Matej Remenár, Jana Harichová, Marcel Zámocký, Domenico Pangallo, Tomáš Szemes, Jaroslav Budiš, Katarína Soltys, Peter Ferianc. Metagenomics of a nickel-resistant bacterial community in an anthropogenic nickel-contaminated soil in southwest Slovakia. Biologia, 72(9):971-981. 2017.

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The sampling sites situated in southwest Slovakia are according to 
environmental monitoring of Slovakia a part of strongly disturbed 
environment by heavy metals, mainly by high nickel concentrations. The aim 
of the present study was to characterise a complete microbial assemblage 
from a dump containing heavy-metal-contaminated waste as well as from 
farmland situated nearby this dump by using shotgun sequencing of 16S rDNA 
amplicons. It was found that nickel influenced both species richness and 
diversity and that microbiota of both samples differed significantly (Bray-
Curtis dissimilarity 0.73) at genus level mainly by abundances of sequences 
from particular genera and occurrences of the unique genera in individual 
bacterial communities. In spite of these differences between microbial 
assemblages, both samples shared many bacterial genera that might 
constitute the specific nickel-resistant bacterial niche, and it was 
possible to delineate the core microbiome of our two samples at species 
level. The core set of 30 species, represented by the phyla Proteobacteria, 
Firmicutes, Actinobacteria, Bacteroidetes and Cyanobacteria, suggest that 
these species might form a “core microbiome” of the specific nickel-
resistant bacterial niche.