Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes

Sébastien Colin (1, 2) , Luis Pedro Coelho (2) , Shinichi Sunagawa (2) , Chris Bowler (3) , Eric Karsenti (3, 2) , Peer Bork (2) , Rainer Pepperkok (2) , Colomban de Vargas (1)

1 EPEP - Evolution des Protistes et Ecosystèmes Pélagiques
2 EMBL - European Molecular Biology Laboratory [Heidelberg]
3 IBENS - Institut de biologie de l'ENS Paris

We present a 3D-fluorescence imaging and classification tool for high throughput analysis of microbial eukaryotes in environmental samples. It entails high-content feature extraction that permits accurate automated taxonomic classification and quantitative data about organism ultrastructures and interactions. Using plankton samples from the Tara Oceans expeditions, we validate its applicability to taxonomic profiling and ecosystem analyses, and discuss its potential for future integration of eukaryotic cell biology into evolutionary and ecological studies.

Domaines: Sciences du Vivant [q-bio]

Sébastien Colin, Luis Pedro Coelho, Shinichi Sunagawa, Chris Bowler, Eric Karsenti, et al.. Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes. eLife, 2017, 6, pp.e26066. ⟨10.7554/eLife.26066⟩. ⟨hal-01633659⟩