© 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)

Terrence.W.Walters@aphis.usda.gov

idsource.colostate.edu

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Acknowledge the research team and USDA ITP and QUAD program

Questions?

Comments to ssts@inspection.gc.ca

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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