ANTABIF:      Bruno Danis - SOA-BELSPO event
Antarctic Biodiversity Information Facility
Antarctic Treaty
« In order to promote international
cooperation in scientific investigation in
Antarctica, […],

Scientific observations and results from
Antarctica shall be exchanged and made
freely available. »
Our vision:
Antarctic biodiversity data are
open, linked, useful, interoperable and safe.
Antarctic Information Networks - scope




                                  David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component




                                            David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component

• Free and open access to biodiversity data




                                              David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component

• Free and open access to biodiversity data

• SCAR-MarBIN and ANTABIF projects




                                              David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component

• Free and open access to biodiversity data

• SCAR-MarBIN and ANTABIF projects

• Science, conservation and management




                                              David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component

• Free and open access to biodiversity data

• SCAR-MarBIN and ANTABIF projects

• Science, conservation and management

• Networked community developments




                                              David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component

• Free and open access to biodiversity data

• SCAR-MarBIN and ANTABIF projects

• Science, conservation and management

• Networked community developments

• Scientific impact: Citations : 423,
  Publications: 58, H-Index: 11


                                              David B, Danis B, Griffiths HJ
Antarctic Information Networks - scope

• Born as Census of Antarctic Marine Life
  as the data, visualization and analysis
  component

• Free and open access to biodiversity data

• SCAR-MarBIN and ANTABIF projects

• Science, conservation and management

• Networked community developments

• Scientific impact: Citations : 423,
  Publications: 58, H-Index: 11


                                              David B, Danis B, Griffiths HJ
Collaboration cloud - who’s in?
Collaboration cloud - who’s in?
Collaboration cloud - who’s in?
Taxonomy
                                     17,098 taxa




The first dynamic Register of Antarctic Marine Species

Taxonomic backbone

Board of 64 editors

Feeds World Register of Marine Species, Catalogue of Life and
Encyclopedia of Life
Taxonomy
                                     17,098 taxa




The first dynamic Register of Antarctic Marine Species

Taxonomic backbone

Board of 64 editors

Feeds World Register of Marine Species, Catalogue of Life and
Encyclopedia of Life
Biogeography

• Single access to 900 datasets

• 2.5 million records

• Data back to 1900 (Pygoscelis
  adeliae)

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• Downloadable

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Biogeography

• Single access to 900 datasets

• 2.5 million records

• Data back to 1900 (Pygoscelis
  adeliae)

• Spatial data on over 5000 taxa

• Downloadable

• Interoperable

• Free and open
Antarctic Information Networks - applications
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation

• Expedition design
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation

• Expedition design

• Biogeographic patterns
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation

• Expedition design

• Biogeographic patterns

• Antarctic Field Guides
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation

• Expedition design

• Biogeographic patterns

• Antarctic Field Guides

• Biogeographic Atlas
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation

• Expedition design

• Biogeographic patterns

• Antarctic Field Guides

• Biogeographic Atlas

• Gap analysis
Antarctic Information Networks - applications

• Data-driven Marine Protected Area designation

• Expedition design

• Biogeographic patterns

• Antarctic Field Guides

• Biogeographic Atlas

• Gap analysis

• more...
Functionalities
biodiversity.aq
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biodiversity.aq
                             Promote)the)communit
• www.biodiversity.aq      MODULAR development)of)N
                                   ARCHITECTURE

• data.biodiversity.aq    •  GBIF)promotes)training)and)us

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                                      ANTABIF
biodiversity.aq
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                                       Promote)the)communit
• •  www.biodiversity.aq             MODULAR development)of)N
     Nodes)extend)the)plaGorm)with)new)modules)
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• data.biodiversity.aq                    •  GBIF)promotes)training)and)us
                                                    Data discovery

                            A)module)we)all)need)
• ipt.biodiversity.aq
         A)module)I)need)



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                                                      ANTABIF
biodiversity.aq
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     Nodes)extend)the)plaGorm)with)new)modules)
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                                •  GBIF)promotes)training)and)us
•   data.biodiversity.aq                  Data discovery

                               A)module)we)all)need)
• ipt.biodiversity.aq
            A)module)I)need)
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                                                                 A)module)we)all)need)
                                            A)module)I)need)
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                                                               ANTABIF
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• •  www.biodiversity.aq           installing)Modules)
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• data discovery interface
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• download data
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• Language: Ruby
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• (smart) Search engine: Full text (ElasticSearch-Lucene)
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  Geoserver/PostGIS
• Mapping client: OpenLayers
• Web services: RESTish (all resources)
• Protocols/Standards: DIF, DwC, DwC-A, Tapir…etc
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MULTI-STANDARDS
data. biodiversity.aq
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• Integrated Publishing Toolkit
• standardize and clean your data
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• choose collaborators
• generate and submit a Data Paper
• push data and metadata to Information Systems
ipt. biodiversity.aq
ipt. biodiversity.aq
ipt. biodiversity.aq
ipt. biodiversity.aq
ipt. biodiversity.aq
Reward data publishing




  Metadata document   Data Paper
Proof of concept       ZooKeys 185: 73–78 (2012)
                                        Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition
                       doi: 10.3897/zookeys.185.3078                                 DAtA PAPEr
                                                                                                                                            A peer-reviewed open-access journal

