PuntSeq: Chasing the invisible diversity of algal and microbial life forms in freshwater with a portable DNA-sequencer

Here we present PuntSeq, a toolbox and workflow to facilitate realtime monitoring of algal, bacterial and viral diversity in aquatic field work situations.

The Idea

Our team combines knowledge and know-how from very different study backgrounds with the curiosity to learn about and share experiences on cutting-edge portable DNA sequencing technology. We will design and openly distribute a template for production of a suitable mini-lab for the Oxford nanopore MinION sequencing device and its complementary equipment, in addition to writing and adapting software for processing large volumes of DNA sequencing data. Combined, this will serve in the study and categorisation of aquatic algal and microbial life communities at different sites of our city's river, the Cam. The core of this project is to make the complex field of DNA sequencing accessible to non-life scientists, by enabling a simple hands-on experience. We will hold regular PuntSeq workshops for interested individuals and organisations to teach them about state of the art DNA sequencing, its vast applications and benefits in a broader picture.

The Team

Mr Maximilian Stammnitz,
Graduate student, Department of Veterinary Medicine, University of Cambridge

Ms Meltem Gürel,
Graduate student, Cancer Research UK Cambridge Institute, University of Cambridge

Dr Philipp Braeuninger-­Weimer,
Postdoctoral researcher, Centre of Advanced Photonics and Electronics, University of Cambridge

Mr Daniel Elías Martin-­Herranz,
Graduate student, European Bioinformatics Institute, Wellcome Trust Genome Campus, University of Cambridge

Mr Daniel Kunz,
Graduate student, Wellcome Trust Sanger Institute, University of Cambridge

Mr Christian Schwall,
Graduate student, Sainsbury Laboratory, University of Cambridge

Ms Lara Urban,
Graduate student, European Bioinformatics Institute, University of Cambridge,

Ms Surangi Perera,
Graduate student, Department of Physiology, Development and Neuroscience, University of Cambridge

Ms Eirini Vamva,
Graduate student, Department of Medicine, University of Cambridge,

Ms Astrid Wendler,
Graduate student, Department of Clinical Neuroscience, University of Cambridge,

Project Outputs

Project Report

This project is due to report in 2018.

Project Proposal

Original proposal and application


Project Resources

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