Assessment Of Microbial Communities Research Articles

Assessment of microbial communities in a dairy farm from a food safety perspective

Microbial communities associated with dairy farm operations have a significant influence on food safety, dairy product quality, and animal health. This study aimed to create a microbial mapping at a dairy farm to learn about their bacterial diversity, distribution, and potential dissemination pathways. The investigation included the detection of key zoonotic pathogens, enumeration of Staphylococcus aureus and Escherichia coli as indicators of typical bacterial loads in a dairy production environment, and a microbiome analysis using metagenomics. A total of 160 samples (environmental, udder swabs, feed, feces, raw milk, and water) were collected during winter (N = 80) and spring (N = 80). In winter, Cronobacter spp. were detected in four feed and two water samples; L. monocytogenes was identified in two samples, one from feces and one from a cattle mat; E. coli O157:H7 was found in two feed samples. On the other hand, during spring, Cronobacter spp. were present in four feed samples and one hallway drain, with only one feed sample testing positive for E. coli O157:H7, while L. monocytogenes was absent during the spring season. Regarding microbial counts, there was no significant difference between the two seasons (p = 0.068) for S. aureus; however, a significant difference (p = 0.025) was observed for E. coli. Environmental microbiome analysis showed the presence of Proteobacteria (46.0 %) and Firmicutes (27.2 %) as the dominant phyla during both seasons. Moraxellaceae (11.8 %) and Pseudomonadaceae (10.62 %) were notable during winter, while Lactobacillaceae (13.0 %) and Enterobacteriaceae (12.6 %) were prominent during spring. These findings offer valuable insights into microbial distribution within a dairy farm and potential risks to animal and human health through environmental cross-contamination.

Impact of impeller design on anaerobic digestion: Assessment of mixing dynamics, methane yield, microbial communities and digestate dewaterability

The efficiency of anaerobic digestion (AD) processes is intricately tied to mixing quality. This research investigates the influence of two impeller types, namely a helical ribbon impeller (HRI) and a pitched-blade impeller (PBI), on key aspects of AD. The investigation encompassed mixing dynamics, methane production, microbial communities, and the previously unexplored impact on digestate dewaterability. Results show that agitation with the PBI exhibited stratification, with bottom layer total solids (TS) values of 3.1% for the PBI and 2.6% for the HRI. Nevertheless, methane yield remained unchanged, averaging 286 LN/kg volatile solids (VS)added. Slower mixing with the HRI achieved more uniform mixing and reduced energy requirements. Additionally, impeller type significantly affected digestate dewaterability, leading to a 3.8% increase in TS of the dewatered sludge when using the PBI. These findings highlight the importance of considering mixing not only for methane production and reduced maintenance but also for achieving optimal digestate dewaterability.

Impact of impeller design on anaerobic digestion: Assessment of mixing dynamics, methane yield, microbial communities and digestate dewaterability

The efficiency of anaerobic digestion (AD) processes is intricately tied to mixing quality. This research investigates the influence of two impeller types, namely a helical ribbon impeller (HRI) and a pitched-blade impeller (PBI), on key aspects of AD. The investigation encompassed mixing dynamics, methane production, microbial communities, and the previously unexplored impact on digestate dewaterability. Results show that agitation with the PBI exhibited stratification, with bottom layer TS values of 3.1% for the PBI and 2.6% for the HRI. Nevertheless, methane yield remained unchanged, averaging 286 LN/kg VSadded. Slower mixing with the HRI achieved more uniform mixing and reduced energy requirements. Additionally, impeller type significantly affected digestate dewaterability, leading to a 3.8% increase in TS of the dewatered sludge when using the PBI. These findings highlight the importance of considering mixing not only for methane production and reduced maintenance but also for achieving optimal digestate dewaterability.

