National Museum of Nature and Science

APBON Meeting at ACB
Presentations on Current Biodiversity Observations in the
Asia Pacific Region
National Museum of Nature and
Science
2013.11.26.
Tsuyoshi Hosoya
National Museum of Nature and Science
National Museum of Nature and Science
Major functions
Research, Education, Collection building
Five Departments
Dept. of Botany
Dept. of Zoology
Dept. of Geology
Dept. of Anthropology
Dept. of Science & Technology
Two Institutes for Nature Research
Tsukuba Botanical Garden
Institute for Nature Study (Meguro, Tokyo)
Total numbers of specimens disclosed: 1.18Mil.
(incl. 0.32 Mil. Obs. Data for seasonal changes)
Mainly specimen data, not observation data.
Outlines of our collecting activity
origin
Other collections
Field
（Personal, Abandoned）
Collecting
Acception
process
Specimens
Isolation, Cultivation
Processing (format, database)
DNA Specimens
product
Herbairum
Specimens
Research/Exploitation
exploitation
Isolates
Maintainance/Preservation
Inventory
Taxonomic research
Exhibition
Education
External Culture collection
JCM, NITE, etc.
Extracted DNA specimens
Tissues for DNA extraction
Stored cultures (10% Gylcerol)
地球規模生物多様性情報機構
Global Biodiversity Information Facility
• An international organization that focuses on making
biodiversity data available though the Internet .
• Membership: countries, international organization.
• Membership fee: charged for voting members.
• Regions>Nodes
Vision: A world in which biodiversity
information is freely and
universally available for science,
society, and a sustainable future.
Mission: To be the foremost global
resource for biodiversity
information, and engender smartsolutions for environmental and
human well-being.
High sea
4% Africa5%
Asia Antarctica
0%
3%
S. & C. America
5%
Oceania
8%
Data providers
based in regions
More data from
Asia expected
Europe
42%
North America
33%
Data Records Breakdown by GBIF Participant
14th
Data publication flow
Documents
Research
Projects
Univ.
Tokyo
National Institute
of Genetics
National
Museum of
Nature & Science
56 Institutions: Natural
History Museums and
Universities.
Japanese version
S-Net
(for domestic use)
English
version
G
B
I
F
Participants of S-Net
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遺伝研経由
国立科学博物館経由
国立環境研究所経由
http://science-net.kahaku.go.jp
Data published from Japan
4.27 mil.
2500000
2000000
1500000
1000000
500000
Specimen
Observation
0
Animalia
Plantae
Living
Fungi
Ohters
Format of the specimens
Packets (P)
Boxes (B)
Pressed (R) Larger Containers(C)
Boxes (B)
Boxes (B)
Translation of important documents provided by GBIF
MOU
Strategic Plan
Newsletter
All available in Japanese as “starter kit “ through the
website
8 paged brochure
in Japanese
•
•
•
•
•
•
•
Why biodiversity information important
What are the data provided from GBIF
Regionalized activity of GBIF
JBIF: how does it operate
Networking in Japan
Major function of the websites
1 topic/page; Key messages summarized at the
bottom of each page.
• Boxes for specific topics.
also available in PDF
GBIF Japan Node Portal Site
English/Japanese
Events, News & Topic, Blogs
www.gbif.jp/v2/en/
Renewal of Homepage
1) Outsourced to professional homepage
designers.
2) Simple visual structure for easier
understanding for the activities.
3) To attract attention, beautiful photos
related to biodiversity are included.
4) Brochure available from the portal site.
5) Linked to registered members of “S-Net”.
6) English version available
http://www.gbif.jp/v2/
English available
Biodiversity related photos
1
2
3
Directly searchable
http://data.gbif.org/occurrences/search.htm
Other info, links
Events, News & Topic, Blogs
Outsourced to professional homepage designers.
Simple design.
•GBIF member Organization sites
•Japan Node Related Organizations
•Useful Websites
http://www.gbif.jp/v2/
1
2
3
1
To use GBIF data
Linked to GBIF website
1
2
3
2
To publish GBIF data
Compatibility test
1
2
3
Those who wishes to publish data through JBIF can ask for support
Compatibility of your data file
can be examined.
Name：Free dating sites
Organization：LwQkSnlJNUoGCdencyU
Email：[email protected]
Oranisms：ayMFvCzkMoxn
Specimen data：87457
Observation data：92419
Data format：Excel
Abstract of the data：
Hey, I've surely got to say, I really like your website. The shades,
the format, the overall topic, each of them get properly together.
Anyhow, that's all I really had to state.