                                                                                                                                                                          73
                       www.zookeys.org                                                                                             Launched to accelerate biodiversity research




                          Antarctic Starfish (Echinodermata, Asteroidea) from
                                       the ANDEEP3 expedition


Impact Factor: 0.514                               Bruno Danis1, Michel Jangoux2, Jennifer Wilmes2

                       1 ANTABIF, 29, rue Vautier, 1000, Brussels, Belgium 2 Université Libre de Bruxelles, 50, av FD Roosevelt,
                       1050, Brussels, Belgium

                       Corresponding author: Bruno Danis (bruno.danis@gmail.com)


                       Academic editor: Vishwas Chavan  |  Received 13 March 2012  |  Accepted 18 April 2012  |  Published 23 April 2012

                       Citation: Danis B, Jangoux M, Wilmes J (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3
                       expedition. ZooKeys 185: 73–78. doi: 10.3897/zookeys.185.3078




                       Abstract
                       This dataset includes information on sea stars collected during the ANDEEP3 expedition, which took
                       place in 2005. The expedition focused on deep-sea stations in the Powell Basin and Weddell Sea.
                            Sea stars were collected using an Agassiz trawl (3m, mesh-size 500µm), deployed in 16 stations
                       during the ANTXXII/3 (ANDEEP3, PS72) expedition of the RV Polarstern. Sampling depth ranged
                       from 1047 to 4931m. Trawling distance ranged from 731 to 3841m. The sampling area ranges from
                       -41°S to -71°S (latitude) and from 0 to -65°W (longitude). A complete list of stations is available from
                       the PANGAEA data system (http://www.pangaea.de/PHP/CruiseReports.php?b=Polarstern), including a
                       cruise report (http://epic-reports.awi.de/3694/1/PE_72.pdf ).
                            The dataset includes 50 records, with individual counts ranging from 1-10, reaching a total of 132
                       specimens.
                            The andeep3-Asteroidea is a unique dataset as it covers an under-explored region of the Southern
                       Ocean, and that very little information was available regarding Antarctic deep-sea starfish. Before this
                       study, most of the information available focused on starfish from shallower depths than 1000m. This
                       dataset allowed to make unique observations, such as the fact that some species were only present at
                       very high depths (Hymenaster crucifer, Hymenaster pellucidus, Hymenaster praecoquis, Psilaster charcoti,
                       Freyella attenuata, Freyastera tuberculata, Styrachaster chuni and Vemaster sudatlanticus were all found below
                       -3770m), while others displayed remarkable eurybathy, with very high depths amplitudes (Bathybiaster
                       loripes (4842m), Lysasterias adeliae (4832m), Lophaster stellans (4752m), Cheiraster planeta (4708m), Er-
                       emicaster crassus (4626m), Lophaster gaini (4560m) and Ctenodiscus australis (4489m)).
                            Even if the number of records is relatively small, the data bring many new insights on the taxonomic,
                       bathymetric and geographic distributions of Southern starfish, covering a very large sampling zone. The
                       dataset also brings to light six species, newly reported in the Southern Ocean.
                            The quality of the data was controlled very thoroughly, by means of on-board Polarstern GPS sys-
                       tems, checking of identification by a renowned specialist (Prof. Michel Jangoux, Université Libre de Brux-

                       Copyright Bruno Danis et al. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC-
                       BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Proof of concept       ZooKeys 185: 73–78 (2012)
                                        Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition
                       doi: 10.3897/zookeys.185.3078                                 DAtA PAPEr
                                                                                                                                            A peer-reviewed open-access journal

                                                                                                                                                                          73
                       www.zookeys.org                                                                                             Launched to accelerate biodiversity research




                          Antarctic Starfish (Echinodermata, Asteroidea) from
                                       the ANDEEP3 expedition


Impact Factor: 0.514                               Bruno Danis1, Michel Jangoux2, Jennifer Wilmes2

                       1 ANTABIF, 29, rue Vautier, 1000, Brussels, Belgium 2 Université Libre de Bruxelles, 50, av FD Roosevelt,
                       1050, Brussels, Belgium

                       Corresponding author: Bruno Danis (bruno.danis@gmail.com)


                       Academic editor: Vishwas Chavan  |  Received 13 March 2012  |  Accepted 18 April 2012  |  Published 23 April 2012

                       Citation: Danis B, Jangoux M, Wilmes J (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3
                       expedition. ZooKeys 185: 73–78. doi: 10.3897/zookeys.185.3078




