Environmental Genomics with Tara Oceans

Qlife winter school 2024: Quantitative Seascape Ecology of Marine Plankton

Tuesday March 5th

Description

This repository contains the teaching materials for the hands-on digital workshop on Environmental Genomics as part of the Qlife Winter Schoole 2024 (Quantitative Seascape Ecology of Marine Plankton). This workshop is taught by Tom Delmont (Genoscope), Lucia Campese (Napoli) and Lucas Paoli (Pasteur).

Schedule

Time	Topic	Instructor	Location
09:00 - 10:00	Talks	Tom & Lucas	Room Favard
13:30 - 17:00	Digital Workshop	Tom, Lucia & Lucas	Room 313

*Flexible time to continue afterwards or on Friday in the Open Workshop Session

Before arriving at the workshop

0. You can familiarize yourself with unix (here and/or here) and conda

1. You must have Anvi'o v8 installed on your laptop, see anvio.org/install/.

Morning talks

Tom & Lucas will (1) introduce environmental genomics, (2) describe automatic binning and genomic resources, (3) use evolutionary environmental genomics to shed new light on the viral world, and (4) use global scale environmental genomics to explore the biosynthetic potential of the ocean microbiome.

The presentations will be uploaded in the corresponding folder.

Digital workshop

Please go to the corresponding folder and follow the instructions.

Literature & links

You can further information under the following links:

• https://anvio.org/learn/
• https://www.nature.com/articles/s41586-023-05962-4
• https://www.nature.com/articles/s41586-022-04862-3
• https://microbiomics.io/ocean2