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Advanced Courses in Life Sciences

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1st Edition

Introduction to Phylogenetic Inference and its Applications

June 26th-30th, 2017, Barcelona (Spain)

Introduction to Phylogenetic Inference and its Applications

The aim of this course is to provide training in conceptual and practical aspects of biological systematics. Emphasis will be on the use of molecular data for phylogenetic inference. We will present and discuss the main methods of phylogenetic inference (parsimony, maximum likelihood and Bayesian inference), evolutionary models, data combinability, the estimation of divergence times and the use of quantitative approaches to species delimitation. We will also discuss several examples about the use of phylogenetic trees to address fundamental biological questions. In hands on computer sessions, we will introduce the most widely used computer programs for building alignments, selecting evolutionary models, inferring trees under alternative assumptions, estimating divergence times and delimiting species. Finally, students will present and discuss the results obtained during the course using their own data or, alternatively, with example cases provided by the instructors.

The course is aimed at advanced undergrads, PhD students, post-docs and faculty interested in the use of phylogenies for addressing evolutionary and ecological questions but with limited background / experience in systematics and phylogenetic inference.

LOCATION

Centre de Restauració i Interpretació Paleontològica (CRIP)

C/ Mestre J. Lladós, 1
08781 Els Hostalets de Pierola, Barcelona (Spain)

How to get there

LANGUAGE

English

COURSE LENGTH & ECTS

32 hours on-site.

This course is equivalent to 2 ECTS (European Credit Transfer System) at the Life Science Zurich Graduate School.

The recognition of ECTS by other institutions depends on each university or school.

PLACES

Places are limited to 20 participants and will be occupied by strict registration order.

Participants who have completed the course will receive a certificate at the end of it.

Instructors

Miquel Arnedo instructor for Transmitting Science

Dr. Miquel Arnedo
Universitat de Barcelona
Spain

Salvador Carranza instructor for Transmitting Science

Dr. Salvador Carranza
Institute of Evolutionary Biology (CSIC-UPF)
Spain

Coordinators

Ana Rosa Gómez-Cano coordinator at Transmitting Science

Dr. Ana Rosa Gómez-Cano
Transmitting Science
Spain

Soledad De Esteban-Trivigno instructor at Transmitting Science

Dr. Soledad De Esteban-Trivigno
Transmitting Science
Spain

Requirements

Basic knowledge of statistics. All participants must bring their own personal laptop.

Program

Monday, June 26th, 2017.

  • Introduction to biological and molecular systematics, the basis and principles of phylogenetic inference.
  • Gene tree vs. species tree. Homology and alignments.
  • Hands on: Data format, Clustal, MAFFT, Gblocks, SeqState.


Tuesday, June 27th, 2017.

  • Morphological data: coding, ordering and polarity.
  • Gap treatment. Implicit weighting. Support and sensibility.
  • Understanding phylogenies.
  • Hands on: Mesquite, TNT.


Wednesday, June 28th, 2017.

  • Evolutionary models and genetic distances.
  • Algorithmic approaches to tree building, Maximum Likelihood and Bayesian Inference. Toplogy test.
  • Hand on: PartitionFinder, jModeltest, MEGA; MrBayes; RaxML, CONSEL.

Thursday, June 29th, 2017.

  • Morphology and Phylogeny, integrating morphological and molecular data.
  • Dating.
  • Hands on: BEAST, *BEAST.


Friday, June 30th, 2017.

  • DNA and Integrative taxonomy: DNA barcoding, species trees and quantitative species delimitation.
  • Hands on: SPLITS (GMYC), BPP.

Previous editions of this course

 

1st Edition, June 26th-30th, 2017

Course Introduction to Phylogenetic Inference and its Applications - 1st Edition, June 26th-30th, 2017Thirteen people belonging to the following countries and institutions participated in this edition:

  • Spain: Universitat de Girona.
  • People’s Republic of China: Hong Kong Baptist University.
  • Poland: Jagiellonian University, Adam Mickiewicz University of Poznan.
  • Czech Republic: National Museum, Charles University.
  • United Kingdom: University of Salford, Royal Botanic Gardens – Kew.
  • Denmark: Natural History Museum of Denmark – University of Copenhagen.
  • Sweden: Uppsala University, Lund University.
  • Japan: Okinawa Institute of Science and Technology Graduate University.

