerala
National Institute of Chemistry
SUMMARY

Keynote lecture

Overcoming enzyme-limited bio-upcycling of terephthalic acid to adipic acid with machine learning-guided protein engineering
11:45 - 12:00
John Steele
University of Edinburgh
Reprogramming transporters and metabolic flux in Yarrowia lipolytica for sustainable organic acid production
12:00 - 12:15
Cosetta Ciliberti
University of Bari Aldo Moro
Toward synthetic Acetobacterium woodii cell factories for efficient bioproduction from methanol and formate
12:15 - 12:30
Stefan Pflügl
TU Wien
Turning non-pathogenic yeasts into powerful long-chain dicarboxylic acid production hosts
12:30 - 12:45
Inge Van Bogaert
Ghent University
Lunch (change of posters)
5 November
Manchester
12:45 - 13:55
Session 3.1: Farm and field– synthetic biology for agriculture and the environment
5 November
Manchester
13:55 - 15:30
Introduction - Session 3
13:55 - 14:00
Synthetic expansions of plant metabolism
14:00 - 14:30
Nicola Patron
University of Cambridge
SUMMARY

Invited speaker

Development of survival switches in bacteria for active biocontainment in engineered living materials
14:30 - 14:45
Victoria Pinto
INM - Leibniz Institute for New Materials
Multiplexed microbial whole-cell environmental biosensing using optical and electrochemical reporters within the safe and sustainable by design framework
14:45 - 15:00
Nathan Haasbroek
Wageningen University and Research
Flash talks III
15:00 - 15:30
Coffee break and meet the speakers
5 November
Manchester
15:30 - 16:00
Session 3.2: Farm and field– synthetic biology for agriculture and the environment
5 November
Manchester
16:00 - 17:15
From precision fermentation to artificial micelles: functional assembly of recombinant bovine caseins
16:00 - 16:15
Ainoa Escrich
AINIA
Industrial application of synthetic biology for producing flavour and fragrance ingredients
16:15 - 16:30
Matthew Styles
Isobionics/BASF
Flash talks IV
16:30 - 17:15
Poster session 2 (posters 51-90)
5 November
Manchester
17:15 - 19:15
Click below to view the posters and presenting authors.
SUMMARY
Posters
51 Teaching an old yeast new tricks: engineering the multi-stress tolerant yeast Issatchenkia orientalis for Sargassum macroalgal substrate valorization
Elijah Gallimore-Repole, Princeton University, United States
52 The membrane-bound transhydrogenase of E. coli is reversible in vivo
Jenny Bakker, WageningenUR, Netherlands
53 Expanding the promoter toolbox for N. oceanica: hybrid and synthetic designs for tunable expression
Jose Cachay Morante, University of Sheffield, United Kingdom
54 Engineering Vibrio natriegens for indigoidine production from acetate
Anna Maria Erian, BOKU University, Austria
55 Scalable production and activity-preserving conjugation of a clickable nickel–iron hydrogenase in Escherichia coli  
Qin Fan, Biotechnology Institute, Technische Universität Berlin, Germany
56 Bacterial protein aggregates as symmetry breaking logic gate for engineering cell differentiation in Escherichia coli
Sara Heylen, KU Leuven, Belgium
57 Microbial biosynthesis of novel methylated natural products assisted by high-throughput enzyme screening
Diego Rosas, Wageningen University & Research, Netherlands
58 Decoding plasmid-chromosome crosstalk to engineer programmable conjugative plasmids for microbial gene delivery
Ana Gabriela Veiga Sepulchro, University of Manchester / Manchester Institute of Biotechnology, United Kingdom
59 Long-term adaptive laboratory evolution of Saccharomyces cerevisiae for high-titer lactic acid production at low pH
Martin Altvater, BOKU University, Austria
60 Monitoring of Zika-VLP production by 2D fluorescence spectroscopy and multi-way partial least squares
Júlia Dezanetti da Silva, University of São Paulo (USP), Brazil
61 Dynamic characterisation and design of magneto-responsive proteins
Aoife McLoughlin, University of Oxford, United Kingdom
62 Modular yeast engineering via genomic cassette swapping for the biomanufacturing of plant natural products
Francesco Bellusci, University of Milano - Bicocca, Italy
63 A modular synthetic biology platform for converting renewable C6 intermediates toward medium-ring lactones
Robson Tramontina, Manchester Institute of Biotechnology, United Kingdom
64 Molecular recognition of the renewable monomer 2,5-furandicarboxylic acid by the transcription factor HmfR
Bhumishree Bhumisuta Dehury, University of Manchester, United Kingdom
65 Systems and synthetic biology approaches to nitrogen heterocycle production in Pseudomonas putida
Philip Le Roy, Manchester Institute of Biotechnology, United Kingdom
66 A Gram-positive modular receptor platform for biomarker detection
Jens Cremers, KU Leuven - VIB CfM, Belgium
67 Synthetic biology approaches to heterologous glycosylation in Saccharomyces cerevisiae
Hayden Edwards, University of Nottingham, United Kingdom
68 Complementary yeast biosensors for intracellular and extracellular lactate
Xiang Li, Chalmers University of Technology, Sweden
69 Functional synthetic biology for production of biopolymers, and enhancement of functional food and plant hormones
Raul Cuero, Scientist-Independent Biotechnology Consultant, United States
70 Engineering a robust Pseudomonas putida cell factory for enhanced isobutanol production
Ruiting Zhang, University College London, United Kingdom
71 Developing a therapy for pulmonary fibrosis using Mycoplasma
Javier Gonzalez de Miguel, Centre for Genomic Regulation, Spain
72 Sentinel bacteria: engineering Pseudomonas fluorescens biosensors to sense and record soil health
Louis Perrin, Earlham Institute, United Kingdom
73 Engineering synthetic plant artificial chromosomes (synPACs)
Daria Cuthbert, Earlham Institute, United Kingdom
74 Chemical profiling reveals a transporter required for organic acid tolerance in yeast that improves 2G chemicals production
Thais dos Reis
75 Biosensor-guided investigation of citramalate and mesaconate metabolism and its regulation in Cupriavidus necator H16
Rizkallah Al Akiki Dit Al Mazraani, Kaunas University of Technology, Lithuania
76 Metabolic engeneering in microalgae: regulation of the arginine metabolism for sustainable lipid production for biofuels
Vital Pegorin Oliveira, University of São Paulo, Brazil
77 Sampling catalytic space beyond nature's invention: automated active-site discovery feeding computational enzyme design
Audrius Laurynėnas, Vilnius University, Lithuania
78 Recombinant production and bioactivity of a crotamine-arenin chimera
Mario Emmanuel Barocio Padrón, Instituto Tecnológico y de Estudios Superiores de Monterrey, Mexico
79 Characterization of synthetic degron tags based on Sic1 in Saccharomyces cerevisiae
Aleksandra Panfilova, University of Copehagen, Estonia
80 CSIR–NRF Chair for Biofoundry: development of one of the first in Africa Bio-foundry labs, with the phase I focus on South Africa synthetic biology roadmap
Deepak Balaji Thimiri Govindaraj, Council for Scientific and Industrial Research - Biosciences CSIR, South Africa
81 CRISPR-Cas9-mediated integration of geraniol synthase enables geraniol production in a pre-engineered Yarrowia lipolytica chassis
Solange Grace Barrios Gutierrez, University of São Paulo, Brazil
82 Reversible assembly of AP205 bacteriophage virus-like particles for hybrid therapeutics
Naomi Shucun Li, School of Chemical, Materials and Biological Engineering, The University of Sheffield, United Kingdom
83 Development and validation of high-sensitivity, wide-dynamic-range open-source platform for real-time quantitative fluorescence monitoring in microbial cultures
Juan Rico Molins, Institute for Integrative Systems Biology (I2SysBio, UV-CSIC), Spain
84 Characterization of esterase GDest-rm1 for enzymatic conversion of polyethylene terephthalate degradation intermediates
Antanas Padaiga, Vilnius University, Lithuania
85 Engineering cscR-binding operator sequences for dynamic metabolic control of sucrose consumption
Álvaro Gómez, National Centre for Biotechnology, CNB-CSIC, Spain
86 The Phoenix System: rising from the ashes of genetic instability
David Benk Vysloužil, Masaryk University, Czech Republic
87 Exploratory integration of metabolic and agent-based models for tumour progression simulations
Ana Silva, ITQB-NOVA, Portugal
88 Engineering nitrogenase electron-transport component in Saccharomyces cerevisiae
Laura Cutugno, Centro de Biotecnología y Genómica de Plantas/CSIC, Spain
89 Developing engineered whole-cell bacterial biosensors for speciation in patients suspected of bacteraemia
Hung Sang Chan, Sheffield Hallam University, United Kingdom
90 Enabling online monitoring of secreted recombinant protein production with GFP-based sensors in Komagataella phaffii
Guillem Lopez-Grado i Salinas, Universitat Autònoma de Barcelona, Spain
Conference dinner
5 November
Manchester
18:30 - 20:30
Session 4.1: Computational design technologies for synthetic biology
6 November
Manchester
8:55 - 10:30
Introduction - Session 4
8:55 - 9:00
Unlocking new biotechnological space through AI-guided strain design and next-generation modular pathway engineering
9:00 - 9:30
Juan Nogales
Centro Nacional de Biotecnología, CSIC
SUMMARY

