PhD position in Bottom-up Bioenergetics and Cell Metabolism

Kanton Bern; Bern; On-site; CHF 70,000 - 110,000; Full time

Benefits offered by this job

Structured doctoral training

Collaborative environment

Strong research infrastructure

International network

Job summary

Kanton Bern seeks a PhD candidate to advance bottom-up synthetic biology by coupling ATP and NAD(P)H regeneration modules to cell-like metabolic pathways. You will implement energy-coupled reaction networks, and encapsulate reaction systems into giant vesicles, exploring self-sustaining compartments for potential biomedical applications.

The four-year SNSF project involves collaboration across institutions (ETH Zürich and University of Bern) and aims at enabling programmable artificial cells for

Qualifications

• MSc degree in biochemistry, molecular biology, biophysics, biotechnology or a related field.
• Experience in protein purification, enzymology, membrane proteins, cell-free systems, fluorescence microscopy or kinetic modelling is beneficial.
• Strong interest in quantitative biochemistry, bioenergetics and synthetic biology.
• Ability to work in an interdisciplinary, collaborative environment.
• Good communication skills in English.

Responsibilities

• Establish and characterise ATP- and NAD(P)H-dependent reaction networks and couple them to metabolic and biosynthetic processes, such as cell-free protein synthesis.
• Purify and reconstitute membrane proteins into liposomes and GUVs.
• Characterise kinetics, stability and energetic efficiency using spectroscopic techniques and fluorescence microscopy, and support this with quantitative modelling.
• Collaborate closely with the Stavrakis/deMello group at ETH Zürich on microfluidic vesicle production and apply these technologies at the University of Bern.

Skills

Protein purification

Enzymology

Membrane proteins

Cell-free systems

Fluorescence microscopy

Kinetic modelling

Quantitative biochemistry

Bioenergetics

Synthetic biology

Interdisciplinary collaboration

English communication

Education

MSc in Biochemistry

Job description

Project Description

Bottom-up synthetic biology aims to build cell-like systems from defined molecular components. A key challenge is energy: living cells require a continuous supply of ATP and NAD(P)H to drive metabolism, biosynthesis and transport, and any synthetic cell needs the same.

Project Description

Bottom-up synthetic biology aims to build cell-like systems from defined molecular components. A key challenge is energy: living cells require a continuous supply of ATP and NAD(P)H to drive metabolism, biosynthesis and transport, and any synthetic cell needs the same. The von Ballmoos group is an ambitious and interdisciplinary team that has been pioneering different ATP regeneration modules that mimic oxidative phosphorylation and photophosphorylation by co-reconstitution of relevant proteins into liposomes. Combined with enzymatic NADH regeneration, these modules can already power ATP- and NADH-dependent enzyme cascades in vitro. Building on this, the PhD project aims to couple our energy and cofactor regeneration modules to cell-like metabolic pathways, including biosynthetic reactions such as protein production, and to understand how such coupled systems can be maintained and controlled over time. Selected reaction networks will then be encapsulated into giant unilamellar vesicles (GUVs) to create increasingly cell-like systems. The position is embedded in a four-year SNSF project jointly awarded to the von Ballmoos group and the Stavrakis/deMello group at ETH Zürich, which develops microfluidic technologies for the generation and manipulation of synthetic vesicles. The PhD student will be part of a team working on complementary aspects of the project across both institutions. Beyond fundamental questions, the project will design these systems with applications in mind: as self-sustaining compartments for the sustainable production of fine chemicals, or as programmable artificial cells for biomedical use.

What You Will Do

• Establish and characterise ATP- and NAD(P)H-dependent reaction networks and couple them to metabolic and biosynthetic processes, such as cell-free protein synthesis
• Purify and reconstitute membrane proteins into liposomes and GUVs
• Characterise kinetics, stability and energetic efficiency using spectroscopic techniques and fluorescence microscopy, and support this with quantitative modelling
• Collaborate closely with the Stavrakis/deMello group at ETH Zürich on microfluidic vesicle production and apply these technologies at the University of Bern

Requirements

• MSc degree in biochemistry, molecular biology, biophysics, biotechnology or a related field
• Experience in protein purification, enzymology, membrane proteins, cell-free systems, fluorescence microscopy or kinetic modelling is beneficial
• Strong interest in quantitative biochemistry, bioenergetics and synthetic biology
• Ability to work in an interdisciplinary, collaborative environment
• Good communication skills in English

Your Benefits

• Structured doctoral training within the Graduate School of Cellular and Biomedical Sciences (GCB)
• Collaborative environment and ambitious team
• Strong research infrastructure and international network
• International reputation