Metagenomic analysis of the microbial community structure in protected wetlands in the Maritza River Basin (original) (raw)
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2020
This study explored the spatial differences and physiological diversity of soil microbial communities in natural wetland and constructed rice paddies in the Maritsa River Basin, protected under the Birds Directive 2009/147/EC as natural habitats. Community level physiological profiling was used to characterize the metabolic function of the communities. The microbial activity expressed, as average well colour development (AWCD) and substrate richness and diversity was higher in the non-flooded soils with no significant spatial differences. Individual carbon source utilization patterns (CSUPs) segregated the paddy fields profiles from the natural wetland sediments and showed that communities` metabolic functions were strongly influenced by rice cropping and not by the sample location. The CUSPs revealed that easily degradable carbohydrates were the most widely used substrates followed by amino acids, carboxylic acids, and polyols. Natural wetland communities held an isolated position ...
Bioresource technology, 2017
The aim of this study was to characterize bacterial communities in vertical flow constructed wetlands (VFCWs) using Illumina high-throughput sequencing. The bacterial communities developed lower richness and diversity in response to clogging. Bacterial diversity did not overtly decrease with depth. A variety of bacterial phyla were found in VFCWs' bacterial communities, including Bacteroidetes, Actinobacteria and Acidobacteria, among which Proteobacteria was dominant. At the genus level, a spatiotemporal variation was illustrated in the diversity and structure of bacterial communities. Clustering analysis of bacterial composition in the operational taxonomic units (OTUs) at the phylum and genus levels had a consistent trend, namely, that bacterial communities were more similar at similar column depths.
Frontiers in Microbiology, 2021
The ultimate role of prokaryote (bacteria and archaea), the decomposer of the wetland ecosystem, depends on its community structure and its interaction with the environment. The present study has used three universal prokaryote primers to compare prokaryote community structure and diversity of three distinctly different wetlands. The study results revealed that α-diversity indices and phylogenetic differential abundance patterns did not differ significantly among primers, but they did differ significantly across wetlands. Microbial community composition revealed a distinct pattern for each primer in each wetland. Overall comparison of prokaryote communities in sediments of three wetlands revealed the highest prokaryote richness and diversity in Bhomra (freshwater wetland) followed by Malencho (brackish-water wetland) and East Kolkata wetland (EKW) (sewage-fed wetland). Indicator genus analysis identified 21, 4, and 29 unique indicator genera, having preferential abode for Bhomra, EK...
Microorganisms, 2020
Constructed wetlands (CWs) are complicated ecosystems that include vegetation, sediments, and the associated microbiome mediating numerous processes in wastewater treatment. CWs have various functional zones where contrasting biochemical processes occur. Since these zones are characterized by different particle-size composition, physicochemical conditions, and vegetation, one can expect the presence of distinct microbiomes across different CW zones. Here, we investigated spatial changes in microbiomes along different functional zones of a free-water surface wetland located in Moscow, Russia. The microbiome structure was analyzed using Illumina MiSeq amplicon sequencing. We also determined particle diameter and surface area of sediments, as well as chemical composition of organic pollutants in different CW zones. Specific organic particle aggregates similar to activated sludge flocs were identified in the sediments. The highest accumulation of hydrocarbons was found in the zones with...
Bacterial communities in sediments of an urban wetland in Bogota, Colombia
Universitas Scientiarum
Urban wetlands are biodiversity reservoirs sustained by microbe-mediated processes. In tropical zones, wetland microbial dynamics remain poorly understood. Chemical parameters, heavy metal content, and microbiological community structure were investigated in surface sediments of the Santa Maria del Lago (SML) wetland in Bogota, Colombia. High-throughput sequencing was employed to generate RNAr 16S and nosZ gene sequence data with which bacteria, archaea, and nosZ-type denitrifier community composition and their phylogenetic relationships were investigated. A canonical correspondence analysis was conducted to determine the relationship between assessed environmental variables and microbial community composition. Results showed that the most abundant bacterial phyla were Proteobacteria, Acidobacteria (group GP18), and Aminicenantes; Archaea were represented by the taxa Methanomicrobia and Thermoprotei, and the nosZ community was dominated by Candidatus Competibacter denitrificans. A p...
