Comparative analysis of prokaryotic diversity in solar salterns in eastern Anatolia (Turkey)

Çınar, Seval; Mutlu, Mehmet

doi:10.1007/s00792-016-0845-7

Cited by 43 publications

(37 citation statements)

References 47 publications

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“…This is likely to be an over-estimate, since it is known that salt can preserve DNA, and our environmental DNA could include a significant extracellular fraction (Borin et al, 2008; Rhodes et al, 2011). Nevertheless, the low range of our biomass estimate is consistent with other reported values around 10 6 - 10 7 cells mL −1 (Çınar and Mutlu, 2016; Litchfield and Gillevet, 2002; Maturrano et al, 2006).…”

Section: Disscusionsupporting

confidence: 93%

“…Despite its barren appearance on the surface, the Bonneville Salt Flats (BSF) appears to harbor a robust microbial ecosystem featuring a range of metabolic capabilities potentially including phototrophy, sulfur and nitrogen cycling metabolisms, and heterotrophy. Although hypersaline systems can be harsh environments for life, they have been previously reported to contain high biomass (Çınar and Mutlu, 2016; Litchfield and Gillevet, 2002; Maturrano et al, 2006). Our results indicate that BSF is no exception.…”

Section: Disscusionmentioning

confidence: 99%

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Robust archaeal and bacterial communities inhabit shallow subsurface sediments of the Bonneville Salt Flats

McGonigle

Bernau

Bowen

et al. 2019

Preprint

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25We report the first census of natural microbial communities of the Bonneville Salt Flats 26 (BSF), a perennial salt pan at the Utah-Nevada border. Environmental DNA sequencing of 27 archaeal and bacterial 16S rRNA genes was conducted on samples from multiple evaporite 28 sediment layers of the surface salt crust. Our results show that at the time of sampling 29 (September 2016), BSF hosted a robust microbial community dominated by diverse 30 Halobacteriaceae and Salinibacter species. Desulfuromonadales from GR-WP33-58 are also 31 abundant in all samples. We identified taxonomic groups enriched in each layer of the salt crust 32 sediment and revealed that the upper gypsum sediment layer found immediately under the 33 uppermost surface halite contains a robust microbial community. We found an increased 34 presence of Thermoplasmatales, Nanohaloarchaeota, Woesearchaeota, Acetothermia, 35 Halanaerobium, Parcubacteria, Planctomycetes, Clostridia, Gemmatimonadetes, Marinilabiaceae 36 and other Bacteroidetes in this upper gypsum layer. This study provides insight into the diversity, 37 spatial heterogeneity, and geologic context of a surprisingly complex microbial ecosystem within 38 this macroscopically-sterile landscape. 39 40 IMPORTANCE 41Over the last ~13,000 years the Pleistocene Lake Bonneville, which covered a large 42 portion of Utah, drained and desiccated leaving behind the Bonneville Salt Flats (BSF). Today 43 BSF is famous for its use as a speedway, which has hosted many land-speed records and a 44 community that greatly values this salty landscape. Additionally, the salts that saturate BSF basin 45 are extracted and sold as an additive for agricultural fertilizers. The salt crust is a well-known 46 recreational and economic commodity, but the roles of microbes in the formation and 47 3 maintenance of the salt crust are generally unknown. This study is the first geospatial analysis of 48 microbial diversity at this site using cultivation-independent environmental DNA sequencing 49 methods. Identification of the microbes present within this unique, dynamic, and valued 50 sedimentary evaporite environment is an important step toward understanding the potential 51 consequences of perturbations to the microbial ecology on the surrounding landscape and 52 ecosystem.53 54 65Human land use has altered many aspects of the hydrology and morphology of the environment 66 that facilitated deposition of the ~2m thick evaporite salt crust that caps BSF, and the amount 67 and extent of salt present at the site have been observed to change through time (Bowen, B.B., 68 Bernau, J., Kipnis, E.L., Lerback, J., Wetterlin, L. and Kleba, 2018; Bowen et al., 2018).69 4Examination of modern and ancient salt pan deposits demonstrates that these 70 environments undergo repeated cycles of desiccation (dry saline pan), flooding (brackish lake), 71 and evaporative concentration (drying to dry saline pan) (Bowen and Benison, 2009; 72 Lowenstein, T.K. and Hardie, 1985). While the desiccation stage is most common, it is 73 repeat...

