Presentation given by Bruno Danis (SCAR-MarBIN) on the progress made during year 2009.

1. SCAR-MarBIN.be
Progress Report - workshop 09
Held at the British Antarctic Survey,
hosted by Katrin Linse & Huw Griffiths

2. Background

3. SCAR-MarBIN
Marine Biodiversity Information Network
• Funding: Belgian science Policy office
• International Polar Year 2007/08
• Census of Antarctic Marine Life
• Ocean Biogeographic Information System
• Global Biodiversity Information Network
• Encyclopedia of Life

4. Philosophy
• Build a network
• Offer free and open access to data and technology
• Expose all the (biodiversity) data and metadata
• Remain community-driven
• Adopt strong standardization
• Work for science, conservation, management
Riddle, M. Australian Antarctic Division

5. What sort of data?
• Primary Biodiversity data
• Taxonomy and Systematics
• Occurence/abundance data
• Genetic data
• DwC

7. Present situation
• BAD NEWS:
• BELSPO Funding Ended
• No developper
• GOOD NEWS:
• International contributions
• New project to keep MarBIN alive

8. Results

9. Tangible results
• The first RAMS
• Board of 60 editors
• Feeds WoRMS, CoL and EoL
• 16,224 taxa
• 9,253 species
• 8,211 valid species
• 10,605 checked taxa (65%)

10. Tangible results
all taxa
all species
valid species
0 3.750 7.500 11.250 15.000
Acanthocephala Annelida Arthropoda Brachiopoda
Bryozoa Cephalorhyncha Chaetognatha Chordata
Cnidaria Ctenophora Echinodermata Echiura
Hemichordata Mesozoa Mollusca Myxozoa
Nematoda Nemertina Platyhelminthes Porifera
Rotifera Sipuncula Tardigrada

11. Tangible results
all taxa
all species
valid species
0 500 1.000 1.500 2.000
Biliphyta Viridaeplantae
Protoctista Stramenopila
Monera Chromista

12. Tangible results
1,031,732 records
138 datasets
over 5,200 taxa
Downloadable
WebGIS
Webservices OGC
+RESTish

13. Synthesizing knowledge
• RAMS: information on 16,000 taxa
• ANTOBIS: 1,000,000+ records
• Polar Macroscope Synthesis team
• Injection into conservation processes
• New insights in biogeography
• New insights in ecological processes

14. Meetings attended
• e-Biosphere 09
• OBIS MC 09
• GBIF GB 09
• WCMC 09
• Diversitas 09
• SCAR-OSC 09

15. Funding
• BELSPO: down, funding new project
• SCAR: 5 kUSD per year
• CAML: 20 kUSD one shot (for 2009-10)
• AAD: 6k AUD (two years)
• German Science Foundation: 5 kEUR (two years)
• Dutch Science Foundation: 5 kUSD (one year)
• AWI: 7 kEUR (two years)
• ArcOD: 3 kUSD one shot
• TOTAL Foundation: 260 kEUR one shot

16. Applications

17. Identifying gaps
Griffiths HJ, British Antarctic Survey

18. All Species

19. Identifying gaps
Over 50% of samples taken in
waters shallower than 400m
Similar trend for recorded benthic
species
Most of the Southern Ocean is
abyssal
Griffiths HJ, Clarke A, Danis B, submitted

20. Identifying gaps
2,8 isopod species are
descibed every year
De Broyer C & Danis B, submitted
600+ were discovered
during ANDEEP
We will need 214 years to
describe them!

21. Webportal V2.0

22. SCAR-MarBIN V2
•Main goals
• Better, faster, simpler
• Improve usability
• Improve interoperability
• Improve dissemination and visibility
• Extend functionalities

29. Systems comparison
V1 V2
Languages PHP4 (procedural part OOish) Java, Groovy (100% OO)
Design patterns - MVC-ORM-AOP-IoC…
Framework - (100% homebrew) Grails (Spring, Hibernate),YUI
Template engine - SiteMesh
Search engine SQL-based Full text (SOLR-lucene)
DB SQL server SQL server - PostGresql
GIS server mapserver Geoserver
Spatial DB - PostGIS
Mapping client chameleon openLayers
Web services SOAP (RAMS) RESTish (all resources)
OS Windows server FreeBSD
Open source Partly 100% (minus legacy DB)

30. I know you love stats

31. 0
3.000
6.000
sept-05
déc-05
mars-06
juin-06
sept-06
déc-06
mars-07
juin-07
sept-07
déc-07
Unique visitors
mars-08
juin-08
sept-08
Portal useage
déc-08
mars-09
juin-09
sept-09

32. 0
10.000
20.000
sept-05
déc-05
mars-06
juin-06
sept-06
déc-06
mars-07
juin-07
sept-07
déc-07
bandwidth
mars-08
juin-08
sept-08
Portal useage
déc-08
mars-09
juin-09
sept-09

33. 0
2.000
4.000
sept-05
déc-05
mars-06
juin-06
sept-06
déc-06
mars-07
juin-07
sept-07
déc-07
bandwidth
mars-08
juin-08
sept-08
Portal useage
déc-08
mars-09
juin-09
sept-09

34. Unknown
Belgium
Network
2007 connections origin (hits) Commercial
Germany
Poland
Italy
Spain
Unknown
France
Brazil
1%0%
0%
1%
0%
1%1%
1%1%
1%1% United Kingdom
1%
2%
2% Canada
2% 30% Australia
8% Russian Federation
2% USA Educational
3% Non-Profit Organizations
2%
4% Netherlands
16% Japan
8%
Argentina
11%
Moldova
Chile
Portugal
Greece
Ukraine

