nlbif2015 foste rpresentation

Providing and using (open) biodiversity data through the infrastructure of the Global Biodiversity Information Facility

(GBIF): lessons and achievements of the first 10 years

Cees H.J. Hof

Netherlands Biodiversity Information Facility (NLBIF)

The Dutch branch of the Global Biodiversity Information Facility (GBIF)

"Biological diversity" means the variability among living organisms from all sources including, inter alia, terrestrial, marine and other aquatic ecosystems and the ecological complexes of which they are part; this includes diversity within species, between species and of ecosystems….

What is biodiversity?

Cees HofNetherlands Biodiversity Information Facility (NLBIF) Connecting data for research 2015

Biodiversity data are….

Natural history collections

Living collections


Biodiversity data are….

Citizen science data

Systematic monitoring + research data


Biodiversity data for:Taxonomy

Biomimicry studiesEducation and public outreachBorder control and wildlife tradeForensics

Health and public safetyAgriculture, forestry, fishing and mining

Natural resource managementConservation planning

Ecology, evolution and genetics

Impact of climate change

Endangered, migratory and invasive species

Life histories and phenologiesSpecies diversity and populations

Biogeographic studies

Fundamentalresearch

AppliedresearchEcotourism


The mission of the Global Biodiversity Information Facility (GBIF) is to facilitate free and open access to biodiversity data worldwide via the Internet to underpin sustainable development.

Megascience Forum Working Group on Biological Informatics

1999 The purpose of GBIF is to co-ordinate the standardisation, digitisation and global dissemination (within an appropriate property rights framework) of the world's biodiversity data.

Ministers acknowledged the importance of such a facility in the areas of health, resource management, environmental protection, agriculture and education.

2001 GBIF established and secretariat settled in Copenhagen

History of GBIF

Founded by OCW, NWO and UvA2002NLBIF

2012 Currently structurally financed by OCW, hosted by UvA


The mission of the Global Biodiversity Information Facility (GBIF) is to facilitate free and open access to biodiversity data worldwide via the Internet to underpin sustainable development.

Mobilising biodiversity data, developing protocols and standards to ensure scientific integrity and interoperability, building an informatics architecture to allow the interlinking of diverse data types from disparate sources

Distributed network, both technical and organisational

Focus on species occurrence data and metadata, but expanding to new data types


GBIF country participants

Data published through GBIF.orgTrend in primary biodiversity records (millions)

Jan-

08Ma

r-08

May-0

8Ju

l-08

Sep-

08No

v-08

Jan-

09Ma

r-09

May-0

9Ju

l-09

Sep0

9No

v-09

Jan-

10Ma

r-10

May-1

0Ju

l-10

Sep-

10No

v-10

Jan-

11Ma

r-11

May-1

1Ju

l-11

Sep-

11No

v-11

Jan-

12Ma

r-12

May-1

2Ju

l-12

Sep-

12No

v-12

Jan-

13Ma

r-13

May-1

3Ju

l-13

Sep-

13No

v-13

Jan-

14Ma

r-14

May-1

4Ju

l-14

Sep-

14No

v-14

Jan-

15Ma

r-15

May-1

5Ju

l-15

Sep-

15

200

250

300

350

400

450

500

550

600

650

700

750

800


Data by gbif participant

1. United States 212,958,707 6. Netherlands 27,503,881

2. Sweden 52,601,060 7. Finland 20,157,055

3. United Kingdom 49,616,634 8. Germany 19,221,758

4. Australia 40,373,693 9. Norway 19,140,600

5. France 39,619,893 10. Spain 10,667,845

Total number of records published—Top 10 Participant Countries (as of 30 September 2015)


The primary GBIF data:What is a record in GBIF?

GBIF hosts so called “occurrence data”

Which species of plant / animal / micro-organism was observed / collected from which locality and when?

Taxonomic information Geographic information

01 May 197100:00:00

Temporal information


http://www.gbif.org/occurrence


http://www.gbif.org/occurrence

http://www.gbif.org/species


http://www.gbif.org/species

Search for:


Find….Filter ….& Download


Central data portal

Centraldata index

Distributed data publishers


API’s

The GBIF infrastructure

The two success formulas driving GBIF:

The datastandard for biological data: Darwin Core (DwC)

Body of data standards which function as an extension of Dublin Core for biodiversity informatics

9 categories, about 180 terms

Additional info in data extensions, data zipped in “Archives”

The Integrated Publishing Toolkit (IPT)

An easy to deploy toolkit to “publish” your primary biodiversity data and your metadata

Free and open source, based on the efforts of a community

Provided with standard CC licencing options + using DOI’s


The GBIF data model(DarwinCore-Archives)


Handles multiple datasets

Feed spreadsheets, CSV files or connect to your institutes database

For primary data + metadata

The GBIF Integrated Publishing Toolkit (IPT)


Using Creative Commons

Using DOI’s

Worldwide:

In NL: NIOZ, IBED (UvA), Alterra (WUR), CGN (WUR), Naturalis, NLBIFSovon, RAVON, Floron

Installations of the Integrated Publishing Toolkit (IPT)


Use of GBIF data in research….

Annual number of peer-reviewed publications using GBIF-mediated data

2008

2009

2010

2011

2012

2013

2014

2015 (Jan-Sep)

0 50 100 150 200 250 300 350 400

52

89

148

169

229

249

357

293


GBIF data download requests, by country

1. Mexico 13,589 6. Colombia 3,202

2. United States 9,165 7. United Kingdom 2,920

3. China 5,294 8. South Africa 2,170

4. Brazil 5,109 9. Australia 1,950

5. Spain 3,785 10. Ecuador 1,824

Total of 73,719 requests

from 6,833 users in

140 countries, islands and territories

1 Jan 2015 – 30 September 2015


(Billion records per day!)

Use of the GBIF infrastructure at the national level….

WUR E-depot

Paper

Dataset


Use of the GBIF infrastructure at the national level: feeding metadata to NARCIS


Use of the GBIF infrastructure at the national level: providing “GBIF views” on EASY data


GBIF lessons…

Start simple

Distributed data systems, distributed applications(strong, cheap, resilient, …..)


Agile developments, continuing interaction with users

Thematic interaction with research community

http://www.gbif.org

http://www.nlbif.nl

THANK YOU!


http://www.gbif.org/

http://www.nlbif.nl/

nlbif2015 foste rpresentation

Science