Basics of Taxonomy: describing, illustrating and writing biodiversity

Course funded by the Royal Swedish Academy of Sciences (KVA)

Take a look at the 2017 report !

Some reactions of the trainees:

“𝘛𝘩𝘦 𝘤𝘰𝘶𝘳𝘴𝘦 𝘪𝘴 𝘧𝘢𝘯𝘵𝘢𝘴𝘵𝘪𝘤, 𝘵𝘩𝘦 𝘵𝘰𝘱𝘪𝘤𝘴 𝘵𝘳𝘦𝘢𝘵𝘦𝘥 𝘢𝘳𝘦 𝘷𝘦𝘳𝘺 𝘪𝘯𝘵𝘦𝘳𝘦𝘴𝘵𝘪𝘯𝘨 𝘢𝘯𝘥 𝘵𝘩𝘦 𝘪𝘯𝘴𝘵𝘳𝘶𝘤𝘵𝘰𝘳𝘴 𝘮𝘢𝘯𝘢𝘨𝘦 𝘵𝘩𝘦𝘪𝘳 𝘴𝘶𝘣𝘫𝘦𝘤𝘵𝘴 𝘸𝘦𝘭𝘭 𝘢𝘯𝘥 𝘱𝘢𝘴𝘴 𝘰𝘯 𝘵𝘩𝘦 𝘱𝘢𝘴𝘴𝘪𝘰𝘯 𝘵𝘩𝘦𝘺 𝘧𝘦𝘦𝘭 𝘵𝘰𝘸𝘢𝘳𝘥𝘴 𝘸𝘩𝘢𝘵 𝘵𝘩𝘦𝘺 𝘥𝘰, …”
“𝘛𝘩𝘪𝘴 𝘪𝘴 𝘰𝘯𝘦 𝘰𝘧 𝘵𝘩𝘦 𝘉𝘌𝘚𝘛 𝘵𝘳𝘢𝘪𝘯𝘪𝘯𝘨 𝘤𝘰𝘶𝘳𝘴𝘦 𝘐 𝘩𝘢𝘷𝘦 𝘢𝘵𝘵𝘦𝘯𝘥𝘦𝘥! 𝘌𝘷𝘦𝘳𝘺𝘰𝘯𝘦 𝘱𝘢𝘳𝘵𝘪𝘤𝘪𝘱𝘢𝘵𝘦𝘥 𝘢𝘯𝘥 𝘤𝘰𝘯𝘵𝘳𝘪𝘣𝘶𝘵𝘦𝘥 𝘵𝘰 𝘵𝘩𝘦 𝘣𝘦𝘴𝘵 𝘰𝘧 𝘵𝘩𝘦𝘪𝘳 𝘢𝘣𝘪𝘭𝘪𝘵𝘪𝘦𝘴 𝘯𝘰𝘵 𝘫𝘶𝘴𝘵 𝘵𝘰 𝘭𝘦𝘢𝘳𝘯 𝘣𝘶𝘵 𝘵𝘰 𝘩𝘦𝘭𝘱 𝘰𝘵𝘩𝘦𝘳𝘴 𝘢𝘴 𝘸𝘦𝘭𝘭. 𝘊𝘰𝘰𝘳𝘥𝘪𝘯𝘢𝘵𝘪𝘰𝘯 𝘸𝘢𝘴 𝘨𝘳𝘦𝘢𝘵.”
“𝘐 𝘸𝘰𝘶𝘭𝘥 𝘥𝘦𝘧𝘪𝘯𝘪𝘵𝘦𝘭𝘺 𝘳𝘦𝘤𝘰𝘮𝘮𝘦𝘯𝘥 𝘵𝘩𝘪𝘴 𝘤𝘰𝘶𝘳𝘴𝘦 𝘵𝘰 𝘦𝘷𝘦𝘳𝘺𝘣𝘰𝘥𝘺 𝘸𝘩𝘰 𝘪𝘴 𝘸𝘰𝘳𝘬𝘪𝘯𝘨 𝘪𝘯 𝘣𝘪𝘰𝘭𝘰𝘨𝘺, 𝘯𝘰 𝘮𝘢𝘵𝘵𝘦𝘳 𝘸𝘩𝘪𝘤𝘩 𝘧𝘪𝘦𝘭𝘥! “

Course description
The course will cover the following topics:
• DELTA
• Digital drawing
• Scientific illustration
• Scientific writing and communication
• e-Taxonomy and biodiversity informatics tools and workflows
 

• 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?

e-Taxonomy and biodiversity informatics tools and workflows
This module will provide an overview of the vision, history and future of biodiversity informatics. It will develop your understudying of the landscape, key concepts and terminology in the field, the networks, services, tools and standards that make up the informatics assembly and the challenges associated with the design and management of this science infrastructure. Additionally you become familiar with the key actors and platforms in the domain along with samples of how biodiversity informatics is enticing and empowering scientist to use data in new and innovation. Students will utilise a suite of freely accessible biodiversity resources and open tools to tackle biogeographical and taxonomic questions. The module also aims at demonstrating, through hand-on-experience, how students can structure, annotate and publish their datasets online in forms that enable scientific re-use of data.

Course credits: 5 ECTS

Duration course programme
Two weeks

Date
02-13 October 2017

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, Department of Marine Sciences, 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 500 EUR.
(normal fee is 1200 EUR).
**The registration fee includes course attendance, course material, accommodation and meals at the Sven Lovén Centre.
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 June 2017.
Click here for the registration form. Closed.

Course will be cancelled if minimum number of participants (15) is not reached.

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

Course co-organised with ForBio - Funding is available for ForBio members to attend the course

Funding
ForBio will cover the registration fee for all members (not associates).
ForBio will refund travel costs for members registered at Norwegian universities and research institutes.
Contact Aino Hoisa for more information at Aino.Hosia@uib.no

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