© 2007 Her Majesty the Queen in Right of Canada (Canadian Food Inspection Agency), all rights reserved. Use without permission is prohibited.
Develop a diagnostic tool and resource for seed identification with Lucid and imaging technologies
Ruojing Wang, Jennifer Neudorf
Seed Science and Technology Section (SSTS),Saskatoon Laboratory, CFIA, Saskatoon, Canada
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Outline
Introduction of reference resources for seed Id
Lucid tool and resources Lucid? Lucid components How to develop Lucid tools
Imaging technology
Examples of developed Lucid tools
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Reference Resources for Seed Identification?
• Seed specimens• Botany and taxonomy information• Morphological features via seed/ fruit illustration or digital images• Taxonomy or identification keys• More….???
Allium porrumAnthemis cotula
Besides specialist knowledge, experience, memory…
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Introduction of Lucid Tool and Resources
Lucid?• Is a dataflow computer programming language.
Lucid tool? Lucidcentral.org• Is a software system for creating, maintaining, distributing and playing interactive identification keys, features, relevant information.
• End user has no special software requirement for using a developed Lucid id tool.
Lucidcentral.org Developed by Centre for Biological Information Technology at the University of Queensland, Australia
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Lucidcentral.org
Developed by Centre for Biological Information Technology at the University of Queensland, Australia
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Users of Lucid Tool and Resources
Lucid tool for species identification and diagnosis knowledge management tool users
make an identification or diagnosis.
Recorded expert knowledge audience via Internet or CD.
End-users: e.g., taxonomists, quarantine identifiers, seed analysts, biodiversity scientists, students, and conservation managers
To date, more than 220 Lucid tools have been developed
plants
Insect
disease
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Lucid Tool Development and Application
Many Lucid tools have been developed as identification guides or screening aids to pests, (e.g, insects, diseases, weeds), commodities or taxon...
CFIA Lucid tool is part a QUAD project to develop Digital Identification Tools
CommoditiesNoxious Weed SeedsInvasive ants
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Components of Lucid Tool and Resources
Lucid tool including: Scope of the tool Design, format, and structure of
overall tool site and individual pages.
Feature illustration: digital images, video
Information: Fact sheet, photo gallery, description/supporting information, searchable database,
Identification matrix keys
Tool feature: User friendly, easy access and up-
to-date, digital tools, increase communication …
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Developer Tool Box
Lucid tool box:Software Lucid (Builder and/or Player) Fact Sheet Fusion Lucid Phoenix Web design tool HTML
Imaging system 3-D imaging Microscope
Verified specimensFact Sheet Fusion
Lucid Phoenix
Lucid
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Builder’s Flow Chart
Credited to USDA, Terrence Walters
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Developing ID Feature Illustration
ID feature illustration: Imaging: ID features Drawing: ID features, glossaries Video: pest behavior
Matricaria matricarioides Triticum aestivum x Triticosecale sp.
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Multiple image stacking to create 3-D images Define focus steps Perform imaging slices The software package a final image together using imaging
software, e.g., Nikon NIS-Elements AR.
Multi-zooming Image Generation
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Multi-zooming Image Technology
Equipment
A microscope and specialised camera on a automatically controlled mechanised microscope.
A digital camera fitted with a long magnifying lens tube on a remote controlled mechanical platform.
Each system is controlled by its software.
Final editing is completed using Adobe Photoshop.
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Small seeds Microscope 30-40 steps, could up to 70
steps
Multi-zooming Image Generation
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Multi-zooming Image Generation
Large seeds Stacked lenses with regular
camera 10-20 steps
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Generating an image from 16 individual slices for a large seed
Multi-zooming Image Generation
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Design Lucid Keys
Construct Lucid key matrix
Features• States
•Measurement
Entity
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Develop Lucid Interactive Keys
Credit to USDA, Federal Noxious Weed Disseminules of the U.S.
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Text Description and Navigation Web Design
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Fact Sheets Development
•Identification feature description
•Image illustration
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Seed Identification Resource Searching
Lucidcentral.org
USDA Identification Technology Program (ITP)
idsource.colostate.edu
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Acknowledge the research team and USDA ITP and QUAD program
Questions?
Comments to [email protected]
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23© 2007 Her Majesty the Queen in right of Canada(Canadian Food Inspection Agency), all rights reserved. Use without permission is prohibited