35. Unknown
Commercial
Belgium
2008 connections origin (hits) Network
France
Poland
Germany
United Kingdom
Russian Federation
Canada
Brazil
3%1%0%
1%
1%0%
0%
1%0%
1%0%
0% Spain
1%
1% Unknown
1%
2%
2% USA Educational
2%
4% 41% Italy
Australia
7% Netherlands
Japan
8% Singapore
Latvia
20%
Chile
Argentina
New Zealand
Non-Profit Organizations
China

36. Unknown
Commercial
United Kingdom
2009 connections origin (hits) Network
Belgium
Germany
Poland
Brazil
Russian Federation
Italy
Spain
1%1%0%
0%
0%
1%1% 0%
0%
1%0% Canada
1%0%
2%
1%
2% USA Educational
2%
2% France
5% Singapore
45%
7% Australia
Argentina
5% Bahamas
Japan
21% Israel
Ukraine
New Zealand
Denmark
Netherlands
China

37. Distribution data providers
datasets records % of datamass
Argentina 2 374 0,036249724
Australia
Belgium
29
8
740243
10804
71,747605
1,047171165
16 countries
France
Germany
2
2
4293
7598
0,416096428
0,736431554
providing data
International 3 71236 6,904506209
Italy 2 683 0,066199362
Japan 1 19 0,001841564
New-Zealand 1 47865 4,639286171
Norway 2 69 0,006687783
Poland 1 87 0,008432422
Russia 1 2504 0,242698685
Spain 1 25 0,00242311
Ukraine 1 592 0,057379242
United Kingdom 5 48797 4,729619707
USA 11 96543 9,357371876
TOTAL 72 1114108 100

38. Metadata providers
metadata records %metadata
Australia
Belgium
36
14
26,08695652
10,14492754
22 countries
Poland
BoL
13
12
9,420289855
8,695652174
providing
United Kingdom
International
11
9
7,971014493
6,52173913
metadata
USA 9 6,52173913
Germany 7 5,072463768
France 6 4,347826087
Argentina 3 2,173913043
Spain 3 2,173913043
Brazil 2 1,449275362
Italy 2 1,449275362
Norway 2 1,449275362
Russia 2 1,449275362
Austria 1 0,724637681
Denmark 1 0,724637681
Ireland 1 0,724637681
Japan 1 0,724637681
Netherlands 1 0,724637681
New Zealand 1 0,724637681
Ukraine 1 0,724637681
TOTAL 138

39. In the pipeline

40. Projects
• TOTAL Foundation: minigrants and
cybertaxonomy
• AFG
• Barcoding
• PMS
• ABBED
• ARCOD

41. Total minigrants:
Inventory of the Southern Ocean biodiversity
• A database of living Antarctic benthic Foraminifera (Protista) for SCAR-MarBIN RAMS (Prof. A.J.
Gooday, National Oceanography Centre, Southampton, UK). (in progress).
• Databasing Antarctica marine Bioconstructors: Adding Large Sessile Habitat-forming Animals to
SCAR-MarBIN (Dr H. Griffiths, British Antarctic Survey, Cambridge. UK). (in progress).
• SCAR-MarBIN database of Ostracoda Myocopida and Podocopida (Dr S. Brandao, Zoologisches
Museum, Universitat Hamburg, Germany). (in prep.).
• Cumacea (Crustacea: Peracarida) of the Southern Ocean (Dr U. Muhlenhardt-Siegel, Biozentrum
Grindel und Zoologisches Museum, Universitat Hamburg, Germany). (done).
• Synopsis of the Amphipoda Hyperiidea of the Southern Ocean, with distribution and ecological data
(Dr W. Zeidler, South Australian Museum, Adelaide, Australia). (done).
• Building a biogeographic baseline of obligate Antarctic benthic brooders: isopods for the Southern
Ocean Mollusc database (SOMBASE) and SCAR-MarBIN (Dr S. Kaiser, Zoologisches Museum,
Universitat Hamburg, Germany). (in progress).

42. Total minigrants:
Inventory of the Southern Ocean biodiversity
• Biogeographic distribution of the Antarctic and Sub-Antarctic brachiopods (living forms) (Dr C.
Emig, Marseille, France). (in progress).
• Systematics and distribution of echinoids collected during Australian cruises in East Antarctica
(Dr T. Saucede, Universite de Bourgogne, Dijon, France). (in progress).
• Biodiversity of Antarctic and Sub-Antarctic Crinoids (Dr M. Eleaume, Musee National d’Histoire
Naturelle, Paris, France). (in prep.).
• Biogeographic database of Antarctic and sub-Antarctic Polychaetes (Dr A. Glover, Natural
History Museum, London, UK). (in prep.).
• Contribution to the SCAR-MarBIN Molluscs database (Dr M. Schrodl, Zoologisches
Staatsammlung Munchen, Germany). (in prep.).
• Various general contributions to the SCAR-MarBIN RAMS and ANTOBIS (Henri Robert,
Laboratory of Carcinology, Institut Royal des Sciences Naturelles de Belgique, BELGIUM.:
Output: occurrence and taxonomic data (various groups), contributions to literature database, to
expeditions database, to biogeographic synthesis).

43. Upcoming technologies

49. ANTABIF
• New project: Antarctic Biodiversity Information
Facility
• Funding: BELSPO (two years)
• Objective: build (fast) a new portal giving access on
all available information on Antarctic biodiversity
• www.biodiversity.aq
• Close collaboration with AAD/EBA/SCADM

50. Thanks!!

51. 2008 ToDos
• see review