Assessment of microbial communities from cold mine environments and subsequent enrichment, isolation and characterization of putative antimony- or copper-metabolizing microorganisms

Mining activities, even in arctic regions, create waste materials releasing metals and metalloids, which have an impact on the microorganisms inhabiting their surroundings. Some species can persist in these areas through tolerance to meta(loid)s via, e.g., metabolic transformations. Due to the interaction between microorganisms and meta(loid)s, interest in the investigation of microbial communities and their possible applications (like bioremediation or biomining) has increased. The main goal of the present study was to identify, isolate, and characterize microorganisms, from subarctic mine sites, tolerant to the metalloid antimony (Sb) and the metal copper (Cu). During both summer and winter, samples were collected from Finnish mine sites (site A and B, tailings, and site C, a water-treatment peatland) and environmental parameters were assessed. Microorganisms tolerant to Sb and Cu were successfully enriched under low temperatures (4°C), creating conditions that promoted the growth of aerobic and fermenting metal(loid) tolerating or anaerobic metal(loid) respiring organism. Microbial communities from the environment and Sb/Cu-enriched microorganisms were studied via 16S rRNA amplicon sequencing. Site C had the highest number of taxa and for all sites, an expected loss of biodiversity occurred when enriching the samples, with genera like Prauserella, Pseudomonas or Clostridium increasing their relative abundances and others like Corynebacterium or Kocuria reducing in relative abundance. From enrichments, 65 putative Sb- and Cu-metabolizing microorganisms were isolated, showing growth at 0.1 mM to 10 mM concentrations and 0°C to 40°C temperatures. 16S rRNA gene sequencing of the isolates indicated that most of the putative anaerobically Sb-respiring tolerators were related to the genus Clostridium. This study represents the first isolation, to our knowledge, of putative Sb-metabolizing cold-tolerant microorganisms and contributes to the understanding of metal (loid)-tolerant microbial communities in Arctic mine sites.

Facilitating effects of the synergy with zero-valent iron and peroxysulfate on the sludge anaerobic fermentation system: Combined biological enzyme, microbial community and fermentation mechanism assessment

This study evaluated a synergetic waste activated sludge treatment strategy with environmentally friendly zero-valent iron nanoparticles (Fe0) and peroxysulfate. To verify the feasibility of the synergistic treatment, Fe0, peroxysulfate, and the mixture of peroxysulfate and Fe0 (synergy treatment) were added to different sludge fermentation systems. The study demonstrated that the synergy treatment fermentation system displayed remarkable hydrolysis performance with 435.50 mg COD/L of protein and 197.67 mg COD/L of polysaccharide, which increased 1.13–2.85 times (protein) and 1.12–1.49 times (polysaccharide) for other three fermentation system. Additionally, the synergy treatment fermentation system (754.52 mg COD/L) exhibited a well acidification performance which was 1.35–41.73 times for other systems (18.08–557.27 mg COD/L). The synergy treatment fermentation system had a facilitating effect on the activity of protease, dehydrogenase, and alkaline phosphatase, which guaranteed the transformation of organic matter. Results also indicated that Comamonas, Soehngenia, Pseudomonas, and Fusibacter were enriched in synergy treatment, which was beneficial to produce SCFAs. The activation of Fe0 on peroxysulfate promoting electron transfer, improving the active groups, and increasing the enrichment of functional microorganisms showed the advanced nature of synergy treatment. These results proved the feasibility of synergy treatment with Fe0 and peroxysulfate to enhance waste activated sludge anaerobic fermentation.

Toxic effects of polycyclic aromatic hydrocarbons on the two-sludge system: Combined functional gene, resistance gene and microbial community assessment

Polycyclic aromatic hydrocarbons (PAHs) were a class of persistent organic matter, and contained PAHs wastewater was discharged into wastewater treatment plants (WWTPs) finally, which could greatly affect their operational efficiency. The toxic effects of PAHs on the two-sludge system were assessed from functional genes, resistance genes, and microbial community. Three types of PAHs including Naphthalene (NAP), Anthracene (ANT), and Phenanthrene (PHE) were individually introduced into three separate two-sludge systems. Results showed that three types of PAHs did not adversely affect on nitrification performance, but exhibited a significant toxic effect on denitrification and phosphorus (PO43--P) removal. The effluent NH4+-N was almost 0 mg/L in all three systems, the highest total nitrogen (TN) removal rate was achieved at 90.88% in the PHE system, whereas the lowest rate was 72.46% in the ANT system. Concurrently, the PO43--P removal rate decreased from 93.10% to 51.22% in the ANT system. Functional genes, such as NORB and NIRS, and resistance genes such as PAH-RHD GNF/R and NAH-F/NH-R, were enriched in the PHE and NAP system, contributing to improved pollutant removal. However, the NIRK and PAH-RHD GPF/R were more abundant in the ANT system, resulting in varied pollutant removal capabilities. The composition of the microbial community was also influenced by PAH exposure with some specific functional bacteria being identified across the different systems. Among the PAHs tested, ANT was found to exert the highest toxicity towards the two-sludge system, surpassing the toxic effects of NAP and PHE. This study highlights the importance of considering PAH toxicity in the context of WWTPs operations and the potential need for tailored strategies to mitigate their impact on biological processes.

