Pathogen Detection and Monitoring

We have two solutions for pathogene detection and monitoring. One is a standardized test to detect fungi pathogenes aimed to help plan crop rotation and awoide disase in next years crop. The other is a broader untargeted test where we help screen diverse types of samples to look for potential pathogenes.

Choose one of two solutions:

1. Test for specific fungi pathogenes in crop rotation
2. Broad screening for pathogenes when we dont know what we are looking for.

Read more about both of these solutions below.

Which crop to grow in which field next year? Many factors influence the the planning of crop rotation and one key factor is fungi disease. Often the rotation is dictated by the number of years passed since last time the crop was grown in that field. But many fungi can live on int he soil for many more years that crop rotation practices dictate and can spread to fields where the crop was not grown. Therefore we have developed a test that detect many of the soil born fungi commonly dictating crop rotations.

The test can be used used to analyse a soil sample in autum months to get a sence of the presense of these fungi in the field. This information can help you plan your crop totations which the aim reducing the risk of fungi disease in the field next year. The absense of disease gives better yield and reduce the need for fungicide usage.  

The fungi species we have validated the test for are listed below. Thus, we know the test can detect these fungi species. But the test can also detect many other fungi in the phylogenetic clades of Ascomycetes and Basidiomycota. Thus the test can give you a broad overview of the fungi in the field. The test cannot detect fungi-like organisms belonging to Oomycetes such as Phytophthora pisi and Pythium ultimum var. ultimum (Globisporangium ultimum var. ultimum).

We continue to validate the test for more fungi species and current results indicate that the test can also detect Verticillium dahliae and Alternaria brassicae. Let us know if you are interested in these sepcies or any other species on in the list below.

Relevant crops often affected by the fungi in the test

• Peas, beans, lentils, chickpeas and legumes in general
• Oilseed rape
• Wheat, barley, oats
• Maize
• Potatoes
• Carrots
• Cauliflower, and other brassicas (cabbage, Brussels sprouts)
• Lettuce, tomatoes, and sunflowers
• Strawberries, grapes, raspberries, and various soft fruits.

Microbes are essential parts of a healthy ecosystem, but some we need to avoid. Pathogens course disease in crops and reduced yield, and need to be both detected and monitored.

For some, we need to know if they are present, for others, we need to know their abundance to monitor when they start to dominate the environment.

At Biomcare we use state-of-the art sequencing solutions to detect microbes with high resolution and accuracy – Also when you don’t know exactly which organism you want to test for.

Untargeted multi-pathogen screening

One test will screen for multiple pathogens at once, and you do not need to know which pathogen(s) you are looking for.

Quantitative

The method does not just tell you presence or absence but always gives relative abundance information. You will know how much of the microbiome community one organism constitute (e.g., 1% or 10% of the detected microbes).

Increased resolution (strain information)

DNA sequence information allows us to give you more exact information on the organisms present, allowing us to distinguish between different species in the samples, and with some methods provide strain-level information.

Cross-clade microbiome profiling available

In one test we detect microbes across one category, such as fungi, bacteria, protists, and archaea. This means you get information on dozens to thousands of organisms in one test. With some methods we can even look across categories, e.g. combining fungi and bacteria screening in one test.

7-14 days

Pathogen screening can be time sensitive, and we, therefore, offer a fast turnaround time where needed.

Custom design and competitive pricing

Let us know which set of pathogens you would like us to test for. We will sit down with you and discuss the possibilities, see if we have a solution readily available or if some R&D is required. And we will set up a solution that fits your specific needs.

• Allow detailed profiling of microorganisms of interest, distinguishing microbes at a low taxonomic level.
• Allow detection of many organisms in one test such as broad detection of bacterial or fungal pathogens.
• The new sequencing platforms allow for a fast turnaround time.
• Allow for both detection and monitoring of strain developments in the environment.