Where: Queen's University Biological Station - Opinicon Campus
When: Arriving Sunday, July 23rd to Friday, July 28th 2023
Target audience: professional biologists in governmental or consulting sectors, NGO personnel, senior undergraduates and grad students seeking additional skills
Registration: Meals & accommodations included.
Students $850, General Public/Professionals $1100
Transportation to/from Kingston and the Biological Station is included (from Queen's University main campus or Kingston bus or train stations)
Participants will receive a Queen's University micro-credential.
Synopsis: Environmental DNA (eDNA) is becoming a mainstay of non-invasive, reliable, and cost-effective surveys of at-risk and invasive species, pathogen detection, and biodiversity assessment. These approaches rely on the fact that organisms leave their DNA in the environment, making it possible to detect their presence without capture or even direct observation. Reliable eDNA data depend on field and lab rigorous technique because significant biases can occur through the process from the sampling to the data processing, and they greatly influence species detection results.
This eDNA workshop will provide a broad overview of the approaches used in eDNA studies for both single-species and multi-species detections. This five-day course will benefit those interested in undertaking or overseeing eDNA studies, or evaluating research proposals and research, especially in management and monitoring applications. The workshop includes lectures, field and lab demonstrations, and hands-on training in analysis and interpretation of data, but does not require detailed knowledge of genetics or molecular biology. We offer a background on sources and fates of eDNA in the environment, methods and applications with emphasis on design, implementation, analysis and interpretation of species-specific and multi-species eDNA approaches. We will cover advantages and limitations of each , as well as the precautions needed through the whole process to get robust data. We will provide a manual that includes method overviews, field and lab protocols, links to key web resources, and useful literature.
Instructors (click on names for bios): Dr. Steve Lougheed, Allen Tian, Stafford Maracle
Consultants: Dr. Yuxiang Wang, Dr. Orianne Tournayre
Guest speakers: Dr. Robert Hanner (University of Guelph) on Monday, July 24th 7-8 PM, and Dr. Chris Wilson (MNRF) on Wednesday, July 26th 7-8 PM
Timetable for 2023 workshop.
DAY | TIMES | ACTIVITY |
Sunday | Late afternoon | Arrival at QUBS |
5:30-6:30 PM | Dinner | |
7:00-8:00 PM | Welcome to QUBS - Introductions | |
Monday | 7:30-8:30 AM | Breakfast |
9:00-10:15 AM | Presentation: Overview of eDNA (Lougheed) | |
10:15-10:30 AM | Break | |
10:30AM-noon | Presentation: Introduction to eDNA study design, qPCR, ddPCR (Tian) | |
12:00-1:00 PM | Lunch | |
1:00-2:15 PM | Presentation: Overview of fieldwork, sampling, filtration, transport, storage, extraction (Tian) | |
2:15-2:30 PM | Break | |
2:30-5:30 PM | Field practicum: Sampling water, sediment, and soil + metadata collection + water filtration (Tian & Maracle) | |
5:30-6:30 PM | Dinner | |
7:00-8:00 PM | Guest Speaker: Dr. Robert Hanner (Guelph University). | |
Tuesday | 7:30-8:30 AM | Breakfast |
9:00-10:15AM | Practicum: DNA extraction of samples collected the day before - (QIAGEN Powerwater kit, QIAGEN Powersoil kit) part 1 | |
10:15-10:30AM | Break | |
10:30-12:00 | Practicum: DNA extraction of samples collected the day before - (QIAGEN Powerwater kit, QIAGEN Powersoil kit) part 2 | |
12:00-1:00PM | Lunch | |
1:00-3:15PM | Practicum: Bio-RAD qPCR demo: qPCR. While the qPCR runs, presentation on capabilities of qPCR and dPCR. | |
3:15-3:30PM | Break | |
3:30-5:30PM | Lecture: Bio-RAD. Interpretation of qPCR results. Second part of session. Primer design for qPCR (and for ddPCR). | |
5:30-6:30PM | Dinner | |
7:00-8:00 PM | Lecture: Data analysis and interpretation of qPCR results, with a case study (Tian) | |
Wednesday | 7:30-8:00 AM | Breakfast |
8:00 - 9:40 | Lecture: Overview of metabarcoding and high throughput sequencing platforms. (Maracle) | |
9:40-9:45 AM | Break | |
9:45-noon | Lab practicum: Polymerase chain reaction: Prepare mix and run PCR (Tian & Maracle) | |
noon-1PM | Lunch | |
1-3:30 PM | Lecture: Presentation: Library prep and DNA quantification (Tian) | |
3:30-4:00 PM | Break | |
4:00-5:00 PM | Practicum: Loading & Running agarose gels. Estimating insert size. Qubit + Nanodrop. | |
5:30-6:30 PM | Dinner | |
7:00-8:00 PM | QUBS weekly seminar. Dr. Chris Wilson | |
Thursday | 7:30-8:30 AM | Breakfast |
8:30 - 9:30 AM | Lecture: General introduction to command line interface | |
9:30 -10:00 AM | Break | |
10:00 - 11:30 | Practicum: Practicum: Command line troubleshooting (Tian & Maracle) | |
11:30- 12:30 | Lecture: Bioinformatics data interpretation | |
12:30 -1:30 PM | Lunch | |
1:30-3:00 PM | Practicum: Bioinformatics analysis & interpretation of metabarcoding results. Part 1 (Maracle) | |
3:00-3:30 PM | Break | |
3:30-5:30 PM | Practicum: Bioinformatics analysis & interpretation of metabarcoding results. Part 2 (Maracle) | |
5:30-6:30 PM | Dinner | |
7:00-8:30 PM | Quiz | |
Friday | 7:30-8:30 AM | Breakfast |
9:00 AM-noon | Quiz results and debrief. Depart |