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Jonas Stenløkke Madsen

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3 days ago

Postdoc in Microbial Single-Cell Genomics and Transcriptomics University of Copenhagen in Denmark

Degree Level

Postdoc

Field of study

Biology

Funding

24-month full-time postdoctoral position funded by the Villum Foundation; salary supplement negotiation is possible under the Danish academic salary agreement.

Deadline

Nov 19, 2026

Country flag

Country

Denmark

University

University of Copenhagen

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Keywords

Biology
Single-cell Analysis
Sequencing Technology
Heterogeneity
Bacteria
Digital Pcr
Bacterial Genetics
Methodology Development
Bioinformatic

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About this position

This full-time postdoctoral position is based in the Social Systems Microbiology research group at the Section of Microbiology, Department of Biology, University of Copenhagen. The project is centered on developing and applying single-cell transcriptomic and genomic approaches to prokaryotes, with a particular emphasis on bacteria and archaea and on protocols for capturing extrachromosomal elements and their transcripts.

The postdoc will work on a method-driven, exploratory basic research project addressing phenotypic heterogeneity in microorganisms—specifically, why genetically identical cells can form distinct phenotypic subpopulations and what mechanisms generate this diversity. The work combines wet-lab protocol development with sequencing and downstream data analysis, with scope to adapt and refine approaches across a diverse set of microbial systems.

Research activities include cultivating bacteria and archaea, developing and optimising methods for isolating and sequencing extrachromosomal DNA and associated transcripts, applying single-cell omics strategies to prokaryotes, and quantifying DNA and RNA using qPCR and digital PCR alongside bulk DNA and RNA sequencing. The role also includes analysing sequencing data, publishing results, and contributing to the scientific life of the group.

The position is embedded in an international and collaborative microbiology environment with access to state-of-the-art facilities. The group studies the molecular biology, ecology and evolution of bacterial interactions and offers a supportive setting where ideas are shared openly and researchers are encouraged to develop their own research directions.

The position is supervised by Associate Professor Jonas Stenløkke Madsen.

Funding details

24-month full-time postdoctoral position funded by the Villum Foundation; salary supplement negotiation is possible under the Danish academic salary agreement.

What's required

Applicants must hold a PhD in microbiology, microbial biotechnology, molecular biology or a related field. The post requires hands-on experience with molecular methods and DNA and/or RNA sequencing library preparation, basic bioinformatic skills for analysing sequencing data (e.g. in R or Python), the ability to work independently while collaborating well in a team, and excellent written and spoken English. Experience with prokaryotic single-cell omics methods, method development, troubleshooting and adapting protocols, and cultivating diverse bacteria and/or archaea is strongly advantageous.

How to apply

Apply electronically via the APPLY NOW link. Submit a cover letter of max. 1 page, a CV, diplomas for Master and PhD degrees or equivalent, and a complete publication list. The application must be in English.

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Professors

Associate Professor at University of Copenhagen

University Name
Country flag

Denmark

Research Interests

Bacteria

Biology

Methodology Development

Heterogeneity

Single-cell Analysis