SCAR-MarBIN.beProgress Report - workshop 09

Held at the British Antarctic Survey, hosted by Katrin Linse & Huw Griffiths

Background

SCAR-MarBIN

• 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

Marine Biodiversity Information Network

• 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

Philosophy

Riddle, M. Australian Antarctic Division

What sort of data?

• Primary Biodiversity data

• Taxonomy and Systematics

• Occurence/abundance data

• Genetic data

• DwC

Present situation

• BAD NEWS:

• BELSPO Funding Ended

• No developper

• GOOD NEWS:

• International contributions

• New project to keep MarBIN alive

Results

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%)

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

Tangible results

all taxa

all species

valid species

0 500 1.000 1.500 2.000

Biliphyta ViridaeplantaeProtoctista StramenopilaMonera Chromista

Tangible results

1,031,732 records138 datasets

over 5,200 taxaDownloadable

WebGISWebservices OGC

+RESTish

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

Meetings attended

• e-Biosphere 09

• OBIS MC 09

• GBIF GB 09

• WCMC 09

• Diversitas 09

• SCAR-OSC 09

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

Applications

Identifying gaps

Griffiths HJ, British Antarctic Survey

AllSpecies

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

Identifying gaps

2,8 isopod species are descibed every year

600+ were discovered during ANDEEP

We will need 214 years to describe them!

De Broyer C & Danis B, submitted

Webportal V2.0

SCAR-MarBIN V2

•Main goals

• Better, faster, simpler

• Improve usability

• Improve interoperability

• Improve dissemination and visibility

• Extend functionalities

Systems comparisonV1 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)

I know you love stats

Portal useage

0

3.000

6.000

sept

-05

déc-

05

mar

s-06

juin

-06

sept

-06

déc-

06

mar

s-07

juin

-07

sept

-07

déc-

07

mar

s-08

juin

-08

sept

-08

déc-

08

mar

s-09

juin

-09

sept

-09

Unique visitors

Portal useage

0

10.000

20.000

sept

-05

déc-

05

mar

s-06

juin

-06

sept

-06

déc-

06

mar

s-07

juin

-07

sept

-07

déc-

07

mar

s-08

juin

-08

sept

-08

déc-

08

mar

s-09

juin

-09

sept

-09

bandwidth

Portal useage

0

2.000

4.000

sept

-05

déc-

05

mar

s-06

juin

-06

sept

-06

déc-

06

mar

s-07

juin

-07

sept

-07

déc-

07

mar

s-08

juin

-08

sept

-08

déc-

08

mar

s-09

juin

-09

sept

-09

bandwidth

2007 connections origin (hits)

0%0%0%1%0%1%1%1%1%1%1%1%1%2%2%2%

8%

2%3%2%4%

8%11%

16%

30%

UnknownBelgiumNetworkCommercialGermanyPolandItalySpainUnknownFranceBrazilUnited KingdomCanadaAustraliaRussian FederationUSA EducationalNon-Profit OrganizationsNetherlandsJapanArgentinaMoldovaChilePortugalGreeceUkraine

0%0%0%0%0%0%0%0%1%1%1%1%3%1%1%1%1%2%2%2%

4%

7%

8%

20%

41%

UnknownCommercialBelgiumNetworkFrancePolandGermanyUnited KingdomRussian FederationCanadaBrazilSpainUnknownUSA EducationalItalyAustraliaNetherlandsJapanSingaporeLatviaChileArgentinaNew ZealandNon-Profit OrganizationsChina

2008 connections origin (hits)

0%0%0%0%0%0%0%0%1%1%0%1%1%1%1%2%1%2%2%2%5%

7%

5%

21%

45%

UnknownCommercialUnited KingdomNetworkBelgiumGermanyPolandBrazilRussian FederationItalySpainCanadaUSA EducationalFranceSingaporeAustraliaArgentinaBahamasJapanIsraelUkraineNew ZealandDenmarkNetherlandsChina

2009 connections origin (hits)

Distribution data providersdatasets records % of datamass

Argentina 2 374 0,036249724

Australia 29 740243 71,747605

Belgium 8 10804 1,047171165

France 2 4293 0,416096428

Germany 2 7598 0,736431554

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

16 countries providing data

Metadata providersmetadata records %metadata

Australia 36 26,08695652Belgium 14 10,14492754Poland 13 9,420289855BoL 12 8,695652174

United Kingdom 11 7,971014493International 9 6,52173913

USA 9 6,52173913Germany 7 5,072463768France 6 4,347826087

Argentina 3 2,173913043Spain 3 2,173913043Brazil 2 1,449275362Italy 2 1,449275362

Norway 2 1,449275362Russia 2 1,449275362Austria 1 0,724637681

Denmark 1 0,724637681Ireland 1 0,724637681Japan 1 0,724637681

Netherlands 1 0,724637681New Zealand 1 0,724637681

Ukraine 1 0,724637681TOTAL 138

22 countries providing metadata

In the pipeline

Projects

• TOTAL Foundation: minigrants and cybertaxonomy

• AFG

• Barcoding

• PMS

• ABBED

• ARCOD

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).

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).

Upcoming technologies

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

Thanks!!

2008 ToDos

• see review