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AUSTRALIA

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AUSTRALIAS VIRTUAL HERBARIUM – PowerPoint PPT presentation

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Title: AUSTRALIA


1
AUSTRALIAS VIRTUAL HERBARIUM
  • A national collaborative model for integrated
    access to distributed biological information
  • Jim Croft, Greg Whitbread
  • Australian National Herbarium

2
Outline of presentation
  • Background to the AVH
  • What is the AVH ?
  • Aspects of the AVH
  • Plant names, specimens
  • Plant images, plant identification tools
  • Uses and users of the AVH
  • Botanical research
  • Community projects
  • Summary

3
What is a Virtual Herbarium?
  • The physical resources and biological information
    of a herbarium represented digitally
  • On-line access to herbaria and to botanical
    information managed by herbaria
  • Integrated access to botanical information from
    various sources in a herbarium and other on-line
    botanical information

4
What is the AVH?
  • A collaborative project of the Australian
    Herbarium community
  • Digital
  • Collaborative
  • On-line
  • Integrated
  • Partnership and shared access
  • Real-time access
  • Shared access to common authority files
  • Shared data-hosting, archiving and backup
  • Co-ownership

5
Where is the AVH?
  • Spread across Australian herbaria
  • Data distributed resides with custodians
  • Each herbarium has a portal to receive requests
    and to deliver data
  • A common single query AVH interface in each
    herbarium polls all herbaria

Major Australian Herbaria
6
AVH Partners
State Herbarium of South Australia Queensland
Herbarium Australian National Herbarium Northern
Territory Herbarium Tasmanian
Herbarium Industry Partner KE Software
National Herbarium of Victoria National
Herbarium of New South Wales Western Australian
Herbarium Australian Biological Resources Study
7
Why is there an AVH?
  • Pressure on Herbaria to work more efficiently
  • Demand for access to larger amounts of data
  • Demand to access data more quickly
  • Demand to view data in different ways
  • Pressure on herbaria to appear and to be more
    responsive to community needs

8
Potential users of the AVH
  • The participating herbaria have access to all the
    data at the highest precision
  • Public access filter restricts access to work in
    progress, sensitive locality data, etc.
  • Research and education
  • Public general interest
  • Access to conservation agencies, land managers,
    environmental decision makers

9
There is some urgency
  • Historical ignorance
  • Australias biodiversity has been damaged
  • At risk from inappropriate land management
    practices
  • We know a lot about what not to do
  • Redressing the damage, and managing better for
    the future, requires sound information
  • Sustainable natural resource management needs
    scientific knowledge
  • what was there and where it occurred
  • what is there now

10
There is some urgency
11
What is the problem?
  • gt 20,000 species of higher plants
  • gt 64,000 available names
  • Extensive synonymy (4 names per plant)
  • Many alternative taxonomic concepts
  • 8 major government-funded herbaria
  • Similar number of university herbaria
  • gt 6,500,000 specimens in Aust. herbaria
  • 50-100 data elements per specimen
  • Several Kb per specimen (excl. images)

12
Specimen data from major herbaria
13
Herbarium database status
14
The AVH Agreement
  • 10M over 5 years to database all major
    Australian herbarium collections
  • 10 million - 4 million Commonwealth
  • - 4 million State/Territory
  • - 2 million private
  • Initial focus on capture of herbarium specimen
    data
  • Ultimate aim a complete flora information system

15
Australias Virtual Herbarium
  • On-line access to herbarium specimen information
    and botanical knowledge

16
What do we want to know?
  • What species does a plant belong to?
  • What is its name?
  • What other species is it related to?
  • What does it look like?
  • Where does it grow?
  • Where might it grow?
  • What other species grow with it?
  • What species grow in a defined area?
  • How did they get there?

17
Data refinement
action
knowledge
information
Increasing refinement utility of data
data
observations
the real world
18
Botanical Literature
19
Herbarium Specimens
20
Specimen data
Core information is from herbarium specimens
  • Collections data
  • Scientific name
  • Collection date
  • Collector name number
  • Location
  • Soils
  • Habitat (incl. topography)
  • Vegetation community
  • Associated species
  • Plant features, e.g. colour

21
Specimen Data Capture
22
A Herbarium Database Structure
23
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25
How does the AVH work?
Need for common semantic schema recognized
Standard syntax
Race to database
HISPID
Botanical ontology?
Need for semantic standard recognized
Exchange
Distributed query
Evolution of the AVH
26
AVH General Architecture
Clients
Common Web portals
Gateways
Databases
27
Australias Virtual Herbarium
  • Some views of the data

28
Australian Plant Name Index (APNI)
29
www.anbg.gov.au/apni
30
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31
http//www.chah.gov.au/avh.html
32
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33
Acacia
salicina
34
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41
Plant distribution analysis
Pultenaea species in eastern Australia
?
?
Incurved
Recurved
42
Predictive Modelling
43
Predictive Modelling
44
Related Products
  • On-line Flora information systems
  • Generally regionally based
  • Integrating
  • Plant names
  • Descriptive Flora treatments
  • Illustrations
  • Distributions

45
Flora Information Systems
46
Botanical illustrations
47
Portraits of Plant species
  • National Plant Photograph Index
  • Search on-line
  • Some digital imagesavailable
  • 35,000 images ofAustralian plantsand vegetation

www.anbg.gov.au/anbg/photo-collection/
48
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49
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50
Type Images on demand
High resolution image oftype specimen of
Austrobaileyadownloaded over the Internetfrom
the Herbarium of theNew York Botanical Garden
51
Interactive Plant Identification
52
Invasive Plant Notification
53
Why it is working
  • Communication - CHAH, few herbaria
  • Collaboration - long-standing, data sharing,
    overcoming Australias Federal/State system
  • Champions - management, public
  • Lobbying and profile of herbaria
  • Relevance of product
  • And nowwe need to maintain commitment to project

54
Summary
  • Australias Virtual Herbarium
  • A collaborative national project
  • Making botanical information available
  • Using modern technology
  • Using cheap readily available components
  • A model for regional and global cooperation

55
Acknowledgements
State Herbarium of South Australia Queensland
Herbarium Australian National Herbarium Northern
Territory Herbarium Tasmanian
Herbarium Industry Partner KE Software
National Herbarium of Victoria National
Herbarium of New South Wales Western Australian
Herbarium Australian Biological Resources Study
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