Primer Sets Developed for Functional Genes Reveal Shifts in Functionality of Fungal Community in Soils

Frontiers in Microbiology
S Emilia Hannula, Johannes A van Veen

Abstract

Phylogenetic diversity of soil microbes is a hot topic at the moment. However, the molecular tools for the assessment of functional diversity in the fungal community are less developed than tools based on genes encoding the ribosomal operon. Here 20 sets of primers targeting genes involved mainly in carbon cycling were designed and/or validated and the functioning of soil fungal communities along a chronosequence of land abandonment from agriculture was evaluated using them. We hypothesized that changes in fungal community structure during secondary succession would lead to difference in the types of genes present in soils and that these changes would be directional. We expected an increase in genes involved in degradation of recalcitrant organic matter in time since agriculture. Out of the investigated genes, the richness of the genes related to carbon cycling was significantly higher in fields abandoned for longer time. The composition of six of the genes analyzed revealed significant differences between fields abandoned for shorter and longer time. However, all genes revealed significant variance over the fields studied, and this could be related to other parameters than the time since agriculture such as pH, organic matter,...Continue Reading

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Citations

May 15, 2018·Frontiers in Microbiology·Magdalena FrącMałgorzata Jędryczka
Oct 1, 2018·Applied Microbiology and Biotechnology·Qicheng XuQirong Shen

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Datasets Mentioned

BETA
KP749176

Methods Mentioned

BETA
amplicon sequencing
PCRs
PCR
PCA
genetic modification

Software Mentioned

UniFrac
MEGA4
Augustus
BLAST
ClustalW

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