3
Gbits (translated version available)
1
2
3
4
5
6
4
The Role of GBIF
GBIF Data Portal GBIF Newsletters
Related Articles
4
5
5
Linked data
Linked Open Data
Integrated data
Excel, Access, Words, PDF, etc.
Opened data
In a shared terminal/HDD/NAS, internet, etc.
Closed data
In note book, in one’s own PC, etc.
Interaction
Scattered data
Convenience
Integrated tables, DBs, etc
Asian Regional Strategy
Strategy 1: Build network of data holders and providers in the
region by sharing information on GBIF and regional nodes
informatics infrastructure as well as information on existing thematic
databases such as FishBase, IBIN, ILTER, species group networks.
Strategy 2: Popularize the data paper incentive through
development of metadata catalogues and corresponding datasets.
Strategy 3: Explore (funding) options for mobilising legacy data
housed in museums and herbaria and (mechanism) for repatriation
of biodiversity data from Asia housed in other countries.
Strategy 4: Strengthen help desk facility at regional nodes to ensure
the use of DwC-A standard for generating new biodiversity data
(metadata, occurrences, checklist) and to better mobilise the
publishing of data through GBIF IPT platform.
National strategy of Japan Node (major points)
1. Increase realization of importance of Biodiversity
Information.
2. Improve function of museum and allied
organization related to Biodiversity Information.
3. Appeal the importance of Biodiversity Information
widely to citizens/policy makers.
4. Increase the popularity of JBIF.
5. Extend relationship with other Biodiversity
Information related projects.
6. Participate in GBIF activity in Asian region in a
proactive manner.
Communication
Node Manager
Related
organizations,
ministries &
agencies
Steering Committee
(16 members)
Authorization
Report
National
Activity
Working Group
(7 members)
• Node Manager works as a point person between JBIF and GBIF.
• To enhance the communication, some members of Working Group are also assigned
as Steering Committee members.
• Node Manager works as a manager of the working group.
8 paged brochure
in Japanese
•Why biodiversity information important
•What are the data provided from GBIF
•Regionalized activity of GBIF
•JBIF: how it operates
•Networking in Japan
•Major function of the websites
also available in PDF
Biodiversity
Occurence
Conservation
Informatics
Taxonomy
Monitoring
Asia Region
Integration of Red List/
Invasive Alien Species
List
Consolidation of activity of JBIF
Change in governance
MEXT
After COP10
(2010)
Ministry of Education,
Culture, Sports, Science and
Technology
[Science]
MOE
Min. of Environment
[Environment]
Consolidation of domestic activity was required to:
• Seize the biodiversity information in Japan.
• Ensure more and stronger collaboration.
• Increase awareness of JBIF activity in Biodiversity
Informatics.
• Promote data exploitation.
JBIF: How it operates?
Key factor: Stable funding
NBRP (National Bioresource Project)
• Major objectives: to collect, preserve, and provide
biological resources that are essential experimental
materials for life sciences research to meet the
current scientific demands.
• Reinforcement of functions of the information center to
enhance dissemination of the information.
• 29 resource groups
• 1 information center
• 6,300,000 accumulated resources
Organization
Japanese macaques
Bioresource Centers
C. intestinalis
Chicken/Quail
Zebrafish
Medaka
Mouse
Rat
Resource Information
Genomic Information
Paramecium
X. tropicalis
Silkworm
Drosophila
Aminals
C. elegans
Arabidopsis
Information Center
（NIG)
Chrysanthemum
Morning Glory
Lotus/Glycine
GAIN
Tomato
GBIF
Plants
Research
Community
Rice
Wheat
Barley
Microbes/Cells/DNA
Feedback Research Results
Algae
Cellular slime molds
Yeast
Prokaryotes(E. coli, B. sub)
Pathogenic
Microbe Cells
DNA CBSC for research
General microbes
Resource Research Circulation
Global, Regional, and National…
Work Program
Strategy
S
Mission
GBIF Strategic Plan 2012-2016
2001-2006
2007-2011
Proving the concept
Towards full operation
2012-2016
Seizing the future
Vision: A world in which biodiversity information is
freely and universally available for science,
society, and a sustainable future.
Mission: To be the foremost global resource for
biodiversity information, and engender smartsolutions for environmental and human wellbeing.
GBIF Stategic Plan 2012-2016
1.Advance the digital content
Ensure scientific fitness-for-use, impact,
comprehensiveness, and access to
new data domains.
2.Advance the informatics infrastructure
Ensure the most effective distribution, open
access, discovery and use, of GBIF-mediated
data.
