Transcript Data inventory and gaps

Development of a Marine Biological Data
Portal within the framework of EMODNet
Simon Claus, Leen Vandepitte & Tjess Hernandez
Flanders Marine Institute (VLIZ)
Outline Presentation

Introduction

Development phase




Standards & networks
System & functionalities
Data inventory & gaps and quality control
Challenges & recommendations
2
EMODnet
April 3, 2017
The overall objectives



Assemble fragmented and inaccessible marine data into interoperable, contiguous and
publicly available data streams for complete maritime basins.
•
define the appropriate processes, best technology and approximate costs of a
final EMODNET
•
provide first components of a final system which will be useful to provide
value-added services.
Temporal/Spatial distribution Phytoplankton, Zooplankton, Angiosperms, Macro-algae,
Invertebrate bottom fauna, Birds, Sea mammals, Reptiles. Parameters: Abundance,
Biomass. Geographic Focus: North Sea incl. Kattegat, Channel; Bay of Biscay, Iberian Coast
Proposal Biological Lot:
3
EMODnet
1.
Inventory of holdings
2.
Gap analysis
3.
Building data/metadata portal + integrate biological data
4.
Strategy plan for future
April 3, 2017
Current stage of EMODnet Biology

Finalizing the development phase of the preparatory action

Final report


Prototype portal

Analysis, lessons learned

Recommendations for future and for a final EMODnet
Start ‘maintenance phase’ in may 2011 (for one year)
4
EMODnet
April 3, 2017
The data portal system
→
→
→
→
→
Existing network of distributed data systems
OGC compliant data system
Standardized data system
System integrating data with different levels of accessibility
User friendly, can be used by non-specialist
5
EMODnet
April 3, 2017
The data portal system
→ Based on EurOBIS data system: standards
→ Uses OBIS scheme for integrating biogeographic data
→ Linked with global systems (OBIS-IODE/IOC-GBIF)
→ Taxonomy matched with World Register of Marine Species
→ Geographic standards: OGC compliant, Marine Gazetteer for geographic names
6
EMODnet
April 3, 2017
The portal functionalities
→
Data querying
(taxa; parameters, datasets, layers)
WoRMS
View
List
Filter
Download
Metadata
7
EMODnet
April 3, 2017
The portal functionalities
→
Taxonomic functionalities (WoRMS)
Autocompletion taxonomic search queries
Show map, include child taxa
8
EMODnet
Show map, including synonyms
April 3, 2017
The portal functionalities
→
Data visualization
9
EMODnet
April 3, 2017
The portal functionalities
→
Data table (list)
10
EMODnet
April 3, 2017
The portal functionalities
→
Selected Data attributes from EurOBIS:
DateLastModified, CatalogNumber, ScientificName, Year, Month, Day, Longitude, Latitude,
Precision(m), MinDepth(m) , MaxDepth (m), Sex, Observed Individual Count, SampleSize,
InstitutionCode, Citation, TaxonLSID, Metadata
11
EMODnet
April 3, 2017
The portal functionalities
→
Selected Data attributes from EurOBIS:
WHAT?
+
WHERE?
12
EMODnet
April 3, 2017
The portal functionalities
→
Selected Data attributes from EurOBIS:
BY WHO?
+
WHEN?
13
EMODnet
April 3, 2017
The portal functionalities
→
Selected Data attributes from EurOBIS:
HOW MANY?
14
EMODnet
April 3, 2017
The portal functionalities
→
Filter Data
15
EMODnet
April 3, 2017
The portal functionalities
→
Data downloading
16
EMODnet
April 3, 2017
The portal functionalities
→
Data catalogue (metadata)
17
EMODnet
April 3, 2017
The portal functionalities
→
Help & feedback
18
EMODnet
April 3, 2017
Data inventory and gaps
19
EMODnet
April 3, 2017
Data inventory and gaps
20
EMODnet
April 3, 2017
Data inventory and gaps
21
EMODnet
April 3, 2017
Data inventory and gaps: EurOBIS
EMODnet
