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  • 1
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    Betaine is the main compatible solute of halophilic eubacteria (1984)
    American Society for Microbiology
    In:  Journal of Bacteriology, 160 (1). pp. 278-479.
    Details
    Publication Date: 2016-01-22
    Description: A number of moderately halophilic bacteria of diverse taxonomic groups have been studied to determine the intracellular concentrations of organic compounds at various salt concentrations. Betaine was accumulated in all of these organisms in proportion to the salinity of the medium, suggesting that this compound plays a major role in osmoregulation.
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  • 2
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    Isolation of extremely halophilic phototrophic bacteria from the alkaline Wadi Natrun, Egypt (1978)
    Schweizerbart
    In:  Archiv für Hydrobiologie, 84 . pp. 381-388.
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    Publication Date: 2015-03-24
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  • 3
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    Genome Sequence of Bacillus subtilis subsp. spizizenii gtP20b, Isolated from the Indian Ocean (2011)
    American Society for Microbiology
    In:  Journal of Bacteriology, 193 (5). pp. 1276-1277.
    Details
    Publication Date: 2019-09-23
    Description: Bacillus subtilis is an aerobic spore-forming Gram-positive bacterium that is a model organism and of great industrial significance as the source of diverse novel functional molecules. Here we present, to our knowledge, the first genome sequence of Bacillus subtilis strain gtP20b isolated from the marine environment. A subset of candidate genes and gene clusters were identified, which are potentially involved in production of diverse functional molecules, like novel ribosomal and nonribosomal antimicrobial peptides. The genome sequence described in this paper is due to its high strain specificity of great importance for basic as well as applied researches on marine organisms
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  • 4
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    Bch-Y-based degenerate primers target all types of anoxygenic photosynthetic bacteria in a single PCR reaction (2009)
    American Society for Microbiology
    In:  Applied and Environmental Microbiology, 75 . pp. 7556-7559.
    Details
    Publication Date: 2019-09-23
    Description: To detect anoxygenic bacteria containing either type 1 or type 2 photosynthetic reaction centers in a single PCR, we designed a degenerate primer set based on the bchY gene. The new primers were validated in silico using the GenBank nucleotide database as well as by PCR on pure strains and environmental DNA.
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  • 5
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    Comparative analysis of ammonia-oxidizing bacterial communities in two lakes in North Germany and the Baltic Sea (2006)
    Schweizerbart
    In:  Archiv für Hydrobiologie, 167 (1/4). pp. 335-350.
    Details
    Publication Date: 2019-02-27
    Description: One important pathway of the nitrogen cycle in aquatic environments is the oxidation of ammonia to nitrite by ammonia-oxidizing bacteria (AOB). In this study the composition of AOB communities was compared between fresh (lakes Plusssee and Schöhsee) and brackish (Baltic Sea) water at two different levels: i) between environments and ii) within different depths in each environment. Changes in the community structure were studied by denaturing gradient gel electrophoresis (DGGE) and clone libraries of PCR products of 16S rRNA genes (rDNA) from AOB of the beta subclass of proteobacteria. Each environment displayed a particular DGGE band pattern. In Plusssee and the Baltic Sea, the differentiation of communities in epi- and metalimnion from those in hypolimnion coincided with a distinct stratification of the water column. In Schöhsee with an aerobic hypolimnion, the communities at all depths were similar. AOB communities in sediments were different from those in the water column. The composition of clone libraries showed the presence of specific Nitrosomonas and Nitrosospira-like sequences in each environment and habitat.
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  • 6
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    Evaluation of PCR primer selectivity and phylogenetic specificity by using amplification of 16S rRNA genes from betaproteobacterial ammonia-oxidizing bacteria in environmental samples (2008)
    American Society for Microbiology
    In:  Applied and Environmental Microbiology, 74 . pp. 5231-5236.
    Details
    Publication Date: 2019-09-23
    Description: The effect of primer specificity for studying the diversity of ammonia-oxidizing betaproteobacteria (βAOB) was evaluated. βAOB represent a group of phylogenetically related organisms for which the 16S rRNA gene approach is especially suitable. We used experimental comparisons of primer performance with water samples, together with an in silico analysis of published sequences and a literature review of clone libraries made with four specific PCR primers for the βAOB 16S rRNA gene. With four aquatic samples, the primers NitA/NitB produced the highest frequency of ammonia-oxidizing-bacterium-like sequences compared to clone libraries with products amplified with the primer combinations βAMOf/βAMOr, βAMOf/Nso1255g, and NitA/Nso1225g. Both the experimental examination of ammonia-oxidizing-bacterium-specific 16S rRNA gene primers and the literature search showed that neither specificity nor sensitivity of primer combinations can be evaluated reliably only by sequence comparison. Apparently, the combination of sequence comparison and experimental data is the best approach to detect possible biases of PCR primers. Although this study focused on βAOB, the results presented here more generally exemplify the importance of primer selection and potential primer bias when analyzing microbial communities in environmental samples.