                       Abstract
                       This dataset includes information on sea stars collected during the ANDEEP3 expedition, which took
                       place in 2005. The expedition focused on deep-sea stations in the Powell Basin and Weddell Sea.
                            Sea stars were collected using an Agassiz trawl (3m, mesh-size 500µm), deployed in 16 stations
                       during the ANTXXII/3 (ANDEEP3, PS72) expedition of the RV Polarstern. Sampling depth ranged
                       from 1047 to 4931m. Trawling distance ranged from 731 to 3841m. The sampling area ranges from
                       -41°S to -71°S (latitude) and from 0 to -65°W (longitude). A complete list of stations is available from
                       the PANGAEA data system (http://www.pangaea.de/PHP/CruiseReports.php?b=Polarstern), including a
                       cruise report (http://epic-reports.awi.de/3694/1/PE_72.pdf ).
                            The dataset includes 50 records, with individual counts ranging from 1-10, reaching a total of 132
                       specimens.
                            The andeep3-Asteroidea is a unique dataset as it covers an under-explored region of the Southern
                       Ocean, and that very little information was available regarding Antarctic deep-sea starfish. Before this
                       study, most of the information available focused on starfish from shallower depths than 1000m. This
                       dataset allowed to make unique observations, such as the fact that some species were only present at
                       very high depths (Hymenaster crucifer, Hymenaster pellucidus, Hymenaster praecoquis, Psilaster charcoti,
                       Freyella attenuata, Freyastera tuberculata, Styrachaster chuni and Vemaster sudatlanticus were all found below
                       -3770m), while others displayed remarkable eurybathy, with very high depths amplitudes (Bathybiaster
                       loripes (4842m), Lysasterias adeliae (4832m), Lophaster stellans (4752m), Cheiraster planeta (4708m), Er-
                       emicaster crassus (4626m), Lophaster gaini (4560m) and Ctenodiscus australis (4489m)).
                            Even if the number of records is relatively small, the data bring many new insights on the taxonomic,
                       bathymetric and geographic distributions of Southern starfish, covering a very large sampling zone. The
                       dataset also brings to light six species, newly reported in the Southern Ocean.
                            The quality of the data was controlled very thoroughly, by means of on-board Polarstern GPS sys-
                       tems, checking of identification by a renowned specialist (Prof. Michel Jangoux, Université Libre de Brux-

                       Copyright Bruno Danis et al. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC-
                       BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Proof of concept       ZooKeys 185: 73–78 (2012)
                                        Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition
                       doi: 10.3897/zookeys.185.3078                                 DAtA PAPEr
                                                                                                                                            A peer-reviewed open-access journal

                                                                                                                                                                          73
                       www.zookeys.org                                                                                             Launched to accelerate biodiversity research




                          Antarctic Starfish (Echinodermata, Asteroidea) from
                                       the ANDEEP3 expedition


Impact Factor: 0.514                               Bruno Danis1, Michel Jangoux2, Jennifer Wilmes2

                       1 ANTABIF, 29, rue Vautier, 1000, Brussels, Belgium 2 Université Libre de Bruxelles, 50, av FD Roosevelt,
                       1050, Brussels, Belgium

                       Corresponding author: Bruno Danis (bruno.danis@gmail.com)


                       Academic editor: Vishwas Chavan  |  Received 13 March 2012  |  Accepted 18 April 2012  |  Published 23 April 2012

                       Citation: Danis B, Jangoux M, Wilmes J (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3
                       expedition. ZooKeys 185: 73–78. doi: 10.3897/zookeys.185.3078




                       Abstract
                       This dataset includes information on sea stars collected during the ANDEEP3 expedition, which took
                       place in 2005. The expedition focused on deep-sea stations in the Powell Basin and Weddell Sea.
                            Sea stars were collected using an Agassiz trawl (3m, mesh-size 500µm), deployed in 16 stations
                       during the ANTXXII/3 (ANDEEP3, PS72) expedition of the RV Polarstern. Sampling depth ranged
                       from 1047 to 4931m. Trawling distance ranged from 731 to 3841m. The sampling area ranges from
                       -41°S to -71°S (latitude) and from 0 to -65°W (longitude). A complete list of stations is available from
                       the PANGAEA data system (http://www.pangaea.de/PHP/CruiseReports.php?b=Polarstern), including a
                       cruise report (http://epic-reports.awi.de/3694/1/PE_72.pdf ).
                            The dataset includes 50 records, with individual counts ranging from 1-10, reaching a total of 132
                       specimens.
                            The andeep3-Asteroidea is a unique dataset as it covers an under-explored region of the Southern
                       Ocean, and that very little information was available regarding Antarctic deep-sea starfish. Before this
                       study, most of the information available focused on starfish from shallower depths than 1000m. This
                       dataset allowed to make unique observations, such as the fact that some species were only present at
                       very high depths (Hymenaster crucifer, Hymenaster pellucidus, Hymenaster praecoquis, Psilaster charcoti,
                       Freyella attenuata, Freyastera tuberculata, Styrachaster chuni and Vemaster sudatlanticus were all found below
                       -3770m), while others displayed remarkable eurybathy, with very high depths amplitudes (Bathybiaster
                       loripes (4842m), Lysasterias adeliae (4832m), Lophaster stellans (4752m), Cheiraster planeta (4708m), Er-
                       emicaster crassus (4626m), Lophaster gaini (4560m) and Ctenodiscus australis (4489m)).
                            Even if the number of records is relatively small, the data bring many new insights on the taxonomic,
                       bathymetric and geographic distributions of Southern starfish, covering a very large sampling zone. The
                       dataset also brings to light six species, newly reported in the Southern Ocean.
                            The quality of the data was controlled very thoroughly, by means of on-board Polarstern GPS sys-
                       tems, checking of identification by a renowned specialist (Prof. Michel Jangoux, Université Libre de Brux-

                       Copyright Bruno Danis et al. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC-
                       BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
afg. biodiversity.aq