22
EMODnet
April 3, 2017
Data inventory and gaps: EurOBIS
Relative distribution Number of records per species
group in EurOBIS (total=14.245.339)
23
EMODnet
April 3, 2017
Data inventory and gaps: EurOBIS
EurOBIS in April 2009
24
EMODnet
EurOBIS in February 2011
April 3, 2017
Data inventory and gaps
25
EMODnet
April 3, 2017
Data inventory and gaps: EurOBIS
Available datatypes
0
5000000
10000000 15000000 20000000
Number of records
14360293
Metadata available
14360293
Geographic info availabale
14360293
Time referenced
13781399
Taxonomic standardized
Abundance data available
13191948
7719707
26
EMODnet
April 3, 2017
Data inventory and gaps: precision EurOBIS
Taxonomic precision
0
5000000
10000000
Temporal precision
15000000
Number of records
20000000
14360293
0
5000000
10000000
Number of records
20000000
14360293
Year available
Phylum level
15000000
13781399
13172969
Month Available
Familiy level
13414925
12572272
Day available
Species level
11279478
HH:MM available
12998869
7275473
Geographic precision
0
10000000
Number of records
14360293
Geographic precision (0<x<995275 m)
27
EMODnet
Placenames translated
20000000
7910314
174685
polygon of a placename is translated to a centroid lat/long
and the precision corresponds to the maximum radius of
the bounding circle of that polygon
April 3, 2017
Data inventory and gaps: Taxonomic Quality
control
Dataset
Before tax. check
1
Amphiura sunderali
2
Amphiura sundevali
3
Amphiura sundvali
4
Amphiura sundevalli
After tax. check
Amphiura sundevalli
Dataset A (Spain)
Dataset B (Greece)
Acantholaimus sp. 1
Acantholaimus sp. 1
Acantholaimus sp. 2
Acantholaimus sp. 2
?
28
EMODnet
www.marinespecies.org
April 3, 2017
Data inventory and gaps: Taxonomic Quality
control
29
EMODnet
www.marinespecies.org
April 3, 2017
Data inventory and gaps: Geographic Quality
control
Communication with
provider
Before quality control
After quality control
18°30’25’’N – 5°15’E
18.51 ; 5.25
54,23N – 16.5S
54.23 ; -16.5
Some examples
“Monitoring in Kongsfjorden area”
Latitude & longitude switched
“Monitoring in Belgian part of the North Sea”
“+” & “-” signs switched
Data inventory and gaps: national long term
monitoring
32
Country
Sweden
Denmark
Germany
Netherlands
Belgium
United Kingdom
Ireland
France
Spain
Portugal
EMODnet
Groups
benthos, plankton, mammals
benthos, plankton, algae, reptiles, mammals
benthos, plankton, algae, birds, mammals
benthos, plankton, birds, plants, mammals, bacteria
benthos, birds, mammals
benthos, plankton, birds, algae, reptiles, mammals
benthos, plankton, birds, algae, mammals
benthos, plankton
plankton
(benthos), phytoplankton, shellfish
Temporal scope
1971 - present
1976 - present
1974 - present
1956 - present
1979 - present
1970’s - present
1970’s - present
1980’s - present
1987 - present
?
April 3, 2017
Data inventory and gaps: national long term
monitoring: REPHY monitoring
33
EMODnet
April 3, 2017
Data inventory and gaps: species observations
per group
Nucella lapillus
Mytilus edulis
Nephrops norvegicus
Common name
dogwhelk
blue mussel
Dublin bay prawn
# records
21 617
21 586
19 239
Time-frame
1854 - 2009
1986 - 2010
1929 - 2010
# datasets
22
55
35
Linked with http://www.marinespecies.org
34
EMODnet
April 3, 2017
Data inventory and gaps: species observations
per group
35
EMODnet
April 3, 2017
Challenges & recommendations

Main strategies/barriers to the provision of data


36
EMODnet
Scientific datasets

Through questionnaires to partner networks: metadata ok

Data grant program (e.g. Black Sea, IBSS) – mini grants for digitizing/standardize/qc

Through organisation of ‘scientific data workshops’ (MarBEF experience), in progr.