Inhibitory effects of long chain fatty acids on anaerobic sludge treatment: Biomass adaptation and microbial community assessment

The study investigated the effects of long-chain fatty acids (LCFA) on anaerobic sludge treating lipid-rich wastewater. It involved batch experiments with three sludge samples: two acclimated to lipids and one non-acclimated. The experiments aimed to observe the degradation of LCFA, specifically oleate and palmitate, by dosing them at concentrations ranging from 50 to 600 mg/L. Measurements of the cumulative methane production and the LCFA concentration, quantified as fat, oil, and grease (FOG) were performed. To ensure the sludge was free from other biodegradable substrates, part of the samples was pre-incubated without feed. The tests were conducted with both pre-incubated and non-incubated inoculum sludge. The findings revealed that oleate was degraded more efficiently than palmitate across all sludge samples, with a greater conversion rate to methane. Sludge samples acclimated to lipids showed a superior capacity to degrade LCFA compared to non-acclimated ones. It was noted that at concentrations above 400 mg/L, the conversion of LCFAs to intermediate compounds was inhibited, although this did not affect the subsequent methane production. The study concludes with a recommendation for sludge adaptation strategies to boost the efficiency of anaerobic wastewater treatment systems dealing with lipid-rich waste. The presence of LCFA-degrading bacteria families like Kosmotogaceae, Petrotogaceae, and Synergistaceae in the acclimated sludge samples underscores the adaptation and potential for improved degradation performance.

Monotonic trends of soil microbiomes, metagenomic and metabolomic functioning across ecosystems along water gradients in the Altai region, northwestern China

To investigate microbial communities and their contributions to carbon and nutrient cycling along water gradients can enhance our comprehension of climate change impacts on ecosystem services. Thus, we conducted an assessment of microbial communities, metagenomic functions, and metabolomic profiles within four ecosystems, i.e., desert grassland (DG), shrub-steppe (SS), forest (FO), and marsh (MA) in the Altai region of Xinjiang, China. Our results showed that soil total carbon (TC), total nitrogen, NH4+, and NO3− increased, but pH decreased with soil water gradients. Microbial abundances and richness also increased with soil moisture except the abundances of fungi and protists being lowest in MA. A shift in microbial community composition is evident along the soil moisture gradient, with Proteobacteria, Basidiomycota, and Evosea proliferating but a decline in Actinobacteria and Cercozoa. The β-diversity of microbiomes, metagenomic, and metabolomic functioning were correlated with soil moisture gradients and have significant associations with specific soil factors of TC, NH4+, and pH. Metagenomic functions associated with carbohydrate and DNA metabolisms, as well as phages, prophages, TE, plasmids functions diminished with moisture, whereas the genes involved in nitrogen and potassium metabolism, along with certain biological interactions and environmental information processing functions, demonstrated an augmentation. Additionally, MA harbored the most abundant metabolomics dominated by lipids and lipid-like molecules and organic oxygen compounds, except certain metabolites showing decline trends along water gradients, such as N′-Hydroxymethylnorcotinine and 5-Hydroxyenterolactone. Thus, our study suggests that future ecosystem succession facilitated by changes in rainfall patterns will significantly alter soil microbial taxa, functional potential, and metabolite fractions.

Association between host nitrogen absorption and root-associated microbial community in field-grown wheat.