• Identification aid
• High quality (useful) pictures
• Expert Descriptions
• Built on-the-fly from various sources
• Generates a pdf for taxa/area of interest
afg. biodiversity.aq
afg. biodiversity.aq
afg. biodiversity.aq
atlas.biodiversity.aq
atlas.biodiversity.aq
• Biogeographic Atlas of the Southern Ocean
atlas.biodiversity.aq
• Biogeographic Atlas of the Southern Ocean

• Redo of Hedgepeth 1969 Folio
atlas.biodiversity.aq
• Biogeographic Atlas of the Southern Ocean

• Redo of Hedgepeth 1969 Folio

• Predictive approach
atlas.biodiversity.aq
• Biogeographic Atlas of the Southern Ocean

• Redo of Hedgepeth 1969 Folio

• Predictive approach

• Static and dynamic versions
atlas.biodiversity.aq
• Biogeographic Atlas of the Southern Ocean

• Redo of Hedgepeth 1969 Folio

• Predictive approach

• Static and dynamic versions

• Modelization loops are ready
Slope
94 Interpolated data layers   Bathymetry
                              Chlorophyll
                              Distance to the continent
                              Distance to bird colonies
                              Distance to ice
                              Distance to shelf
                              Distance to canyon
                              Floor temperature
                              ...
                              +
                              ANTABIF Occurrence
                              records
Slope
94 Interpolated data layers   Bathymetry
                              Chlorophyll
                              Distance to the continent
                              Distance to bird colonies
                              Distance to ice
                              Distance to shelf
                              Distance to canyon
                              Floor temperature
                              ...
                              +
                              ANTABIF Occurrence
                              records
Slope
94 Interpolated data layers   Bathymetry
                              Chlorophyll
                              Distance to the continent
                              Distance to bird colonies
                              Distance to ice
                              Distance to shelf
                              Distance to canyon
                              Floor temperature
                              ...
                              +
                              ANTABIF Occurrence
                              records
R-functions GUI for BRT
R-functions GUI for BRT
mars.biodiversity.aq
mars.biodiversity.aq
• Microbial Antarctic Resource System
mars.biodiversity.aq
• Microbial Antarctic Resource System

• The organisms are small… but their environmental
  impacts are critical to many Antarctic ecosystems
mars.biodiversity.aq
• Microbial Antarctic Resource System

• The organisms are small… but their environmental
  impacts are critical to many Antarctic ecosystems

• They are the dominant and most diverse form of life in the
  oceans and in the various microbial habitats on the
  continent
mars.biodiversity.aq
• Microbial Antarctic Resource System

• The organisms are small… but their environmental
  impacts are critical to many Antarctic ecosystems

• They are the dominant and most diverse form of life in the
  oceans and in the various microbial habitats on the
  continent

• Access to their diversity is becoming cost-effective and
  increasing exponentially
mars.biodiversity.aq
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF

• Phased approach:
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF

• Phased approach:

     Step 0: data description and discovery
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF

• Phased approach:

     Step 0: data description and discovery

     Step 1: microbial sequence and habitat metadata
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF

• Phased approach:

     Step 0: data description and discovery

     Step 1: microbial sequence and habitat metadata

     Step 2: sequence data
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF

• Phased approach:

     Step 0: data description and discovery

     Step 1: microbial sequence and habitat metadata

     Step 2: sequence data

     Step 3: batch sequence data processing
mars.biodiversity.aq
• Integrate Antarctic microbial DNA sequence data in ANTABIF

• Phased approach:

     Step 0: data description and discovery

     Step 1: microbial sequence and habitat metadata

     Step 2: sequence data

     Step 3: batch sequence data processing

     Step 4: customized sequence data processing
mars.biodiversity.aq
mars.biodiversity.aq
• Potential applications:
mars.biodiversity.aq
• Potential applications:

     Is there a biogeography of Antarctic microbes?
mars.biodiversity.aq
• Potential applications:

     Is there a biogeography of Antarctic microbes?

     Document Antarctic bioprospecting activities
mars.biodiversity.aq
• Potential applications:

     Is there a biogeography of Antarctic microbes?

     Document Antarctic bioprospecting activities

      Assess bioindicating value of microbial diversity as
     early warning system of ecosystems shifts
Challenges
Challenges
Challenges
• Data deluge
Challenges
• Data deluge
• Huge gaps in the data
Challenges
• Data deluge
• Huge gaps in the data
• Missing data types
Challenges
• Data deluge
• Huge gaps in the data
• Missing data types
• Orphan datasets
Challenges
• Data deluge
• Huge gaps in the data
• Missing data types
• Orphan datasets
• True integration of complex data
Thanks and questions?