Identified bioloigcal data products during workshop

Implementation data products through data analysis workshops:

distinct diversity patterns and hotspots (using diversity indices) of European Marine
Waters based on EurOBIS data?

species distribution patterns and trends of some selected higher organisms based on
available data
Monitoring programs: in progr.

Provided and in progress (France, Germany...)

Stimulation by EU desirable
April 3, 2017
Challenges & recommendations

Main strategies/barriers to the provision of data

Time gap....
37
EMODnet
April 3, 2017
Recommendations

Recommendations for the overall EMODnet
 Sustainability


The model for governance by actors in the system


38
All relevant actors; these include the large data collating centers, national organizations in
charge of the monitoring of the marine environment, the private industry and the scientific research community
Availability of standard procedures facilitating data flow


Welcomed the communication Marine Knowledge 2020, in which a common architecture and governance
model for marine observations and data across the EU is proposed
Link with EU initiatives, EU directives (WFD, MSFD), national monitoring activities: facilitating data flow
Future activities for the biological project

Focus on data identified gaps (Also during maintenance phase)

Ecological tagging (functional group, invasive, protected...)

Improve link between other emodnet lots (cfr habitat mapping project (biological validation), abiotic data...)

Technical improvements (visualise temporal component...)

Genomic data
EMODnet
April 3, 2017
Monitoring effectiveness/performance of portal

Intensity of use: launched end of February 2011

After three months:

Feedback forms received (20) + feedback from MODEG

150 downloads
PhD, informative, Scientific research (Governmental institute), Research, Integration into OBIS, validation routines, For classes,
Biogeographic research, marine data mgt. training, Data comparisons, science, species mapping and marine protection zones,
I will use these data to estimate the ecological requirements of the species, The purpose of my research is to understand the
impact of the environment on behaviour of species, I study the ecological requirements of the species, Ecological Niche, The
assess the ecological niceh of the species, Ecological Niche, information, Variation of Copepod behaviour and effect of biomass
variation, Effect of biomass on copepod behaviour, Habitat modelling., environmental analysis, Data vergelijking….
39
EMODnet
April 3, 2017
Monitoring effectiveness/performance of portal



Comments from EU on draft final report

In depth analysis, very useful input (combination from MODEG and feedback)

Launched new version of portal based on input
Comments on MRAG

Lacking some detail in analysis (most comments on data catalogue, not on data portal)

‘Odd’ statements in summary:

It is not possible to directly extract data on one species

Much of the metadata, for instance dates and species are missing
Expert in INSPIRE thematic groups

Species observations

Habitats/biotopes

Biogeographic regions
40
EMODnet

Use same standards as EMODnet: WoRMS, marine Ecoregions,...
April 3, 2017
Thank you
41
EMODnet
April 3, 2017
Challenges

Fitness for purpose (measuring ecosystem health): link data EMODnet Bio
portal to descriptors for GES

Descriptor 1 states that Biological diversity is maintained. The quality and occurrence of habitats
and the distribution and abundance of species are in line with prevailing physiographic,
geographic and climate conditions => 14 million distribution records of which 50% contain
abundance data.

Descriptor 2 mentions that non-indigenous species introduced by human activities are at levels
that do not adversely alter the ecosystem=>Although there are data on several non indigenous species available,
the species have yet not been ‘tagged’ as non-indigenous

Descriptor 4 states that All elements of the marine food webs, occur at normal abundance and diversity and
levels capable of ensuring the long-term abundance of the species…=>the abundance data and taxonomic
diversity information of the distributions could be used in order to test this.

Descriptor 6 mentions that Sea-floor integrity is at a level that ensures that the structure and functions of the
ecosystems are safeguarded and benthic ecosystems, in particular, are not adversely affected. The benthic data
counts for about 20-25% of the data
42
EMODnet
April 3, 2017