Nanopore Diagnostics for Plant Pathology
Investment
GRDC Code: DAW2004-005SAX
Nanopore Diagnostics for Plant Pathology
Activity 1 - This project activity will see 4 generic protocols created that are specific to plant pests and diseases and made available to diagnosticians and researchers. These DNA and RNA protocols for insect and plant samples will be validated and refined. The primary focus will be rapid turn-around in a laboratory setting, with a secondary objective to have an additional field-ready protocol for in field applications.
Protocol 1: Generic virus protocol
Protocol 2: Generic virus and vector ID protocol
Protocol 3: Amplicon sequencing protocol for multiple viruses
Protocol 4: Rapid protocol for insect vector ID
Activity 2 - This project will also see a minimum of 2 LAMP PCR protocols validated/developed in parallel alongside the Nanopore diagnostic protocols. This will both aid in the confirmation of results for nanopore sequencing and be of benefit to industry by providing new rapid diagnostic tools for use both in the laboratory and the field. In addition, a document with guidelines to LAMP PCR minimum standards and suggested methods of interpretation will be prepared.
Activity 3 - Validation and ring testing of protocols developed by other project participants, and the review and validation of new and updated NDPs as created by the other project participants. A new position (1.0 FTE) will be created and filled by DPIRD to participate in this project. This person appointed will be responsible for the day to day operation of project activities. The position will have supervision and guidance from Dr Brenda Coutts (0.1FTE) and Dr Monica Kehoe (0.1FTE).
Protocol 1: Generic virus protocol
Protocol 2: Generic virus and vector ID protocol
Protocol 3: Amplicon sequencing protocol for multiple viruses
Protocol 4: Rapid protocol for insect vector ID
Activity 2 - This project will also see a minimum of 2 LAMP PCR protocols validated/developed in parallel alongside the Nanopore diagnostic protocols. This will both aid in the confirmation of results for nanopore sequencing and be of benefit to industry by providing new rapid diagnostic tools for use both in the laboratory and the field. In addition, a document with guidelines to LAMP PCR minimum standards and suggested methods of interpretation will be prepared.
Activity 3 - Validation and ring testing of protocols developed by other project participants, and the review and validation of new and updated NDPs as created by the other project participants. A new position (1.0 FTE) will be created and filled by DPIRD to participate in this project. This person appointed will be responsible for the day to day operation of project activities. The position will have supervision and guidance from Dr Brenda Coutts (0.1FTE) and Dr Monica Kehoe (0.1FTE).
The benefits of this research include:
- Increased turn-around time to diagnosis of suspected emergency plant pests and diseases, increased protection of market access for growers and industry.
- Preparedness for new and emerging vectors and vector borne diseases in molecular diagnostics.
- Capacity building in the area of in-field diagnostics by sequencing through-out Australia.
- Project start date:
- 01/04/2020
- Project end date:
- 25/06/2023
- Crop type:
-
- Not Crop Specific
- Organisation
- Department of Primary Industries and Regional Development
- Region:
- North, South, West
- Project status
-
Completed
GRDC News
Five-year investment delivers enhanced biosecurity capability
05 Dec 2024
A comprehensive step-by-step guide to sustainable pest management throughout the crop growing season is now...
Resources
Boosting diagnostic capacity for plant production industries - GRDC
30 Jul 2024
An Australian Government Department of Agriculture, Fisheries and Forestry Rural Research and Development for profit project.