Invited speaker

Automated single-step assembly and genome engineering in Saccharomyces cerevisiae
9:30 - 9:45
Arianna Candreva
ETH Zürich D-BSSE
Learning the hinge from nature: evolution-guided generative design of functional chimeric transcription factor biosensors
9:45 - 10:00
Brecht De Paepe
Ghent University - Centre for Synthetic Biology
Exploration of large sequence spaces by HTP experimentation and deep learning
10:00 - 10:15
Markus Jeschek
Swiss Federal Institute of Technology Lausanne (EPFL)
Computer-guided active-site engineering of PETase mutants for improved PET degradation using an in silico automated enzyme engineering platform
10:15 - 10:30
Alexandra Balola
ITQB NOVA
Coffee break and meet the speakers
6 November
Manchester
10:30 - 11:00
Session 4.2: Computational design technologies for synthetic biology
6 November
Manchester
11:00 - 11:15
Challenges and opportunities in engineering the bacterial cell membranes for industrial biotechnology
11:00 - 11:15
Gavin Thomas
University of York
Closing Keynote Lecture
6 November
Manchester
11:15 - 12:00
Automated labs and AI- opportunities and challenges for generative and engineering biology
11:30 - 12:15
Paul Freemont
Imperial College London
SUMMARY

Keynote lecture

Closing ceremony
6 November
Manchester
12:00 - 12:15
Presentation, poster awards and closing words
12:00 - 12:15
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