Soil microbiome

BaseClear offers specialized services to identify and quantify microorganisms in soil. With our soil microbial community analysis service we help you to identify thousands of microorganisms in one analysis, including non-cultivable microorganisms. Microorganisms in soil play an important role in ecosystem functioning and are essential for nutrition and health of plants. Better understanding of the soil flora dynamics has gained much attention in recent years. Molecular methods, such as PCR and Next-Generation Sequencing (NGS), offer the possibility for in-depth analysis of microbial communities in soil samples. BaseClear offers complete soil microbial community analysis solutions to determine the composition of bacteria, Archaea and fungi in your samples.

Microbial communities in soil

BaseClear offers specialized services for microbial diversity studies for environmental samples such as soil. With our microbial diversity analysis service you can identify thousands of microorganisms in one analysis. These include non-cultivable microorganisms, which are not identified with more classical methods. With our services we determine the relative quantity of microorganisms present in the samples. Our molecular methods are extremely fast for the screening of complex ecosystems. With this you will have a better understanding and control of the microbial soil flora.

The experimental design for this kind of projects is crucial. Our specialists can help decide which strategy should be used for your project for most reliable results. We have advanced pipelines for downstream data analysis and interpretation. In addition we offer a unique interactive online portal for multilevel taxonomic analysis

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Technical approach for soil microbial diversity analysis

Our technical approach for soil microbial diversity analysis is based on PCR amplification of specific genes followed by sequencing. For bacterial profling usually the 16S region is used, for fungal profiling the ITS region is used. The generated data is compared to microbial sequencing databases. Standard bioinformatics solutions for microbial profiling include taxonomic classification and determining the relative frequencies. Taxonomic classification is performed using our in-house developed protocol. Extended advice on the project setup and in-depth downstream analysis are available. The standard output includes a comprehensive table containing all taxonomies found and their counts, but also a number of publication-ready figures which allow an easy (graphical) interpretation of the findings (e.g. a cladogram, pie chart and bar chart). The results can also be easily viewed and compared in an interactive manner using our unique online Genome Explorer.

Easy-to-interpret tables and figures

Our soil bacterial diversity analysis protocol includes the generation of easy-to-interpret tables and figures. For example the taxonomic pie chart displayed in the figure provides a clear overview of the taxonomic classifications and relative abundance. Alternatively taxonomic data can be easily (and interactively) explored with zoomable Krona pie chart.

Delivered output for soil microbial community analysis projects

  • Taxonomy table containing a summary of all read-annotations and their relative abundance.
  • Publication-ready figures and plots (bar chart, pie chart, cladogram).
  • Bacterial profiling analysis report containing a summary of the 16S annotation results.
  • Access to our Genome Explorer which allows interactive analyses of the results.
BaseClear Krona chart microbial communty analysis

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