Investigating bacterial populations in styrene-degrading biofilters by 16S rDNA tag pyrosequencing

Abstract

Microbial biofilms are essential components in the elimination of pollutants within biofilters, yet still little is known regarding the complex relationships between microbial community structure and biodegradation function within these engineered ecosystems. To further explore this relationship, 16S rDNA tag pyrosequencing was applied to samples taken at four time points from a styrene-degrading biofilter undergoing variable operating conditions. Changes in microbial structure were observed between different stages of biofilter operation, and the level of styrene concentration was revealed to be a critical factor affecting these changes. Bacterial genera Azoarcus and Pseudomonas were among the dominant classified genera in the biofilter. Canonical correspondence analysis (CCA) and correlation analysis revealed that the genera Brevundimonas, Hydrogenophaga, and Achromobacter may play important roles in styrene degradation under increasing styrene concentrations. No significant correlations (P > 0.05) could be detected between biofilter operational/functional parameters and biodiversity measurements, although biological heterogeneity within biofilms and/or technical variability within pyrosequencing may have considerably affected these results. Percentages of selected bacterial taxonomic groups detected by fluorescence in situ hybridization (FISH) were compared to results from pyrosequencing in order to assess the effectiveness and limitations of each method for identifying each microbial taxon. Comparison of results revealed discrepancies between the two methods in the detected percentages of numerous taxonomic groups. Biases and technical limitations of both FISH and pyrosequencing, such as the binding of FISH probes to non-target microbial groups and lack of classification of sequences for defined taxonomic groups from pyrosequencing, may partially explain some differences between the two methods.Electronic supplementary materialThe online version of this article (doi:10.1007/s00253-014-5868-3) contains supplementary material, which is available to authorized users.

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“…Conversely, DNA-characterization-based highthroughput methodologies, such as sequencing and subsequent sequence alignment, can directly detect microbial community composition and variations in species with low richness (Shi et al, 2014;Zhao et al, 2014). These methodologies have also been widely adopted to assess the genetic structure and diversity of microbial communities in various environments (Quince et al, 2009;Golebiewski et al, 2014;Liu et al, 2014;Portune et al, 2014;Ren et al, 2014;Singh et al, 2014;Thomson et al, 2015).…”

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