Experts in screening microorganisms in grapevines and soil by qPCR

Screening service for grapevine and soil microorganisms

There are a number of pathogenic bacteria and fungi that affect the health of your grapevines. These include, among others:

  • Plasmopara viticola and Uncinula necator, responsible for downy and powdery mildew, respectively.
  • Xylella fastidiosa, which causes Pierce’s disease.
  • Phaeomoniella chlamydospora and Phaeoacremonium spp., which can cause grapevine trunk diseases such as esca or Petri’s disease.

Screening for pathogens in your vineyard before the symptoms of disease are visible would allow you to take the proper phytosanitary measures and reduce the risk of disease spreading. You can also apply this technique to detect microorganisms of interest in your cellar.

Our screening service for grapevine and soil microorganisms uses custom-tailored quantitative PCR (qPCR) assays to reliably identify DNA from a particular fungal or bacterial strain in your samples. This culture-free assay allows not only to detect a given strain with high specificity, but also to quantify the number of detected target sequences.

Please note that the abundance of target DNA sequences estimated by qPCR may not correlate with the number of microorganisms under certain experimental designs (e.g. when the target is located within a plasmid which can be in variable copy number in the cell). The technique does not distinguish between living and dead cells.

This image shows how the Wine industry can identify microorganisms in soil samples by qPCR. The steps are DNA isolation, qPCR amplification to quantify the microbe species under study, and bioinformatic analysis to confirm the presence/absence of the microbial organisms.

Step 1

We isolate DNA from your soil or plant samples. We have adapted different DNA isolation protocols, depending on the starting biological material.

Step 2

We perform qPCR to amplify and quantify target DNA sequences using in-house developed primers pairs and fluorescent probes specific for the strain of interest. A pilot qPCR experiment is carried out beforehand in order to check the specificity and efficiency of the assay to set up the qPCR conditions.

Step 3

We analyse the results of qPCR to confirm the presence/absence of the microbial strain under study and, if present, the abundance of the target sequence in each of the samples analysed.

What you receive

A report with a summary of the methods followed.
The raw qPCR data.
The results of the analysis including:
  • A table with the estimated abundance of selected target sequences.
  • A report of assay performance characteristics (melting curve analysis, PCR amplification efficiency, linear dynamic range, LOD, and Cq values of non-template negative controls).
If you require additional analyses, please let us know and we will do our best to meet your needs.
At no additional cost, our project specialists will be available to you after project delivery. We offer up to five 60-min sessions per project, depending on the project size.

What we need

Your samples which have been appropriately preserved (ethanol, silica gel, frozen, or another suitable preservation method). If required, we provide sampling kits and sampling collection guidelines to ensure that your samples arrive at our lab in optimal conditions.

Contact us for further information and pricing