16S rDNA Pyrosequencing Analysis of Bacterial Community in Heavy Metals Polluted Soils

Soil contamination with heavy metals is a widespread problem, especially prominent on grounds lying in the vicinity of mines, smelters, and other industrial facilities. Many such areas are located in Southern Poland; they are polluted mainly with Pb, Zn, Cd, or Cu, and locally also with Cr. As for now, little is known about most bacterial species thriving in such soils and even less about a core bacterial community—a set of taxa common to polluted soils. Therefore, we wanted to answer the question if such a set could be found in samples differing physicochemically and phytosociologically. To answer the question, we analyzed bacterial communities in three soil samples contaminated with Pb and Zn and two contaminated with Cr and lower levels of Pb and Zn. The communities were assessed with 16S rRNA gene fragments pyrosequencing. It was found that the samples differed significantly and Zn decreased both diversity and species richness at species and family levels, while plant species richness did not correlate with bacterial diversity. In spite of the differences between the samples, they shared many operational taxonomic units (OTUs) and it was possible to delineate the core microbiome of our sample set. The core set of OTUs comprised members of such taxa as Sphingomonas, Candidatus Solibacter, or Flexibacter showing that particular genera might be shared among sites ~40 km distant.     

Microbial Communities of Low Temperature,Saline Groundwater Used for Therapeutical Purposes in North Poland

Knowledge on microbial community composition and ecology in highly mineralized (TDS up to 71?g l^?1), cold waters (T?<?12?°C) from the zones of restricted water exchange is scarce. Therefore, the aim of our study was to reveal how the particular physicochemical water conditions of these zones affect the community composition. The community members, which could be involved in the sulfur cycling were of particular interest since they may strongly influence wells operation. The pristine, mineral waters of North Poland were extracted from boreholes reaching Cenozoic, Jurassic, and Triassic aquifers at the depth of 46–1248?m below ground surface. Both culture-dependent (culturing on R2A medium) and culture-independent techniques (microscopic methods and high-throughput 16S rDNA amplicon sequencing) were applied. The bacterial communities were characterized by low complexity and strongly varied across the sampling locations. Bacteria potentially involved in the sulfur cycle (sulfate reduction) were common in all mineral waters and were dominant (especially Desulfovibrio) in the deepest waters. The most important geochemical drivers of the observed microbial community composition were TDS including Cl^?, Na⁺, Mg²⁺, and NO₃^?. Bacterial isolates belonged mostly to the genus Bacillus. Sequences assigned to Archaea (Methanobacterium) were detected only in the deepest borehole water.     

Changes in bacterial and archaeal communities during the concentration of brine at the graduation towers in Ciechocinek spa (Poland)

This study evaluates the changes in bacterial and archaeal community structure during the gradual evaporation of water from the brine (extracted from subsurface Jurassic deposits) in the system of graduation towers located in Ciechocinek spa, Poland. The communities were assessed with 16S rRNA gene sequencing (MiSeq, Illumina) and microscopic methods. The microbial cell density determined by direct cell count was at the order of magnitude of 10⁷ cells/mL. It was found that increasing salt concentration was positively correlated with both the cell counts, and species-level diversity of bacterial and archaeal communities. The archaeal community was mostly constituted by members of the phylum Euryarchaeota, class Halobacteria and was dominated by Halorubrum-related sequences. The bacterial community was more diverse, with representatives of the phyla Proteobacteria and Bacteroidetes as the most abundant. The proportion of Proteobacteria decreased with increasing salt concentration, while the proportion of Bacteroidetes increased significantly in the more concentrated samples. Representatives of the genera Idiomarina, Psychroflexus, Roseovarius, and Marinobacter appeared to be tolerant to changes of salinity. During the brine concentration, the relative abundances of Sphingobium and Sphingomonas were significantly decreased and the raised contributions of genera Fabibacter and Fodinibius were observed. The high proportion of novel (not identified at 97% similarity level) bacterial reads (up to 42%) in the 16S rRNA gene sequences indicated that potentially new bacterial taxa inhabit this unique environment.