Basics of Taxonomy: describing, illustrating and communicating biodiversity

course funded by the Royal Swedish Academy of Sciences

Course description

The course will cover the following topics:
• DELTA
• Digital drawing
• Scientific illustration
• Scientific writing and communication
• Scratchpads

Take a look at the 2013 report ! 
 

• DELTA (DEscription Language for TAxonomy)
Participants will learn the basics of DELTA as well as the great potential of the program. DELTA is an advanced computer program developed by CSIRO (Commonwealth Scientific & Industrial Research Organisation, Australia) to handle all kinds of taxonomic data in the most optimal way. It is currently regarded as the state of the art tool in modern taxonomy and used by taxonomists to (re)describe taxa in a standardised format, which makes the information readily available for comparative (phylogenetic) studies, cataloguing of fauna lists and construction of interactive illustrated keys. Processing time and quality control of the data is being optimized by DELTA, as all data have to be treated in an identical manner.
The introduction of the course will provide an overview of current international biodiversity aggregators, such as the Global Biodiversity Information Facility, the Ocean Biogeographic Information System, Tree of Life and GenBank. Attention will be given to the Biodiversity Information Standards (developed by the Taxonomic Databases Working Group) which aim to improve efficient exchange of biodiversity data. Subsequently, the main part of the course will focus on learning to use the DELTA program. Participants are encouraged to bring species (or higher level) data of their taxon of interest, which will be used to correctly build a database, construct interactive illustrated keys and generate natural language species descriptions.

• Digital drawing
Participants will learn to make scientific illustrations with the digital drawing method using the software program Adobe Illustrator. In many labs, this has become a standard method for making taxonomic descriptions, as there are great advantages in working speed, editing the illustrations and the ease of creating very smooth lines. The resulting vector graphics have very small file sizes, high resolution and they can be directly processed by most online journals. Photos and micrographs can be used as a master for making the line drawings. A solution for the illustration of complex details (like setae) will be offered by making libraries for these structures.

• Scientific illustration
Participants will learn to understand the human perception of illustrations. They will be informed about a variety of illustration methods and will practise a limited number of these. Besides the illustration of biological specimens, specific technical aspects of diagrams, tables, typography and posters will be included as well.
Following topics will be covered:
- Theories behind the use of illustrations for various scientific purposes
- Human perception of illustrations
- Composition, colour theory, choice of illustration method
- Short history of scientific illustrations
- Aids like camera lucida
- Black and white methods like copper graphics, charcoal, pencil and black ink
- Colour methods like watercolour, crayons, coloured pencils, pastel, computer graphics and airbrush

• Scientific writing and communication
Participants will learn the particularities of writing and presenting scientific studies. Main emphasis will be placed on writing the most common form of publication, i.e. the primary scientific paper. The course will explain the current structure of scientific literature, the main features of the scientific information 'industry', and the particular rules and customs followed by the international scientific community when publishing. Particular attention will be given to little taught aspects of the publication process, such as choosing a suitable forum for a scientific paper, practicalities of preparing and submitting a manuscript, dealing with editors and the printing process. Less emphasis will be placed on grammar and use of English, except for certain details of language use and style. The correct preparation of figures and tables for publication will be extensively discussed, as well as the different aspects of participating in international conferences (posters, talks, personal interactions).
Following main topics will be covered:
- The scientific literature: structure, purpose, prestige, types of publications
- How to write scientific papers: before you begin
- Basic decisions: what, how, when. Gathering intelligence about the unknown
- Parts of an article: IMRAD
- How to write the main parts of a scientific paper
- Supporting parts and their importance
- Figures and tables
- Submitting a manuscript
- Stages to publication: what happens when and where?
- How to handle the stages of the publication process
- Other types of papers: posters
- Talks and scientific conferences: how to perform and participate?

• Scratchpads
Scratchpads are a social networking tool to build, share and publish information on the diversity of life on the Web. Scratchpads are free and rely on the open source content management system Drupal. The system allows individuals or groups of people to create their own networks supporting their research communities on the Web. The tool is flexible and scalable enough to support hundreds of networks each with their community’s choice of features, visual design, and data. Thematically, these networks can be broadly broken down into sites concerning specific groups of taxa, biogeographic regions or projects and societies.
The focus of the course lies on creating and setting up a Scratchpad site, adding various kinds of data such as a biological classification, images, literature, taxon descriptions with distribution maps. Participants will also learn how to communicate with other users by adding users to their site, creating a forum or blog. The goal of the course is to give an overview of what a Scratchpad can do for their research and allow them to independently explore their Scratchpad after the course.

Course credits: 5 ECTS

Duration course programme
Two weeks

Date
5-16 October 2015

Course language
English

Target Audience
MSc students, PhD students as well as for early career researchers

Location
Sven Lovén Centre for Marine Sciences, Kristineberg, Sweden

Course organiser
Distributed European School of Taxonomy (DEST)

Teachers
DELTA: Dr Matz Berggren, Institution of Marine Ecology, Göteborg University, Sweden & Dr Charles Oliver Coleman, Museum für Naturkunde, Berlin, Germany
Digital drawing: Dr Charles Oliver Coleman, Museum für Naturkunde, Berlin, Germany
Scientific illustration: Prof. Tomas Cedhagen, Department of Biological Sciences - Marine Ecology, Aarhus University, Aarhus C, Denmark
Scientific writing and communication: Prof Gabor Lövei, Department of Agroecology, Aarhus University, Flakkebjerg Research Centre, Slagelse, Denmark
Scratchpads: Dr Dimitrios Koureas, Department of Life Sciences, The Natural History Museum, London, UK

Registration fee
Thanks to funding of the Royal Swedish Academy of Sciences (KVA), the course is offered at a discounted rate of 550 EUR (normal fee is 1200 EUR).
The registration fee includes course attendance, course material (scientific illustration, manual Scratchpads), accommodation and meals. 

Participants are responsible for their own travel expenses.

Maximum number of participants
15
Criteria for selection will be scientific merit, motivation and usefulness of the training course for your career. 

Registration
Deadline for registration: 1 July 2015.
Course will be cancelled if minimum number of registrations (13) is not reached.
Participants will receive notification by 15 July 2015 whether accepted to the course.

Click here for the registration form. Registration closed.

Payment
Payment details and deadline will be provided upon acceptance to the training.

Scratchpads developed and conceived by (alphabetical): Ed Baker, Katherine Bouton Alice Heaton Dimitris Koureas, Laurence Livermore, Dave Roberts, Simon Rycroft, Ben Scott, Vince Smith