Fees

  • Course Fee
  • Early bird (until December 31st, 2016):
  • 485
  • Regular (after December 31st, 2016):
  • 680
  • This includes course material, coffee breaks and lunches.
    (VAT included)
  • Accommodation Package
  • Early bird (until December 31st, 2016):
  • 360
  • Regular (after December 31st, 2016):
  • 360
  • This includes local transportation, lodging, breakfasts, dinners and social (tourist) activities.
    (VAT included)
  • Course Fee + Accommodation Package
  • Early bird (until December 31st, 2016):
  • 845
  • Regular (after December 31st, 2016):
  • 1,040
  • This includes course material, coffee breaks, local transportation, lodging, breakfasts, lunches, dinners and social (tourist) activities.
    (VAT included)

We offer the possibility of paying in two instalments (contact the course coordinators). Discounts (see Funding below) are not cumulative and apply only on the fee, not to Accommodation Package or other options.

Accommodation

If you take the Accommodation Package you will be hosted in the Youth Hostel Can Roviralta (take a look at the venue), in shared dormitories (common bathrooms), although you will only share rooms with other classmates. The possibility exists that the dormitories will be mixed. Therefore, if this is an inconvenience for you, and you require staying in a dormitory with only women, or only men, please indicate so in the “Comments” field of the Registration form (see below).

A supplemental charge will be added if you prefer to stay in a single room with private bathroom. The number of rooms is limited and if you prefer to have a single room, let us know it as soon as possible. If you want more information on this please contact the course coordinators.

Please be aware that from the centre of Barcelona city it takes about one hour by car and one hour and a half by public transport to arrive to Els Hostalets de Pierola. Course participants will find that staying in Els Hostalets de Pierola is more convenient.

If you do not want the Accommodation Package, accommodation is available in places other than Els Hostalets de Pierola. You may stay in Barcelona city, Martorell or Igualada. You will find information about Hotels in Martorell here, and information about Hotels in Igualada here.

How to get to Els Hostalets de Pierola from Barcelona city, Martorell or Igualada.

Youth Hostel Can Roviralta (Els Hostalets de Pierola, Barcelona, Spain)

Funding

Former participants will have a 5 % discount on the Course Fee.

Unfortunately there are no scholarships available for this course. However a 20 % discount on the Course Fee is offered for members of some organizations (Organizations with discount). If you want to apply to this discount please indicate it in the Registration form (proof will be asked later).

Spanish unemployed scientists, as well as Spanish PhD students without any grant or scholarship to develop their PhD, could benefit from a 40 % discount on the Course Fee. If you want to ask for this discount, please contact the course coordinators. That would apply for a maximum of 2 places and they will be covered by strict inscription order.

Discounts are not cumulative and apply only on the fee, not to Accommodation Package or other options.

Schedule

Course ScheduleCourse + Accommodation Package Schedule
Sunday, June 25th, 201719:00 Meeting point in Plaza Catalunya (Barcelona) to take the bus to Els Hostalets de Pierola. If you are planning to arrive later, you can find more information in How to get there.
20:00 Registration in the Youth Hostel.
20:30 Dinner.
Monday, June 26th through Thursday, June 29th, 20179:30 to 13:30 Lessons.
13:30 to 15:00 Lunch.
15:00 to 17:30 Lessons.

There will be two coffee breaks each day, halfway through each lesson session.

8:30 to 9:00 Breakfast.
9:30 to 13:30 Lessons.
13:30 to 15:00 Lunch.
15:00 to 17:30 Lessons.
20:30 Dinner.

There will be two coffee breaks each day, halfway through each lesson session.

Friday, June 30th, 20179:30 to 13:30 Lessons.
13:30 to 15:00 Lunch.
15:00 to 17:00 Lessons.

There will be a coffee break during the morning lesson session.

8:30 to 9:00 Breakfast.
9:30 to 13:30 Lessons.
13:30 to 15:00 Lunch.
15:00 to 17:00 Lessons.
20:30 Dinner.

There will be a coffee break during the morning lesson session.

Saturday, July 1st, 20178:30 to 9:00 Breakfast.
9:15 Meeting point in the Youth Hostel to take the bus to visit a wine cellar.
10:00 Arrival at the wine cellar.
11:30 Bus to Barcelona city.
13:00 Arrival at Plaza Catalunya (Barcelona).

The schedule is approximate; it is possible that the content of one day may run into the next and a working day may be longer than advertised.

Organizers

Transmitting Science Logo
Centre de Restauració i Interpretació Paleontològica (CRIP) Logo
Institut Català de Paleontologia Miquel Crusafont (ICP) Logo

Collaborators

Colegio Oficial de Biólogos de Castilla y León Logo
Colegio Oficial de Biólogos de Euskadi Logo
Colexio Oficial de Biólogos de Galicia Logo
Col·legi Oficial de Biòlegs de la Comunitat Valenciana Logo
Distributed European School of Taxonomy (DEST) Logo
Registration closed

PLEASE NOTE:
Registration for this course is not yet available.
If you want to receive information once the registration is open, please subscribe without any obligation by selecting the topic Evolution.