14 Nov 18 Nov
November 14-18, 2022 | BIOPOLIS/CIBIO-InBIO, Vairão, Portugal
University of Porto
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THE ARCHAEOGENOMICS OF DOMESTIC ANIMALS






THE ARCHAEOGENOMICS OF DOMESTIC ANIMALS

 POSTPONED, November 14-18, 2022 
BIOPOLIS/ CIBIO-InBIO, Vairão, Portugal 
(The course will take place in a classroom context)

Diachronic genetic studies are required in order to infer the origins and evolutionary trajectories of domestic animals. Data spanning long time scales from zooarchaeological specimens allow the investigation of genomic variation within populations over time. Analysis of ancient DNA opens a direct window into the past for reconstruction of the genetic history of animal populations.

The objective of this course is to provide an overview of the most recent Archaeogenomics findings on the origin and evolution of domestic animals. It will also cover some of the recommended bioinformatics tools and methods for the study of ancient DNA genomics data. There will be hands-on sessions, including bioinformatics on how to filter, infer damage patterns and authenticate next-generation-sequencing data obtained from archaeological specimens, as well as on population genomics. One invited speaker in Archaeogenomics will also contribute to the course.

At the end of the course students should understand the importance of including genomic data concerning past populations to make evolutionary inferences, as well as get familiar with the challenges and peculiarities of ancient DNA analysis.

Topics that will be discussed:

- Animal evolution and population dynamics

- Phylochronological studies

- Domestication events

- Livestock improvement

- Zooarchaeology: radiocarbon dating, isotope analysis and osteometry

- Population Genomics

- Ancient DNA data analysis


PROGRAMME:

November 14

10:00-10:30 – Course Introduction

10:30-11:30 – Zooarchaeology of domestic animals | S Davis & C Detry

12:00-13:00 – Hands-on Zooarchaeology | S Davis & C Detry

14:15-16:00 – Hands-on Zooarchaeology | S Davis & C Detry

16:30-17:30 – The origin and subsequent evolution of the dog | AE Pires

17:30-18:00 – Art & Science: Digital animation – "The Muge dog – a pre-historic friend” | AE Pires

November 15

09:30-11:30 – Recap (30 min). Archaeobotany of domesticated plants | J Tereso

12:00-13:00 - Hands-on Archaeobotany | J Tereso

14:15-16:00 – Genomic studies on aurochs and their domestic counterparts | C Ginja

16:30-17:30 – Hands-on Population Genomics (some practical examples on cattle) | S Guimarães & C Ginja & C Sarmento (to be confirmed)

November 16

09:30-11:30 - Recap (30 min). Demography and Approximate Bayesian
Simulation | R Tournebize & L Chikhi

12:00-13:00 - Hands-on Population demography | R Tournebize & L Chikhi

14:15-16:00 - Hands-on Population demography | R Tournebize & L Chikhi

Coffee break

16:30-17:30 - Hands-on Population demography | R Tournebize & L Chikhi

November 17

09:30-11:30 - Recap (30 min). Bayesian phylogenetic inference of ancient mitogenomes using BEAST | R Rasteiro

12:00-13:00 - Hands-on Archaeogenomics data analysis | C Ottoni

14:15-16:00 - Hands-on Archaeogenomics data analysis | C Ottoni

16:30-17:30 - Hands-on Archaeogenomics data analysis | C Ottoni

November 18

09:30-11:30 - Recap (30 min). Hands-on Archaeogenomics data analysis | C Ottoni

12:00-13:00 – Analysis and Discussion of the BEAST output | R Rasteiro

14:15-15:15 – Concluding session and evaluation. General conclusions.

15:30-16:30 - Senior seminar in Biodiversity & Evolution (open to the scientific community) - Oral microbiomes from the past: reconstructing health, diet and lifestyles through dental calculus analysis - C Ottoni

Total: 28 hour


REQUIREMENTS

Participants are advised to bring their own laptop

All sessions will be in English


COURSE INSTRUCTORS

Catarina Ginja (coordinator) | BIOPOLIS/CIBIO-InBIO | ARCHGEN

Ana Elisabete Pires | BIOPOLIS/CIBIO-InBIO | ARCHGEN

Claudio Ottoni | University of Rome

Cleia Detry | UNIARQ-FLUL

João Tereso |  CIBIO-InBIO-BIOPOLIS/ENVARCH

Lounés Chikhi | Instituto Gulbenkian de Ciência

Rémi Tournebize | Instituto Gulbenkian de Ciência

Rita Rasteiro | University of Bristol

Sílvia Guimarães  | BIOPOLIS/CIBIO-InBIO | ARCHGEN

Simon Davis | LARC-DGPC & BIOPOLIS/CIBIO-InBIO | ENVARCH & ARCHGEN


INTENDED AUDIENCE

The course will be open to a maximum number of 20 participants.


SELECTION CRITERIA

75% of available student slots are reserved for BIODIV students.
 Priority will be given to:
• 1st year and other PhD students attending the BIODIV Doctoral Program;
• PhD students attending other courses;
• Other post-graduate students and researchers.


REGISTRATION

Participation is free of charge for BIODIV students | 95€ (students) | 200€ (other participants). CIBIO-InBIO members will have an additional discount of 20%
.

Please note the rules apply for all BIODIV students


APPLICATIONS OPEN

Registration deadline: October 6, 2022
All applicants will be notified about whether they are accepted until October 12, 2022

Fill out the application form and confirm if you receive a copy in your email confirming the application.        

A copy of this form will be sent to the above e-mail after submission