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On site early diagnostic tool for Oak Wilt disease using LAMP



Abstract

Oak wilt is a disease caused by the fungus Bretziella fagacearum that can devastate oak tree populations. According to the Canada Oak Wilt Response Framework, one of the ways to conserve wildlife dependent on oak trees is through early detection and monitoring. The current methodology requires examination of live xylem tissue which is time-consuming, costly, and prone to false negatives. With oak wilt found near the Ontario-Michigan border, there is an urgent need for a rapid, low cost point-of-care diagnostic device to detect oak wilt in Canada. We propose a portable device to extract and detect fungal DNA on site combined with colorimetric loop-mediated isothermal amplification (LAMP), thus, enabling our stakeholders to identify infected oak trees in a timely manner and help slow down the spread of oak wilt. Our work contributes to promoting the conservation of our ecosystems.

Introducing our solution


Step 1: Using a oak tree sampling tool
We designed an easy-to-use tree sampling tool and tested effective in the field with an oak tree


Step 2: Extracting and purifying DNA of the oak tree sample using Dipstick
We improved Dipstick DNA extraction method with minimal contemination and accessible design for fast onsite DNA extraction and purification


Step 3: Using the designed LAMP primers on site with freeze-dried LAMP reagents
Amplify oak wilt DNA using an isothermal amplification method called LAMP. Reaction components are freeze-dried to detect oak wilt on-site.


Step 4: Facilitating LAMP reaction with a portable heater
We designed the heating unit to run LAMP experiment at the required temperature.


Oak wilt or not?
Successful LAMP reaction should show fluorscence signals. Further studies needed to design a master mix that enables visiable colour changes.


Our achievements




Reference: lab icon by myiconfinder, description icon by Arthur Shlain, coding icon by Vectorstall, hardware icon by Mohamed Mb, human practice icon by Eucalyp from Noun Project