                    @biodiversityaq




                        image	
  ©	
  NY	
  Times	
  

ANTABIF at the BELSPO-SOA event

  • 1.
    ANTABIF: Bruno Danis - SOA-BELSPO event Antarctic Biodiversity Information Facility
  • 2.
    Antarctic Treaty « Inorder to promote international cooperation in scientific investigation in Antarctica, […], Scientific observations and results from Antarctica shall be exchanged and made freely available. »
  • 3.
    Our vision: Antarctic biodiversitydata are open, linked, useful, interoperable and safe.
  • 4.
    Antarctic Information Networks- scope David B, Danis B, Griffiths HJ
  • 5.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component David B, Danis B, Griffiths HJ
  • 6.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component • Free and open access to biodiversity data David B, Danis B, Griffiths HJ
  • 7.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component • Free and open access to biodiversity data • SCAR-MarBIN and ANTABIF projects David B, Danis B, Griffiths HJ
  • 8.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component • Free and open access to biodiversity data • SCAR-MarBIN and ANTABIF projects • Science, conservation and management David B, Danis B, Griffiths HJ
  • 9.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component • Free and open access to biodiversity data • SCAR-MarBIN and ANTABIF projects • Science, conservation and management • Networked community developments David B, Danis B, Griffiths HJ
  • 10.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component • Free and open access to biodiversity data • SCAR-MarBIN and ANTABIF projects • Science, conservation and management • Networked community developments • Scientific impact: Citations : 423, Publications: 58, H-Index: 11 David B, Danis B, Griffiths HJ
  • 11.
    Antarctic Information Networks- scope • Born as Census of Antarctic Marine Life as the data, visualization and analysis component • Free and open access to biodiversity data • SCAR-MarBIN and ANTABIF projects • Science, conservation and management • Networked community developments • Scientific impact: Citations : 423, Publications: 58, H-Index: 11 David B, Danis B, Griffiths HJ
  • 12.
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  • 14.
  • 15.
    Taxonomy 17,098 taxa The first dynamic Register of Antarctic Marine Species Taxonomic backbone Board of 64 editors Feeds World Register of Marine Species, Catalogue of Life and Encyclopedia of Life
  • 16.
    Taxonomy 17,098 taxa The first dynamic Register of Antarctic Marine Species Taxonomic backbone Board of 64 editors Feeds World Register of Marine Species, Catalogue of Life and Encyclopedia of Life
  • 17.
    Biogeography • Single accessto 900 datasets • 2.5 million records • Data back to 1900 (Pygoscelis adeliae) • Spatial data on over 5000 taxa • Downloadable • Interoperable • Free and open
  • 18.
    Biogeography • Single accessto 900 datasets • 2.5 million records • Data back to 1900 (Pygoscelis adeliae) • Spatial data on over 5000 taxa • Downloadable • Interoperable • Free and open
  • 19.
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    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation
  • 21.
    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation • Expedition design
  • 22.
    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation • Expedition design • Biogeographic patterns
  • 23.
    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation • Expedition design • Biogeographic patterns • Antarctic Field Guides
  • 24.
    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation • Expedition design • Biogeographic patterns • Antarctic Field Guides • Biogeographic Atlas
  • 25.
    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation • Expedition design • Biogeographic patterns • Antarctic Field Guides • Biogeographic Atlas • Gap analysis
  • 26.
    Antarctic Information Networks- applications • Data-driven Marine Protected Area designation • Expedition design • Biogeographic patterns • Antarctic Field Guides • Biogeographic Atlas • Gap analysis • more...
  • 27.
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  • 33.
    biodiversity.aq • www.biodiversity.aq • data.biodiversity.aq •ipt.biodiversity.aq • afg.biodiversity.aq • atlas.biodiversity.aq
  • 34.
    biodiversity.aq • www.biodiversity.aq • data.biodiversity.aq •ipt.biodiversity.aq • afg.biodiversity.aq • atlas.biodiversity.aq • mars.biodiversity.aq
  • 35.
    biodiversity.aq Promote)the)communit • www.biodiversity.aq MODULAR development)of)N ARCHITECTURE • data.biodiversity.aq •  GBIF)promotes)training)and)us • ipt.biodiversity.aq • afg.biodiversity.aq • atlas.biodiversity.aq • mars.biodiversity.aq ANTABIF
  • 36.
    biodiversity.aq Nodes)Investment)in)new)func@onality) Promote)the)communit • •  www.biodiversity.aq MODULAR development)of)N Nodes)extend)the)plaGorm)with)new)modules) ARCHITECTURE • data.biodiversity.aq •  GBIF)promotes)training)and)us Data discovery A)module)we)all)need) • ipt.biodiversity.aq A)module)I)need) • afg.biodiversity.aq • atlas.biodiversity.aq • mars.biodiversity.aq ANTABIF
  • 37.
    biodiversity.aq Nodes)Investment)in)new)func@onality) Promote)the)communit Nodes)Investment)in)new)func@ona • •  www.biodiversity.aq MODULAR development)of)N Nodes)extend)the)plaGorm)with)new)modules) ARCHITECTURE •  Nodes)extend)the)plaGorm)with)new)mod •  GBIF)promotes)training)and)us • data.biodiversity.aq Data discovery A)module)we)all)need) • ipt.biodiversity.aq A)module)I)need) Data visualization A)module)we)all)need) A)module)I)need) • afg.biodiversity.aq • atlas.biodiversity.aq • mars.biodiversity.aq ANTABIF
