$10 – $200

Exploring the phylogenetic composition of microbiomes - June 2018

Event Information

Share this event

Date and Time

Location

Location

Room 121 LSK

Leonard S. Klinck Building

6356 Agricultural Rd

Vancouver, BC V6T 1Z2

Canada

View Map

Refund Policy

Refund Policy

No Refunds

Event description

Description

About the Workshop

Microorganisms are the most widespread form of Life on Earth, inhabiting most ecosystems (from animal guts to the deep ocean) and driving the bulk of global biogeochemical cycles. Yet, we still know little about the diversity distribution of microbiomes. Recent technical progresses, and in particular massive production of amplicon data --typically 16S reads-- have started to unravel microbiome diversity patterns. However, many questions remain. For example, what microbial unit should we use to study microbiome compositional patterns (i.e. beta-diversity)? Should we use OTUs defined at 97% 16S similarity?

In this workshop, we propose to tackle this question by exploring the phylogenetic composition of microbiomes, thus avoiding a priori choices of microbial units. We will provide theoretical background and practical examples of such analysis using R.

You will learn:

  • the pros and cons of taking a phylogentic approach to microbiome data analysis
  • how to build phylogenetic trees from amplicon sequence data using FastTree
  • how to visualize phylogentic trees in R
  • how to calculate, visualise, and statistically assess beta-diversity in R


Lunch provided

This is an all-day workshop with lunch provided. If you have any dietary restrictions, please contact ECOSCOPE at info.ecoscope@ubc.ca


Pre-requisites

ECOSCOPE workshops "Introduction to R" or "Advanced introduction to R", EDUCE modules in MICB 301/405/425/421, or equivalent knowledge of R.

If you do not have prior R experience or would like a refresher, we strongly recommend taking our condensed Introduction to R workshop earlier in the week.


MRN students

Microbiome Research Network (MRN) students should contact info.ecoscope@ubc.ca with 1) their name, 2) their PI's name, and 3) the name of the workshop to receive a registration code.


About the instructors

Florent Mazel is a postdoctoral fellow at UBC in the Biodiversity Research Centre in the Parfrey lab. He obtained his PhD at the University of Grenoble (France) studying the biogeography and evolution of mammals and birds at a global scale. He recently moved his focus to microbes and now asks how host-associated microbiomes evolved (or co-evolved) with their hosts.

Jonathan Sanders is a postdoctoral fellow at University of California at San Diego in the Knight lab. Jon explores the diversity of animal-associated microbes in the present day and then seeks to use these associations to make inferences about their histories. He then seeks to use these stories to understand the rules governing these complex communities to make informed decisions about their preservation and management.


Contact

For questions or further inquiries, please contact ECOSCOPE at info.ecoscope@ubc.ca

For more events, take a look at our event calendar


No transfers or refunds.

Share with friends

Date and Time

Location

Room 121 LSK

Leonard S. Klinck Building

6356 Agricultural Rd

Vancouver, BC V6T 1Z2

Canada

View Map

Refund Policy

No Refunds

Save This Event

Event Saved