Determining the ability of two approaches to measure eDNA to reliably quantify the abundance of invasive common carp in Minnesota lakes
Project manager: Peter Sorensen
Funded by: Environment and Natural Resources Trust Fund as recommended by the Legislative-Citizen Commission on Minnesota Resources
We will develop and test the ability of eDNA to estimate the abundance of common carp in Minnesota lakes. This study will complement the eDNA study of Asian carps which focuses on presence/absence measures of a rare AIS. Here, we use the common carp as a model because it is extremely abundant, well understood, and the subject of management efforts.
The primary objective will be to determine if we can accurately and reliably measure the abundance of common carp in waters they are known to inhabit. We will develop and validate two techniques: quantitative PCR (qPCR) of carp mitochondria (conventional eDNA analysis) and qPCR of microbial rDNA from carp feces combined with sequencing (also known as metagenomics). Metagenomics is promising because it could offer greater sensitivity and more information on species abundance and ecosystem health. Initial efforts will identify molecular markers for common carp by comparing mitochondrial sequences from the common carp and close relatives. Quantitative PCR assays will then be developed.
In a second step, the effects of key environmental variables on the abundance of these markers will be examined in laboratory mesocosms. Lastly, we will apply the most promising technique(s) to study the relationship between the abundance of these markers and the abundance of common carp in local lakes.
Project start date: 2012
Project end date: 2016; Phase 2 -- Attracting carp so their presence can be accurately assessed -- to continue through 2018
Updates and progress:
- Environment shapes the fecal microbiome of invasive carp species (published paper)
- New eDNA degradation results suggest high potential for false negative detections of Asian carp, other species (MAISRC Newsletter)
- Effects of Temperature and Trophic State on Degradation of Environmental DNA in Lake Water (published paper)
- New answers in optimizing techniques to capture and extract environmental DNA for detection and quantification of carp (MAISRC Newsletter)
- Advancing AIS detection technologies (MAISRC Newsletter)
- Optimizing techniques to capture and extract environmental DNA for detection and quantification of fish (published paper)
- The Relationship between the Distribution of Common Carp and Their Environmental DNA in a Small Lake (published paper)
- A New Tool Targeting Asian Carp? (MAISRC in the news)