  • 38.
    biodiversity.aq Nodes)Investment)in)new)func@onality) NPT)can)be)extended)by)crea@ng)an Promote)the)communit Nodes)Investment)in)new)func@ona • •  www.biodiversity.aq installing)Modules) MODULAR development)of)N Nodes)extend)the)plaGorm)with)new)modules) ARCHITECTURE •  Nodes)extend)the)plaGorm)with)new)mod •  GBIF)promotes)training)and)us • data.biodiversity.aq Data discovery Data products A)module)we)all)need) • ipt.biodiversity.aq A)module)I)need) Data visualization A)module)we)all)need) A)module)I)need) • afg.biodiversity.aq • atlas.biodiversity.aq • mars.biodiversity.aq ANTABIF
  • 39.
    www.biodiversity.aq • general website •latest news • contact • sponsors • governance • resources • projects
  • 40.
    www.biodiversity.aq -resources- redo these slides with new structure of webportal (projects vs resources)
  • 41.
  • 42.
  • 43.
  • 44.
    share.biodiversity.aq -shared repository-
  • 45.
    data.biodiversity.aq • data discoveryinterface • visualize occurrence data on map • view taxonomic data • download data • view metrics • send feedback • access technical documentation
  • 46.
    Under the hood •Language: Ruby • Framework: Rails(ActiveRecord) and YUI • (smart) Search engine: Full text (ElasticSearch-Lucene) • Database/GIS server/SpatialDB: PostGresql/ Geoserver/PostGIS • Mapping client: OpenLayers • Web services: RESTish (all resources) • Protocols/Standards: DIF, DwC, DwC-A, Tapir…etc • GBIF tools : HIT, IPT • Hosting: BeBIF (ULB/VUB joint IT Center) • Metadata systems: GCMD API (DIF), EML
  • 47.
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  • 49.
    Under the hood SPATIALLYEXPLICIT OPEN SOURCE
  • 50.
    Under the hood SPATIALLYEXPLICIT OPEN SOURCE FLEXIBLE
  • 51.
    Under the hood SPATIALLYEXPLICIT OPEN SOURCE FLEXIBLE INTEROPERABLE
  • 52.
    Under the hood SPATIALLYEXPLICIT OPEN SOURCE FLEXIBLE INTEROPERABLE EXPANDABLE
  • 53.
    Under the hood SPATIALLYEXPLICIT OPEN SOURCE FLEXIBLE INTEROPERABLE EXPANDABLE MULTI-STANDARDS
  • 54.
  • 64.
    ipt.biodiversity.aq • Integrated PublishingToolkit • standardize and clean your data • manage primary biodiversity data • manage associated metadata • choose collaborators • generate and submit a Data Paper • push data and metadata to Information Systems
  • 65.
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    Reward data publishing Metadata document Data Paper
  • 71.
    Proof of concept ZooKeys 185: 73–78 (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition doi: 10.3897/zookeys.185.3078 DAtA PAPEr A peer-reviewed open-access journal 73 www.zookeys.org Launched to accelerate biodiversity research Antarctic Starfish (Echinodermata, Asteroidea) from the ANDEEP3 expedition Impact Factor: 0.514 Bruno Danis1, Michel Jangoux2, Jennifer Wilmes2 1 ANTABIF, 29, rue Vautier, 1000, Brussels, Belgium 2 Université Libre de Bruxelles, 50, av FD Roosevelt, 1050, Brussels, Belgium Corresponding author: Bruno Danis (bruno.danis@gmail.com) Academic editor: Vishwas Chavan  |  Received 13 March 2012  |  Accepted 18 April 2012  |  Published 23 April 2012 Citation: Danis B, Jangoux M, Wilmes J (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition. ZooKeys 185: 73–78. doi: 10.3897/zookeys.185.3078 Abstract This dataset includes information on sea stars collected during the ANDEEP3 expedition, which took place in 2005. The expedition focused on deep-sea stations in the Powell Basin and Weddell Sea. Sea stars were collected using an Agassiz trawl (3m, mesh-size 500µm), deployed in 16 stations during the ANTXXII/3 (ANDEEP3, PS72) expedition of the RV Polarstern. Sampling depth ranged from 1047 to 4931m. Trawling distance ranged from 731 to 3841m. The sampling area ranges from -41°S to -71°S (latitude) and from 0 to -65°W (longitude). A complete list of stations is available from the PANGAEA data system (http://www.pangaea.de/PHP/CruiseReports.php?b=Polarstern), including a cruise report (http://epic-reports.awi.de/3694/1/PE_72.pdf ). The dataset includes 50 records, with individual counts ranging from 1-10, reaching a total of 132 specimens. The andeep3-Asteroidea is a unique dataset as it covers an under-explored region of the Southern Ocean, and that very little information was available regarding Antarctic deep-sea starfish. Before this study, most of the information available focused on starfish from shallower depths than 1000m. This dataset allowed to make unique observations, such as the fact that some species were only present at very high depths (Hymenaster crucifer, Hymenaster pellucidus, Hymenaster praecoquis, Psilaster charcoti, Freyella attenuata, Freyastera tuberculata, Styrachaster chuni and Vemaster sudatlanticus were all found below -3770m), while others displayed remarkable eurybathy, with very high depths amplitudes (Bathybiaster loripes (4842m), Lysasterias adeliae (4832m), Lophaster stellans (4752m), Cheiraster planeta (4708m), Er- emicaster crassus (4626m), Lophaster gaini (4560m) and Ctenodiscus australis (4489m)). Even if the number of records is relatively small, the data bring many new insights on the taxonomic, bathymetric and geographic distributions of Southern starfish, covering a very large sampling zone. The dataset also brings to light six species, newly reported in the Southern Ocean. The quality of the data was controlled very thoroughly, by means of on-board Polarstern GPS sys- tems, checking of identification by a renowned specialist (Prof. Michel Jangoux, Université Libre de Brux- Copyright Bruno Danis et al. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC- BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