Vertical organization of microbial communities in Salineta hypersaline wetland, Spain
Frontiers in Microbiology, 2023
Microbial communities inhabiting hypersaline wetlands, well adapted to the environmental fluctuations due to flooding and desiccation events, play a key role in the biogeochemical cycles, ensuring ecosystem service. To better understand the ecosystem functioning, we studied soil microbial communities of Salineta wetland (NE Spain) in dry and wet seasons in three different landscape stations representing situations characteristic of ephemeral saline lakes: S1 soil usually submerged, S2 soil intermittently flooded, and S3 soil with halophytes. Microbial community composition was determined according to different redox layers by 16S rRNA gene barcoding. We observed reversed redox gradient, negative at the surface and positive in depth, which was identified by PERMANOVA as the main factor explaining microbial distribution. The Pseudomonadota, Gemmatimonadota, Bacteroidota, Desulfobacterota, and Halobacteriota phyla were dominant in all stations. Linear discriminant analysis effect size (LEfSe) revealed that the upper soil surface layer was characterized by the predominance of operational taxonomic units (OTUs) affiliated to strictly or facultative anaerobic halophilic bacteria and archaea while the subsurface soil layer was dominated by an OTU affiliated to Roseibaca, an aerobic alkali-tolerant bacterium. In addition, the potential functional capabilities, inferred by PICRUSt2 analysis, involved in carbon, nitrogen, and sulfur cycles were similar in all samples, irrespective of the redox stratification, suggesting functional redundancy. Our findings show microbial community changes according to water flooding conditions, which represent useful information for biomonitoring and management of these wetlands whose extreme aridity and salinity conditions are exposed to irreversible changes due to human activities.
World Journal of Microbiology & Biotechnology
Wetland degradation makes significant impacts on soil, and bacterial communities in soil are likely to respond to these impacts. The purpose of this study was to investigate the impacts of soil property, soil type and soil depth on bacterial community in different stages of soil degradation in the Zoige Wetland. Microbial biomass carbon was estimated from chloroform fumigation-extraction. Bacterial communities were evaluated by cluster and principal component analysis of DGGE banding patterns and sequencing of partial 16S rDNA PCR amplicons. Experimental results showed that microbial biomass carbon decreased with the soil types (Peat soil > Swamp soil > Meadow soil > Sandy soil) and declined with soil depths (0–20 > 20–40 > 40–60 cm). Bacterial community was affected by soil type more primarily than by soil depth. In addition, the microbial biomass carbon was strongly correlated with soil water content, soil organic carbon and total nitrogen. Sequence analysis of DGGE bands indicated that bacterial phyla of α-Proteobacteria, γ-Proteobacteria, Bacteroidetes, Flavobacterium and Unidentified bacterium predominantly existed in the soil. All these results suggest that specific changes in soil property, soil type and soil depth affected soil bacterial community both quantitatively and qualitatively.
The microbial diversity of laboratory-scale wetlands appears to be randomly assembled
Water Research, 2008
This study investigated the formation of the microbial communities in two horizontal subsurface-flow laboratory-scale constructed wetlands, one planted and the other one unplanted. The abundance of the predominant functional groups (Archaea, Bacteria and sulphate-reducing bacteria) was determined using fluorescence in situ hybridization and the diversity and community structure of those functional groups were analysed using denaturing gradient gel electrophoresis. The numbers of Archaea, Bacteria and sulphate-reducing bacteria were indistinguishable in both reactors (P=0.99, 0.80 and 0.55, respectively). The microbial communities in both wetlands were typically no more similar than if they had been randomly assembled from a common source community. Plants did not appear to exert a strong effect on the structure of the microbial communities in the horizontal subsurface-flow constructed wetlands (HSCWs) studied in this investigation.
FEMS Microbiology Ecology, 2013
In a context of global change, alterations in the water cycle may impact the structure and function of terrestrial and aquatic ecosystems. Wetlands are particularly at risk because hydrological regime has a major influence on microbially mediated biogeochemical processes in sediments. While the influence of water availability on wetland biogeochemical processes has been comprehensively studied, the influence of hydrological regime on microbial community structure has been overlooked. We tested for the effect of hydrological regime on the structure and functions of microbial communities by comparing sediments collected at multiple sites in the Ain d epartement (Eastern France). Each site consisted of two plots, one permanently and one seasonally inundated. At the time of sampling, all plots were continuously inundated for more than 6 months but still harboured distinct bacterial communities. This change in community structure was not associated with marked modifications in the rates of microbial activities involved in the C and N cycles. These results suggest that the observed structural change could be related to bacterial taxa responding to the environmental variations associated with different hydrological regimes, but not strongly associated with the biogeochemical processes monitored here.