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Selenska‐Pobell, Sonja; Kampf, G.; Flemming, Katrin; Radeva, Galina; Satchanska, Galina

doi:10.1023/a:1010237711077

Cited by 90 publications

(13 citation statements)

References 38 publications

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“…The closest BLAST matches to the SOSED group are from environmental clones from soils in Australia [17], Hawaii [12], Germany [13], England [7], California [24] and the Netherlands [19], as well as deep sea sediments [34], freshwater lake sediments [31], uranium mining waste [38] and a hot spring [22] (ESM Supplemental data 4). A preliminary designation of this group by İnceoğlu et al [19] was environmental group 2; we refer to it as the SOSED (soil/sediment) group as the BLAST matches and our sequences were from marine and terrestrial soils and sediments.…”

Section: Resultsmentioning

confidence: 99%

Land Use Intensity Controls Actinobacterial Community Structure

et al. 2010

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Actinobacteria are major producers of secondary metabolites; however, it is unclear how they are distributed in the environment. DNA was extracted from forest, pasture and cultivated soils, street sediments (dust and material in place), and sediments affected by animal activity (e.g. guano, vermicompost) and characterised with two actinobacterial and a bacterial-specific 16S rDNA primer set. Amplicons (140/156) generated with the two actinobacterial-specific and amplicons (471) generated with bacterial-specific primers were analysed. Amplicons from actinobacterial-specific primer were disproportionately actinomycetal from animal-affected (soil) samples and street sediments and either verrucomicrobial (i.e. non-actinobacterial) and from a novel non-actinomycetal actinobacterial group for soils. Actinobacterial amplified ribosomal DNA restriction analysis and terminal restriction fragment length polymorphism fingerprints clustered by land use, with cultivated soils clustering apart from uncultivated soils. Actinobacterial amplicons generated with eubacterial primers were overwhelmingly from (116/126) street sediments; acidobacterial amplicons from soils (74/75). In two street samples, >90% of clones were actinomycetal. Actinomycetes are selected in terrestrial soils and sediments by cultivation, urbanisation and animal activity.Electronic supplementary materialThe online version of this article (doi:10.1007/s00248-010-9752-0) contains supplementary material, which is available to authorized users.

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Section: Resultsmentioning

confidence: 99%

Land Use Intensity Controls Actinobacterial Community Structure

et al. 2010

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“…This perception, however, may be biased due to the low number of acidobacterial isolates of which most belong to subdivision 1. Members of subdivisions 2 and 13 have repeatedly been detected in higher abundances in U-contaminated environments (Selenska-Pobell et al, 2001; Barns et al, 2007). The occurrence of subdivision 2 populations in Amazonian forest soils was correlated to the microbial availability of CO 2 , Fe, and Al 3+ .…”

Section: Discussionmentioning

confidence: 99%

“…None of the five groups have previously been reported to be highly abundant in AMD systems. Their first detection was in peatlands (DA052, DA111, TM214) (Rheims et al, 1996; Felske et al, 1998) and uranium waste piles (KF-JG30-18, JG37-AG-4, DA111) (Selenska-Pobell et al, 2001; Selenska-Pobell, 2002). Phylogenetic analysis of nearly complete 16S rRNA gene sequences also revealed relationships to populations present in acidic, metal-rich, and contaminated soil environments (Supplementary Table 2).…”

Section: Discussionmentioning

confidence: 99%

Unexpected Dominance of Elusive Acidobacteria in Early Industrial Soft Coal Slags

Wegner

Liesack

2017

Front. Microbiol.

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Acid mine drainage (AMD) and mine tailing environments are well-characterized ecosystems known to be dominated by organisms involved in iron- and sulfur-cycling. Here we examined the microbiology of industrial soft coal slags that originate from alum leaching, an ecosystem distantly related to AMD environments. Our study involved geochemical analyses, bacterial community profiling, and shotgun metagenomics. The slags still contained high amounts of alum constituents (aluminum, sulfur), which mediated direct and indirect effects on bacterial community structure. Bacterial groups typically found in AMD systems and mine tailings were not present. Instead, the soft coal slags were dominated by uncharacterized groups of Acidobacteria (DA052 [subdivision 2], KF-JG30-18 [subdivision 13]), Actinobacteria (TM214), Alphaproteobacteria (DA111), and Chloroflexi (JG37-AG-4), which have previously been detected primarily in peatlands and uranium waste piles. Shotgun metagenomics allowed us to reconstruct 13 high-quality Acidobacteria draft genomes, of which two genomes could be directly linked to dominating groups (DA052, KF-JG30-18) by recovered 16S rRNA gene sequences. Comparative genomics revealed broad carbon utilization capabilities for these two groups of elusive Acidobacteria, including polysaccharide breakdown (cellulose, xylan) and the competence to metabolize C1 compounds (ribulose monophosphate pathway) and lignin derivatives (dye-decolorizing peroxidases). Equipped with a broad range of efflux systems for metal cations and xenobiotics, DA052 and KF-JG30-18 may have a competitive advantage over other bacterial groups in this unique habitat.

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“…Total DNA was extracted from the sediment RB sample as described by Selenska-Pobell et al [20] with some modifications. A sample (3 L) was concentrated by cross-flow filtration through sterile hollow fiber cartridges (1.2 μ m pore-size glass fiber prefilter and 0.2 μ m membrane filter; Millipore).…”

Section: Methodsmentioning

confidence: 99%

Unusually High Archaeal Diversity in a Crystallizer Pond, Pomorie Salterns, Bulgaria, Revealed by Phylogenetic Analysis

Kambourova

Tomova

Boyadzhieva

et al. 2016

Archaea

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Recent studies on archaeal diversity in few salterns have revealed heterogeneity between sites and unique structures of separate places that hinder drawing of generalized conclusions. Investigations on the archaeal community composition in P18, the biggest crystallizer pond in Pomorie salterns (PS) (34% salinity), demonstrated unusually high number of presented taxa in hypersaline environment. Archaeal clones were grouped in 26 different operational taxonomic units (OTUs) assigned to 15 different genera from two orders, Halobacteriales and Haloferacales. All retrieved sequences were related to culturable halophiles or unculturable clones from saline (mostly hypersaline) niches. New sequences represented 53.9% of archaeal OTUs. Some of them formed separate branches with 90% similarity to the closest neighbor. Present results significantly differed from the previous investigations in regard to the number of presented genera, the domination of some genera not reported before in such extreme niche, and the identification of previously undiscovered 16S rRNA sequences.

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Cited by 90 publications

References 38 publications

Land Use Intensity Controls Actinobacterial Community Structure

Land Use Intensity Controls Actinobacterial Community Structure

Unexpected Dominance of Elusive Acidobacteria in Early Industrial Soft Coal Slags

Unusually High Archaeal Diversity in a Crystallizer Pond, Pomorie Salterns, Bulgaria, Revealed by Phylogenetic Analysis

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