  • 72.
    Proof of concept ZooKeys 185: 73–78 (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition doi: 10.3897/zookeys.185.3078 DAtA PAPEr A peer-reviewed open-access journal 73 www.zookeys.org Launched to accelerate biodiversity research Antarctic Starfish (Echinodermata, Asteroidea) from the ANDEEP3 expedition Impact Factor: 0.514 Bruno Danis1, Michel Jangoux2, Jennifer Wilmes2 1 ANTABIF, 29, rue Vautier, 1000, Brussels, Belgium 2 Université Libre de Bruxelles, 50, av FD Roosevelt, 1050, Brussels, Belgium Corresponding author: Bruno Danis (bruno.danis@gmail.com) Academic editor: Vishwas Chavan  |  Received 13 March 2012  |  Accepted 18 April 2012  |  Published 23 April 2012 Citation: Danis B, Jangoux M, Wilmes J (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition. ZooKeys 185: 73–78. doi: 10.3897/zookeys.185.3078 Abstract This dataset includes information on sea stars collected during the ANDEEP3 expedition, which took place in 2005. The expedition focused on deep-sea stations in the Powell Basin and Weddell Sea. Sea stars were collected using an Agassiz trawl (3m, mesh-size 500µm), deployed in 16 stations during the ANTXXII/3 (ANDEEP3, PS72) expedition of the RV Polarstern. Sampling depth ranged from 1047 to 4931m. Trawling distance ranged from 731 to 3841m. The sampling area ranges from -41°S to -71°S (latitude) and from 0 to -65°W (longitude). A complete list of stations is available from the PANGAEA data system (http://www.pangaea.de/PHP/CruiseReports.php?b=Polarstern), including a cruise report (http://epic-reports.awi.de/3694/1/PE_72.pdf ). The dataset includes 50 records, with individual counts ranging from 1-10, reaching a total of 132 specimens. The andeep3-Asteroidea is a unique dataset as it covers an under-explored region of the Southern Ocean, and that very little information was available regarding Antarctic deep-sea starfish. Before this study, most of the information available focused on starfish from shallower depths than 1000m. This dataset allowed to make unique observations, such as the fact that some species were only present at very high depths (Hymenaster crucifer, Hymenaster pellucidus, Hymenaster praecoquis, Psilaster charcoti, Freyella attenuata, Freyastera tuberculata, Styrachaster chuni and Vemaster sudatlanticus were all found below -3770m), while others displayed remarkable eurybathy, with very high depths amplitudes (Bathybiaster loripes (4842m), Lysasterias adeliae (4832m), Lophaster stellans (4752m), Cheiraster planeta (4708m), Er- emicaster crassus (4626m), Lophaster gaini (4560m) and Ctenodiscus australis (4489m)). Even if the number of records is relatively small, the data bring many new insights on the taxonomic, bathymetric and geographic distributions of Southern starfish, covering a very large sampling zone. The dataset also brings to light six species, newly reported in the Southern Ocean. The quality of the data was controlled very thoroughly, by means of on-board Polarstern GPS sys- tems, checking of identification by a renowned specialist (Prof. Michel Jangoux, Université Libre de Brux- Copyright Bruno Danis et al. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC- BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
  • 73.
    Proof of concept ZooKeys 185: 73–78 (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition doi: 10.3897/zookeys.185.3078 DAtA PAPEr A peer-reviewed open-access journal 73 www.zookeys.org Launched to accelerate biodiversity research Antarctic Starfish (Echinodermata, Asteroidea) from the ANDEEP3 expedition Impact Factor: 0.514 Bruno Danis1, Michel Jangoux2, Jennifer Wilmes2 1 ANTABIF, 29, rue Vautier, 1000, Brussels, Belgium 2 Université Libre de Bruxelles, 50, av FD Roosevelt, 1050, Brussels, Belgium Corresponding author: Bruno Danis (bruno.danis@gmail.com) Academic editor: Vishwas Chavan  |  Received 13 March 2012  |  Accepted 18 April 2012  |  Published 23 April 2012 Citation: Danis B, Jangoux M, Wilmes J (2012) Antarctic Starfish (Echinodermata: asteroidea) from the ANDEEP3 expedition. ZooKeys 185: 73–78. doi: 10.3897/zookeys.185.3078 Abstract This dataset includes information on sea stars collected during the ANDEEP3 expedition, which took place in 2005. The expedition focused on deep-sea stations in the Powell Basin and Weddell Sea. Sea stars were collected using an Agassiz trawl (3m, mesh-size 500µm), deployed in 16 stations during the ANTXXII/3 (ANDEEP3, PS72) expedition of the RV Polarstern. Sampling depth ranged from 1047 to 4931m. Trawling distance ranged from 731 to 3841m. The sampling area ranges from -41°S to -71°S (latitude) and from 0 to -65°W (longitude). A complete list of stations is available from the PANGAEA data system (http://www.pangaea.de/PHP/CruiseReports.php?b=Polarstern), including a cruise report (http://epic-reports.awi.de/3694/1/PE_72.pdf ). The dataset includes 50 records, with individual counts ranging from 1-10, reaching a total of 132 specimens. The andeep3-Asteroidea is a unique dataset as it covers an under-explored region of the Southern Ocean, and that very little information was available regarding Antarctic deep-sea starfish. Before this study, most of the information available focused on starfish from shallower depths than 1000m. This dataset allowed to make unique observations, such as the fact that some species were only present at very high depths (Hymenaster crucifer, Hymenaster pellucidus, Hymenaster praecoquis, Psilaster charcoti, Freyella attenuata, Freyastera