3.Advance the engagement
Ensure that GBIF benefits the widest global
audience-increasing participation and
partnerships, capacity and newworking.
National strategy of Japan Node (tentative translation by Hosoya)
1. Increase realization of importance of Biodiversity Information.
(1) Enrich examples of research based on data utilization/exploitation
(2) Promote mobilization of new data (incl. those from materials at hand) mobilization.
(3) Assist up ranking of information technitian, researchers’ morals
(4) Promote publication of datapapers
(5) Increase numbers of publication of dataset from GBIF
2. Improve function of museum and allied organization related to Biodiversity Information.
(1) Assist enlargement of network between museums, universities, and national institutes.
(2) Set up opportunities to know requirement from museums and citizens.
(3) Assist data publication through the museums.
(4) Engagement with universities, research institutes.
3. Appeal the importance of Biodiversity Information widely to citizens/policy makers.
(1) Propose engagement between related administration
(2) Enrich examples on data utilization/exploitation in political decision making
(3) Promote outreach about cumulating Biodiversity Information (incl. GBIF) to the society
(4) Generate a mechanism that can maintain the collected data for generations
4. Increase the popularity of JBIF
(1) Promote publication to increase GBIF popularity
(2) Training course, workshops, and symposia
5. Extend relationship with other Biodiversity Information related projects
(1) Promote activity with other Biodiversity Information related projects with common direction.
6. Participate in GBIF activity in Asian region in a proactive manner.
(1) Assist development of activity of Asian Participants
Asian Regional Meeting
1. 2009.9. Thailand
2. 2010.11. India
3. 2012.3. Japan
Sheila Vergara (ACB)erected as an Asian representative
4. 2012.6. Taiwan
Strategy composed
1
2
1
1
1
1
1
1
1
2
1
1
1
1
2
1
Riken
Steering Committee
Tokyo University
Hokkaido University
Kyushu University
Yokohama University
National Museum of Nature and Science
Biodiversity Center of Japan (MoE)
Japan Science and Technology Agency
Yamashina Institute for Ornithology
National Institute of Genetics
Japan Agency for Marine-Earth Science and Technology
National Museum of Nature and Science
Hyogo University / Prefectural Museum
National Institute of Genetics
National Museum of Nature and Science
National Institute for Agro-Environmental Science (MAFF)
Working Group
National strategy of Japan Node (tentative translation by Hosoya)
1. Increase realization of importance of Biodiversity Information.
(1) Enrich examples of research based on data utilization/exploitation
(2) Promote mobilization of new data (incl. those from materials at hand) mobilization.
(3) Assist up ranking of information technitian, researchers’ morals
(4) Promote publication of datapapers
(5) Increase numbers of publication of dataset from GBIF
2. Improve function of museum and allied organization related to Biodiversity Information.
(1) Assist enlargement of network between museums, universities, and national institutes.
(2) Set up opportunities to know requirement from museums and citizens.
(3) Assist data publication through the museums.
(4) Engagement with universities, research institutes.
3. Appeal the importance of Biodiversity Information widely to citizens/policy makers.
(1) Propose engagement between related administration
(2) Enrich examples on data utilization/exploitation in political decision making
(3) Promote outreach about cumulating Biodiversity Information (incl. GBIF) to the society
(4) Generate a mechanism that can maintain the collected data for generations
4. Increase the popularity of JBIF
(1) Promote publication to increase GBIF popularity
(2) Training course, workshops, and symposia
5. Extend relationship with other Biodiversity Information related projects
(1) Promote activity with other Biodiversity Information related projects with common direction.
6. Participate in GBIF activity in Asian region in a proactive manner.
(1) Assist development of activity of Asian Participants
GBIF Japan Node Portal Site provides…
• News on activity
• Search for Japanese materials.
• Tutorial movies on “how to use GBIF site”.
• Some outcomes from GBIF data.
• Statistics of GBIF.
• Tools to check if the given data is appropriate
to GBIF registration.
Homepage in Japan: under revision
URL: http// www
Challenges (Barriers)/ Solutions
Need collaboration with other biodiversity related
projects (e.g. JBON, JaLTER)
Enhance human relationship.
Need more examples of data exploration
Successful examples to be published
and cumulated.