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  • 7
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    Effect of salinity on cyanobacterial community composition along a transect from Fuliya spring into the water of Lake Kinneret, Israel (2013)
    Schweizerbart
    In:  Fundamental and Applied Limnology : Archiv für Hydrobiologie, 182 (2). pp. 99-107.
    Details
    Publication Date: 2019-04-04
    Description: Cyanobacterial community composition was studied along a salinity gradient from the saline Spring Fuliya towards the water column of Lake Kinneret. The samples included a gradient of salinities ranging from 4270 mg Cl L-1 (Saline Spring) to 239 mg Cl L-1 (Lake Kinneret). Denaturing gradient gel electrophoresis (DGGE) and cloning of the 16 S rRNA gene, as well as cloning and sequencing of the psbA gene, were used to characterize cyanobacterial community composition. Despite the differences in salinity, similar cyanobacterial communities were observed in the lake and the saline spring, the only exception being the highest salinity sample (4270 mg Cl L-1). Both, DGGE patterns and results of the clone libraries revealed the dominance of cyanobacteria with colonial Gloeocapsa and unicellular Synechococcus as the closest known cultured relatives, independently of the salinity. These results suggest that cyanobacterial populations inhabiting this freshwater lake and its saline sources can adapt to a wide range of salinities.
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  • 8
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    Bacterial and archaeal diversity in high altitude wetlands of the Chilean Altiplano (2013)
    Schweizerbart
    In:  Fundamental and Applied Limnology : Archiv für Hydrobiologie, 182 (2). pp. 135-159.
    Details
    Publication Date: 2019-04-04
    Description: The microbial diversity of five unconnected high altitude (≥ 3800 m a.s.l.) wetlands from the Chilean Altiplano was analyzed by a culture-independent approach, using 16 S rRNA gene sequences of different microbial groups. The wetlands (Chungara Lake, Parinacota wetland, Piacota Lake, Salar de Huasco and Salar de Ascotan) differed in terms of habitat type and physicochemical properties. The bacterial communities of these systems were dominated by Bacteroidetes (24-94 % of the clones) and Proteobacteria (Alpha, Beta, Gamma and Delta subgroups) with smaller contributions by the Firmicutes, Actinobacteria, Planctomycetes, Verrucomicrobia, Chloroflexi, Cyanobacteria, Acidobacteria, Deinococcus-Thermus and Candidate Division WS3. Fourteen phylotypes matching Alphaproteobacteria were part of the marine Roseobacter clade, representing new clusters of this group. Archaeal diversity was much lower than that seen for bacteria, and was dominated by Euryarchaeota; however Crenarchaeota were also present. Considering the large differences in microbial community composition between sites and samples, the presence of eleven phylotypes common to two or more habitats is highlighted. The frequent presence of new taxa in different phylogenetic groups in the altiplanic wetlands studied here revealed the unique characteristics of Bacteria and Archaea in these fragile Andean ecosystems.
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  • 9
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    Draft Genome Sequence of the Marine Streptomyces sp. Strain PP-C42, Isolated from the Baltic Sea (2011)
    American Society for Microbiology
    In:  Journal of Bacteriology, 193 (14). pp. 3691-3692.
    Details
    Publication Date: 2017-07-03
    Description: Streptomyces, a branch of aerobic Gram-positive bacteria represents the largest genus of actinobacteria. The streptomycetes are characterized by a complex secondary metabolism and produce over two-thirds of the clinically used natural antibiotics today. Here we report the draft genome sequence of a Streptomyces strain PP-C42 isolated from the marine environment. A subset of unique genes and gene clusters for diverse secondary metabolites as well as antimicrobial peptides (AMPs) could be identified from the genome, showing great promise as a source for novel bioactive compounds
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  • 10
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    Comprehensive Investigation of Marine Actinobacteria Associated with the Sponge Halichondria panicea (2010)
    American Society for Microbiology
    In:  Applied and Environmental Microbiology, 76 (11). pp. 3702-3714.
    Details
    Publication Date: 2019-09-23
    Description: Representatives of Actinobacteria were isolated from the marine sponge Halichondria panicea collected from the Baltic Sea (Germany). For the first time, a comprehensive investigation was performed with regard to phylogenetic strain identification, secondary metabolite profiling, bioactivity determination, and genetic exploration of biosynthetic genes, especially concerning the relationships of the abundance of biosynthesis gene fragments to the number and diversity of produced secondary metabolites. All strains were phylogenetically identified by 16S rRNA gene sequence analyses and were found to belong to the genera Actinoalloteichus, Micrococcus, Micromonospora, Nocardiopsis, and Streptomyces. Secondary metabolite profiles of 46 actinobacterial strains were evaluated, 122 different substances were identified, and 88 so far unidentified compounds were detected. The extracts from most of the cultures showed biological activities. In addition, the presence of biosynthesis genes encoding polyketide synthases (PKSs) and nonribosomal peptide synthetases (NRPSs) in 30 strains was established. It was shown that strains in which either PKS or NRPS genes were identified produced a significantly higher number of metabolites and exhibited a larger number of unidentified, possibly new metabolites than other strains. Therefore, the presence of PKS and NRPS genes is a good indicator for the selection of strains to isolate new natural products.
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