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Section: Disscusionsupporting

confidence: 93%

Section: Disscusionmentioning

confidence: 99%

Robust archaeal and bacterial communities inhabit shallow subsurface sediments of the Bonneville Salt Flats

McGonigle

Bernau

Bowen

et al. 2019

Preprint

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“…The dominance of Halobacteriaceae within the phylum Euryarchaeota in KSL samples is consistent with their dominance in hypersaline environments (Çınar and Mutlu 2016). Twenty-two genera that are affiliated with the Halobacteriaceae were detected in KSL, including the genera Halonotius, Halorubellus, Halapricum, Halorubrum and Natronomonas, which each comprised >10% of the archaeal communities (Fig.…”

Section: Dominant Halobacteriaceae In Kslsupporting

confidence: 75%

Microbial community structure and diversity within hypersaline Keke Salt Lake environments

et al. 2017

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Keke Salt Lake is located in the Qaidamu Basin of China. It is a unique magnesium sulfate-subtype hypersaline lake that exhibits a halite domain ecosystem, yet its microbial diversity has remained unstudied. Here, the microbial community structure and diversity was investigated via high-throughput sequencing of the V3-V5 regions of 16S rRNA genes. A high diversity of operational taxonomic units was detected for Bacteria and Archaea (734 and 747, respectively), comprising 21 phyla, 43 classes, and 201 genera of Bacteria and 4 phyla, 4 classes, and 39 genera of Archaea. Salt-saturated samples were dominated by the bacterial genera Bacillus (51.52%-58.35% relative abundance), Lactococcus (9.52%-10.51%), and Oceanobacillus (8.82%-9.88%) within the Firmicutes phylum (74.81%-80.99%), contrasting with other hypersaline lakes. The dominant Archaea belonged to the Halobacteriaceae family, and in particular, the genera (with an abundance of >10% of communities) Halonotius, Halorubellus, Halapricum, Halorubrum, and Natronomonas. Additionally, we report the presence of Nanohaloarchaeota and Woesearchaeota in Qinghai-Tibet Plateau lakes, which has not been previously documented. Total salinity (especially Mg, Cl, Na, and K) mostly correlated with taxonomic distribution across samples. These results expand our understanding of microbial resource utilization within hypersaline lakes and the potential adaptations of dominant microorganisms that allow them to inhabit such environments.

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“…Given the peculiar ecological preferences of particularly Rhodothermaeota and Balneolaeota , but also of other groups reclassified here, it is likely that ecological studies using metagenomic binning or similar techniques will benefit from the further improved classification. Studies that do not distinguish between Rhodothermaeota, Balneolaeota , and Bacteroidetes may insufficiently describe microbial compositions of environmental habitats and perhaps make misleading assumptions on environmental conditions (Tsiamis et al, 2008; Baati et al, 2010; Çınar and Mutlu, 2016). A more profound effect of the proposed reclassifications might be on a potentially misleading proposal of an origin for horizontal-gene-transfer (Nelson-Sathi et al, 2015).…”

Section: Discussionmentioning

confidence: 99%

Genome-Based Taxonomic Classification of Bacteroidetes

et al. 2016

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The bacterial phylum Bacteroidetes, characterized by a distinct gliding motility, occurs in a broad variety of ecosystems, habitats, life styles, and physiologies. Accordingly, taxonomic classification of the phylum, based on a limited number of features, proved difficult and controversial in the past, for example, when decisions were based on unresolved phylogenetic trees of the 16S rRNA gene sequence. Here we use a large collection of type-strain genomes from Bacteroidetes and closely related phyla for assessing their taxonomy based on the principles of phylogenetic classification and trees inferred from genome-scale data. No significant conflict between 16S rRNA gene and whole-genome phylogenetic analysis is found, whereas many but not all of the involved taxa are supported as monophyletic groups, particularly in the genome-scale trees. Phenotypic and phylogenomic features support the separation of Balneolaceae as new phylum Balneolaeota from Rhodothermaeota and of Saprospiraceae as new class Saprospiria from Chitinophagia. Epilithonimonas is nested within the older genus Chryseobacterium and without significant phenotypic differences; thus merging the two genera is proposed. Similarly, Vitellibacter is proposed to be included in Aequorivita. Flexibacter is confirmed as being heterogeneous and dissected, yielding six distinct genera. Hallella seregens is a later heterotypic synonym of Prevotella dentalis. Compared to values directly calculated from genome sequences, the G+C content mentioned in many species descriptions is too imprecise; moreover, corrected G+C content values have a significantly better fit to the phylogeny. Corresponding emendations of species descriptions are provided where necessary. Whereas most observed conflict with the current classification of Bacteroidetes is already visible in 16S rRNA gene trees, as expected whole-genome phylogenies are much better resolved.

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Comparative analysis of prokaryotic diversity in solar salterns in eastern Anatolia (Turkey)

Cited by 43 publications

References 47 publications

Robust archaeal and bacterial communities inhabit shallow subsurface sediments of the Bonneville Salt Flats

Robust archaeal and bacterial communities inhabit shallow subsurface sediments of the Bonneville Salt Flats

Microbial community structure and diversity within hypersaline Keke Salt Lake environments

Genome-Based Taxonomic Classification of Bacteroidetes

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