Population genomics for non-model species

Genome sequencing of model species has yielded important insights into population history, adaptation and speciation. Applying population genomics methods across species with diverse ecologies and evolutionary histories offers great potential, but also can be challenging when applying methods optimised for model species such as humans. 

In this symposium and workshop, we will bring together experienced practitioners in population genomics to highlight both the promise and pitfalls (or lessons learnt). 

The day will begin with a morning of short research presentations from invited speakers to highlight the variety of applications of population genomics in non-model species. Aside from the research outcomes, each presenter has been asked to provide one slide to highlight 'roadblock(s)' experienced and how this was solved (or worked around).

After lunch, we will explore these roadblocks - whether in sequence generation, bioinformatics, or inference - and share possible solutions. One possible outcome is to identify opportunity to develop or extend bioinformatics/inference pipelines for handling population-level sequence data.

You are welcome to join us for the morning presentations, the afternoon discussion, or both.

Schedule

Download here

08:30 

Arrive, coffee

 

08:50 

Craig Moritz

Welcome & Introduction

09:00-12:30

Research presentations

 

09:00

Jeff Good

Rapid neo-sex chromosome evolution and incipient speciation in a major forest pest.

09:30

Leonie Moyle

Using landscape genomics for adaptation genetics: dissecting climate adaptation in wild Solanum.

10:00

Matt Hahn

Long-term balancing selection allows association mapping of ecologically important traits within an inversion in Anopheles gambiae.

10:30

Coffee break

 

11:00

Short presentations (10 min)

 

 

Jason Bragg

Restoration and conservation genomics for plants.

 

Helen Bothwell, Kevin Murray

Landscape genomic association studies in foundation species.

 

Dan Vanderpool

Detection of non-homologous characters in ortholog alignments is important for the accurate estimation of branch concordance factors.

 

Sasha Mikheyev

You can't always get what you want: demographic changes obscure signatures of selection after host shifts by Varroa mites.
  Angela McGaughran Temporal population genomics with a strong selective pressure.
  Allen Rodrigo Evolutionary analysis of pooled unlabelled samples using short-read sequencing
  Tom Walsh, Amanda Padovan Exploring functional and population genomics in agricultural pest species; COI to WGS.

 

Craig Moritz

Progress towards linking phylogenomics and population genomics in marsupials

12:30

Lunch break

 

13:30-17:00

Workshop

Review roadblocks and strategies to address them

13:30

Discuss common issues/opportunities

Generating sequence data for populations; Extracting information from reads; Analysis methods

15:30

Break

 

16:00

Discussion

Is there value in developing better popgen pipelines – what purpose?

17:00

Drinks & pizza

Catcheside Court (Robertson atrium, ground floor)

We will provide light coffee breaks (BYO cup if possible), and refreshments afterwards (5pm). Please register by 5pm Mon 8 April for catering purposes. Lunch will not provided, however the new Kambri precinct is nearby, or if you want to bring your lunch, there are small kitchens with fridges, etc. near the workshop room.

The workshop will be held in the Eucalyptus Seminar Room, Level 2, RN Robertson Building, 46 Sullivans Creek Road, ANU. From the front automatic glass doors (the Little Pickle cafe will be on your right), head up the ramp to the second floor to the back of the building. Information on parking at ANU can be found here and a visitor parking map here.

Date & time

9am–5pm 11 April 2019

Location

Eucalyptus Seminar Room, Level 2 RN Robertson Bldg, ANU

Speakers

Matt Hahn, Leonie Moyle, Dan Vanderpool (Indiana University)
Jeff Good (University of Montana)
Jason Bragg (Royal Botanic Gardens Sydney)
Helen Bothwell, Angela McGaughran, Sasha Mikheyev, Craig Moritz, Kevin Murray, Allen Rodrigo (ANU)
Tom Walsh, Amanda Padovan (CSIRO)

Event series

Contacts

 Claire Stephens

Updated:  22 July 2019/Responsible Officer:  Director/Page Contact:  Coordinator