Summer School: Introduction to Functional Morphology and Geometric Morphometrics

//Summer School: Introduction to Functional Morphology and Geometric Morphometrics
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The Horizon 2020-TWINN project “MendTheGap” organises a summer school on Functional morphology and Geometric morphometrics for students of Archaeology, Biology, Biotechnology/Animal Science and Earth Sciences.

The summer school will be held at the Department of Animal Science at the University of Zagreb Faculty of Agriculture, from July 3rd to 7th, 2017.

The scope of the Course is to use a “hands-on” approach to give the participants a basic knowledge of the aims and methods of Functional Morphology and of Geometric Morphometrics, and how they can be used in bioarcheology to infer subsistence economy, mobility and in general activity patterns (Functional Morphology) and quantify the variation in morphology, especially those pertaining to evolutionary and biological processes (Geometric Morphometrics) in past populations.

Functional morphology involves the study of relationships between the structure of an organism and the function of the various parts of an organism. The primary task of functional morphology is observing living organisms to see how they live and function. Functional morphology studies the ways in which structures such as muscles, tendons, and bones can be used to produce a wide variety of different behaviors, including moving, feeding, fighting, and reproducing. Functional morphology and biomechanics allow scientists to observe and quantify not only how animal skeletons and joints move and how muscles work but also how these things relate to the diversity of animal behaviors.

The main goal of morphometrics is to study how shapes vary and their covariance with other variables. The first method of morphometrics called” Traditional” morphometrics was done by measuring linear distances (such as length, width, and height) and multivariate statistical tools were used to describe patterns of shape variation within and among groups. The biggest problem was that linear distance measurements are usually highly correlated with size and this makes shape analysis difficult. Instead of focusing on multivariate analysis of a set of linear measurements between points, Geometric Morphometrics to studies changes in size and shape, taking as a point of departure displacements in the plane (2D) or space (3D) of a set of morphometric landmarks. The two- or three- dimensional spatial relationship of these landmarks is always preserved throughout the whole analysis, which allows to accurately build shape and size of the specimen studied.

The course is free; participants will be provided with basic course material. Food and/or accommodation are not included.

Lectures will be held in English.

Summer school is open to MS, MA and PhD students, postgraduate students of Archaeology, Biology, Biotechnology/Animal Science and Earth Sciences preferably (but not exclusively) from the University of Zagreb (CrEAMA Initiative), Cambridge and Pisa and MendTheGap members. No special knowledge and skills are required, but strong motivation and a specific interest in bone biology and its aspects connected to bioarchaeology is highly desirable. Basic knowledge of statistics will also be useful but not necessary.

Participants are warmly invited to keep in mind that the course will be based on collaboration and sharing of knowledge, as requested by the guidelines of the H2020-TWINN projects. Consequently, participants with different cultural background will be requested to actively interact and help each other.

The maximum number of participants is 10. In case of more than 10 applications, the applicants will be selected in order to give an opportunity to students of all levels and on the first arrived/best served criterion. Please send your application, motivation letter and a CV with relevant information to prof. Damiano Marchi (damiano.marchi@unipi.it) by June 24th, 2017. A second circular with detailed information will be sent to the selected applicants, hopefully by June 29th.

Participants proficiently following the whole course will be awarded a participation certificate.

Teaching staff: D. Marchi (University of Pisa, Italy), P. Ibañez-Gimeno (University of Cambridge).

Damiano Marchi obtained his PhD in 2004 at the University of Pisa (Italy). From 2004 to 2010 he was Visiting Assistant Professor at Duke University (USA) and from 2011 to 2012 he was postdoctoral research fellow at the University of the Witwatersrand (South Africa). From 2012 to 2015 Marchi was Assistant Professor at the University of Pisa, and since 2015 he is Associate Professor at the same University.  He has been Honorary Research Fellow at the Witwatersrand since 2013. Prof. Marchi main research interests are: 1. the functional morphology of human and nonhuman primates with particular interest to the biomechanics of locomotion; 2. the evolution of bipedal locomotion in early hominins; 3. the mobility patterns of past human populations.

Pere Ibáñez-Gimeno is a biologist who specialised in Biological Anthropology through a MSc and a PhD at Universitat Autònoma de Barcelona, Spain (2009-2015). His research focused on the structural, morphological and biomechanical variation of the hominoid postcranial skeleton. Part of his research investigated the rotational efficiency of the forearm in extant hominoids with the main purpose of determining whether it reflects locomotor and manipulative abilities. In 2015 he was appointed Post-Doctoral research associate at PAVE group, University of Cambridge. His research, within the ERC-funded ADaPt project, tries to disentangle how the human post-cranial skeleton adapts to its functional requirements and how neutral and selective processes contribute to its shape.

PROGRAM

Day Activity Time Topic
Mon. 3 10:00 – 10:30 Welcome to participants by prof. Ino Čurik and prof. Preston Miracle, coordinators of the MendTheGap Project
10:30 – 11:00 Presentation of the Course
Theory 1 11:00 – 12:30 Introduction to Functional Morphology. Biological design. Allometry. Adaptations and evolution.
12:30 – 14:00 Lunch break
Theory 2 14:00 – 15:30 Basic concepts of biomechanics: dynamics and statics. Biomechanics of the musculoskeletal system
Praxis 1 16:00 – 17:30 Obtaining the outer contour of a bone from moulds and the inner contour from biplanar radiographs
Tue. 4 Theory 3 9:00 – 10:30 Bone functional adaptation. Types of mechanical loadings. Concepts of rigidity and strength. Beam theory and cross-sectional geometry
Theory 4 11:00 – 12:30 Use of biomechanics to infer activity patterns, sexual dimorphism and bilateral asymmetry
12:30 – 14:00 Lunch break
Praxis 2 14:00 – 15:30 Obtaining cross sections from CT scans. Statistical analysis of results
Praxis 3 16:00 – 17:30 Obtaining cross sections from CT scans. Statistical analysis of results (cont)
Wed. 5 Theory 5 9:00 – 10:30 Introduction to morphometrics
Theory 6 11:00 – 12:30 Geometric morphometrics and landmarks
12:30 – 14:00 Lunch break
Day Activity Time Topic
Wed. 5

(cont)

Praxis 4 14:00 – 15:30 Hands-on study of face shape: pictures and landmark digitising
Praxis 5 16:00 – 17:30 Hands-on study of face shape: landmark digitising (cont)

3D landmarks

Thu. 6 Theory 7 9:00 – 10:30 Generalised Procrustes Alignment (GPA)
Theory 8 11:00 – 12:30 Statistical analyses
12:30 – 14:00 Lunch break
Praxis 6 14:00 – 15:30 Hands-on study of face shape: GPA and analyses using TPSRelW and MorphoJ
Praxis 7 16:00 – 17:30 Hands-on study of face shape: GPA and analyses using MorphoJ (cont) and other software
Fri. 7 Theory 9 9:00 – 10:30 Allometry. Pinocchio effect. Missing landmarks. Semi-landmarks and sliding
Praxis 8 11:00 – 12:30 Hands-on study of face shape: placing semi-landmarks and sliding
12:30 – 14:00 Lunch break
Theory 10 14:00 – 15:30 Overview of software (2D and 3D GM)

Recap and questions

Praxis 9 16:00 – 17:30 Final test