国際貢献指向
一般市民
レベル
Brain storming for strategy
あらゆる人が生物の多様性を
使いこなし享受する
GBIFの必要性
訴える
S-Net GBIF関連テキスト啓発書ツールなど
生物多様性大国の実現
自然への理解↑・自然とのふれあい・
安心安全な自然豊かな国土・バイオ
セキュリティ・移入種
国家戦略の
チェック
経済的な支援
市民科学者の貢献
GBIF認知度向上・データ提供意義
の説明（パンフレット作成など）
文科・環境・国交・農水連携の模索（省
庁連絡会議の活用など）
国家戦略への提言
行政
レベル
地域指向
生物多様性条約
生物多様性条約
データの利用・活用による使用例（政策・
意思決定）の充実
S-Netの働きの活用
公開件数を増やす
データの利用・活用による使用
例（研究）の充実
博物館施設の機能向上
ニーズをひきだす
仕組み（機会）を設
ける
活動の重要性のアピール
（国内・国際発信）博物館の地位向
実務者
レベルデータ資源（“sleeping
マスコミへのアピール
データ提供者に
やさしい「データ
整備ガイド」作成
上・必要性
新規データ（既存資料含
む）の充実と取り込み
data”）の把握
活用事例の紹介と調べ
やすく見やすいＨＰ作成
Localized S-Net
重要機関の特定・協力
呼びかけ
博物館ネットワーク
の拡大・運営
情報整備者のステータスアップ、研究者のモラル向上
GBIF関連テ
発行
データペーパーの推奨
市民科学者の
育成・支援
2nd Asian Nodes Workshop highlights / general remarks
(partially cited)
1. The region, the continent Asia is very diverse, also in the
context of GBIF. This heterogeneity poses some challenges
in terms of collaboration and communication.
2. Despite its potential, the representation of the region in
GBIF is not very strong. Relevant causes for this is that
there are only two voting members of GBIF in Asia, and
there is not a single full time GBIF node manager in the
continent, lack of a national mandate or budget are also
common issues for GBIF nodes.
3. There was a consensus about keeping contacts and starting
activities at the regional level. However how to move
forward and what level of formalization is needed remain
issues open for discussion.
Report on Regional Workshop of the GBIF Participant Nodes in Asia
Regionalization
Background
•Rapid increase of participants, still increasing.
•Due to the limited manpower, regionalization
became necessary based on collaboration
within the region.
Node Committee
NODES
Node Committee Chair
Regional Representatives
(6)
Vice（2）
Africa
Node Steering Group（NSG）
Asia
Europe
Lat America
N America
Oceania
Regional SubCommittee
GBIF participants
Data quantitiy heat map
More data required from Asian region which embraces vast biodiversity
Numbers of records
millions)
(in millions)
of records
Number(in
Breakdown of data
Observation records
of birds
140
120
100
80
60
40
Observation
Observation
20
Specimens
Specimen
0
Animalia
Animals
Others
Other data types
Plantae
Plants
Other kingdoms
Others
Annual Report 2011
Distribution of Pueraria lobata “Kudzu”
Invasive species distribution can be monitored.
Distribution of sparrow
Jan
July
Migration path can be reveled by comparison
Biodiversity map for endemic plants
Unknown hot spot may be
detected.
Key Facts of GBIF
1. An international organization established by the
recommendation of Mega Science Forum of OECD
2. Secretariats in Copenhagen (Copenhagen Univ.)
3. 87 participants. Participated by signing on
memorandum of understanding (MOU).
4. Operating on the fund provided by Voting
Paricipants.
5. Current number of records :3.8Bil. (as of Dec, 2012)
6. First focusing on species and specimen data. In the
future, expected to be expanded to genes and
ecosystems.
地球規模生物多様性情報機構
Global Biodiversity Information Facility (GBIF)
Website
(http://www.gbif.org/)
GBIF Dataportal
(http://data.gbif.org/)
Database
Data collected in a common format
Address
Jl. Raya Jakarta Bogor Km 46
Jl. Tol Iskandar Depok No. 1
Jl. Ciawi No 2
Island
Jawa
Jawa
City
Depok
Bogor
Name
Pesi
Harini
Deden
Telephone no
03-5555-4444
029-853-5555
03-1333-8888
Detailed 1 Detailed 2 Family Name First Name Telephone no
330-230 Yaniar
Harini
029-853-4444
Utara
8-56
Sumirat
Deden
029-980-5555
Selatan
To get integrated, common format is vital
Darwin Core
Impact of GBIF is increasing
Annual Report 2011
3rd floor of the building
Dried specimens
Office/Labs.
Liquid
immersed
3F：765m2
Ideal positive spiral in development
Increased popularity
of GBIF / Naitonal
Node
Contribution to data
accumulation
Understanding of
importance of cumulated
biodiversity information
Expanded exploitation
of cumulated data

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