tuberculata, Styrachaster chuni and Vemaster sudatlanticus were all found below -3770m), while others displayed remarkable eurybathy, with very high depths amplitudes (Bathybiaster loripes (4842m), Lysasterias adeliae (4832m), Lophaster stellans (4752m), Cheiraster planeta (4708m), Er- emicaster crassus (4626m), Lophaster gaini (4560m) and Ctenodiscus australis (4489m)). Even if the number of records is relatively small, the data bring many new insights on the taxonomic, bathymetric and geographic distributions of Southern starfish, covering a very large sampling zone. The dataset also brings to light six species, newly reported in the Southern Ocean. The quality of the data was controlled very thoroughly, by means of on-board Polarstern GPS sys- tems, checking of identification by a renowned specialist (Prof. Michel Jangoux, Université Libre de Brux- Copyright Bruno Danis et al. This is an open access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC- BY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
  • 74.
    afg. biodiversity.aq • Identificationaid • High quality (useful) pictures • Expert Descriptions • Built on-the-fly from various sources • Generates a pdf for taxa/area of interest
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    atlas.biodiversity.aq • Biogeographic Atlasof the Southern Ocean • Redo of Hedgepeth 1969 Folio
  • 81.
    atlas.biodiversity.aq • Biogeographic Atlasof the Southern Ocean • Redo of Hedgepeth 1969 Folio • Predictive approach
  • 82.
    atlas.biodiversity.aq • Biogeographic Atlasof the Southern Ocean • Redo of Hedgepeth 1969 Folio • Predictive approach • Static and dynamic versions
  • 83.
    atlas.biodiversity.aq • Biogeographic Atlasof the Southern Ocean • Redo of Hedgepeth 1969 Folio • Predictive approach • Static and dynamic versions • Modelization loops are ready
  • 84.
    Slope 94 Interpolated datalayers Bathymetry Chlorophyll Distance to the continent Distance to bird colonies Distance to ice Distance to shelf Distance to canyon Floor temperature ... + ANTABIF Occurrence records
  • 85.
    Slope 94 Interpolated datalayers Bathymetry Chlorophyll Distance to the continent Distance to bird colonies Distance to ice Distance to shelf Distance to canyon Floor temperature ... + ANTABIF Occurrence records
  • 86.
    Slope 94 Interpolated datalayers Bathymetry Chlorophyll Distance to the continent Distance to bird colonies Distance to ice Distance to shelf Distance to canyon Floor temperature ... + ANTABIF Occurrence records
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    mars.biodiversity.aq • Microbial AntarcticResource System • The organisms are small… but their environmental impacts are critical to many Antarctic ecosystems
  • 93.
    mars.biodiversity.aq • Microbial AntarcticResource System • The organisms are small… but their environmental impacts are critical to many Antarctic ecosystems • They are the dominant and most diverse form of life in the oceans and in the various microbial habitats on the continent
  • 94.
    mars.biodiversity.aq • Microbial AntarcticResource System • The organisms are small… but their environmental impacts are critical to many Antarctic ecosystems • They are the dominant and most diverse form of life in the oceans and in the various microbial habitats on the continent • Access to their diversity is becoming cost-effective and increasing exponentially
  • 95.
  • 96.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF
  • 97.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF • Phased approach:
  • 98.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF • Phased approach: Step 0: data description and discovery
  • 99.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF • Phased approach: Step 0: data description and discovery Step 1: microbial sequence and habitat metadata
  • 100.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF • Phased approach: Step 0: data description and discovery Step 1: microbial sequence and habitat metadata Step 2: sequence data
  • 101.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF • Phased approach: Step 0: data description and discovery Step 1: microbial sequence and habitat metadata Step 2: sequence data Step 3: batch sequence data processing
  • 102.
    mars.biodiversity.aq • Integrate Antarcticmicrobial DNA sequence data in ANTABIF • Phased approach: Step 0: data description and discovery Step 1: microbial sequence and habitat metadata Step 2: sequence data Step 3: batch sequence data processing Step 4: customized sequence data processing
  • 103.
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  • 105.
    mars.biodiversity.aq • Potential applications: Is there a biogeography of Antarctic microbes?
  • 106.
    mars.biodiversity.aq • Potential applications: Is there a biogeography of Antarctic microbes? Document Antarctic bioprospecting activities
  • 107.
    mars.biodiversity.aq • Potential applications: Is there a biogeography of Antarctic microbes? Document Antarctic bioprospecting activities Assess bioindicating value of microbial diversity as early warning system of ecosystems shifts
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    Challenges • Data deluge •Huge gaps in the data
  • 112.
    Challenges • Data deluge •Huge gaps in the data • Missing data types
  • 113.
    Challenges • Data deluge •Huge gaps in the data • Missing data types • Orphan datasets
  • 114.
    Challenges • Data deluge •Huge gaps in the data • Missing data types • Orphan datasets • True integration of complex data
  • 115.
    Thanks and questions? @biodiversityaq image  ©  NY  Times