Volume 19 Part 1 Article 34
Title: Development of an NGS data analysis strategy to identify the microbial population present in mushroom compost
Author: Christof Francke, Dennis Lamers, Jéno Bongers, Nicolette Klijn, Caroline van der Horst and Christien Lokman
Mushroom yield is supposed to be related to the quality of the compost that is used for the commercial cultivation. Little is known about the composition of the microflora during the various stages of compost preparation and the effect it has on quality. In this study we have developed and applied a reliable strategy to isolate microbial DNA from compost. We have employed Next Generation Sequencing technology to generate 16S rRNA sequence data for the isolated DNA and we have developed an effective data analysis strategy to characterize the data functionally. Analysis of the 16S rRNA data confirmed expected shifts in the microbial taxonomic composition during compost production. The presented strategy can in principle be more broadly used for the characterization of the microbial population in any kind of (soil related) environment.