Plant roots and rhizosphere soils assemble diverse microbial communities, and these root-associated microbiomes profoundly influence host development. Modern wheat has given rise to numerous cultivars for its wide range of ecological adaptations and commercial uses. Variations in nitrogen uptake by different wheat cultivars are widely observed in production practices. However, little is known about the composition and structure of the root-associated microbiota in different wheat cultivars, and it is not sure whether root-associated microbial communities are relevant in host nitrogen absorption. Therefore, there is an urgent need for systematic assessment of root-associated microbial communities and their association with host nitrogen absorption in field-grown wheat. Here, we investigated the root-associated microbial community composition, structure, and keystone taxa in wheat cultivars with different nitrogen absorption characteristics at different stages and their relationships with edaphic variables and host nitrogen uptake. Our results indicated that cultivar nitrogen absorption characteristics strongly interacted with bacterial and archaeal communities in the roots and edaphic physicochemical factors. The impact of host cultivar identity, developmental stage, and spatial niche on bacterial and archaeal community structure and network complexity increased progressively from rhizosphere soils to roots. The root microbial community had a significant direct effect on plant nitrogen absorption, while plant nitrogen absorption and soil temperature also significantly influenced root microbial community structure. The cultivar with higher nitrogen absorption at the jointing stage tended to cooperate with root microbial community to facilitate their own nitrogen absorption. Our work provides important information for further wheat microbiome manipulation to influence host nitrogen absorption. KEY POINTS: • Wheat cultivar and developmental stage affected microbiome structure and network. • The root microbial community strongly interacted with plant nitrogen absorption. • High nitrogen absorption cultivar tended to cooperate with root microbiome.

Exploring characteristics of value-added production of anthraquinones in rhubarb via fermentation: Compartmental modelling and molecular docking analysis

BackgroundRhubarb is an anthraquinone-rich herb with extensive pharmacological properties. The study adopted compartmental modeling, metagenomic analysis, and molecular docking analysis to predict optimal cycles of acclimation and maximal value-added production in fermentation of Rheum palmatum L. The work highlights the importance of fermentation and microbial consortia in value-added production. MethodAccording to transient dynamics of four anthraquinones (i.e., aloe-emodin, rhein, emodin, and chrysophanol) in R. palmatum L. fermentation, compartmental modeling was applied to quantitatively reveal the optimal cycle of acclimation for value-added production. Metagenomic analysis and comparative molecular docking analysis were used to scrutinize the fermentation process for microbial community and metabolic pathway assessment. Significant findingsCompartmental modelling indicated that the third cycle had the lowest k2k1 ratio and the highest bioconversion rates for aloe-emodin, emodin, and chrysophanol in acclimation using S. cerevisiae and microbial consortia. This coincides with the experimental findings, supporting the optimal performance of value-added production. The metabolic pathway of anthraquinone intermediates in R. palmatum L. using different cultures was established. As metagenomic analysis indicated, evolution of biodiversity in microbial community before and after fermentation suggested that Firmicutes and Proteobacteria tended to be the most dominant phyla. The β-glucosidase from Klebsiella spp. seemed to have more affinity than Lactococcus spp. that may explain Klebsiella's dominance after fermentation.

Potential benefits and risks of solar photovoltaic power plants on arid and semi-arid ecosystems: an assessment of soil microbial and plant communities.

Exponential increase in photovoltaic installations arouses concerns regarding the impacts of large-scale solar power plants on dryland ecosystems. While the effects of photovoltaic panels on soil moisture content and plant biomass in arid ecosystems have been recognized, little is known about their influence on soil microbial communities. Here, we employed a combination of quantitative PCR, high-throughput sequencing, and soil property analysis to investigate the responses of soil microbial communities to solar panel installation. We also report on the responses of plant communities within the same solar farm. Our findings showed that soil microbial communities responded differently to the shading and precipitation-alternation effects of the photovoltaic panels in an arid ecosystem. By redirecting rainwater to the lower side, photovoltaic panels stimulated vegetation biomass and soil total organic carbon content in the middle and in front of the panels, positively contributing to carbon storage. The shade provided by the panels promoted the co-occurrence of soil microbes but inhibited the abundance of 16S rRNA gene in the soil. Increase in precipitation reduced 18S rRNA gene abundance, whereas decrease in precipitation led to decline in plant aboveground biomass, soil prokaryotic community alpha diversity, and dehydrogenase activity under the panels. These findings highlight the crucial role of precipitation in maintaining plant and soil microbial diversities in dryland ecosystems and are essential for estimating the potential risks of large-scale solar power plants on local and global climate change in the long term.

Metagenomic assessment of gut microbial communities and risk of severe COVID-19

BackgroundThe gut microbiome is a critical modulator of host immunity and is linked to the immune response to respiratory viral infections. However, few studies have gone beyond describing broad compositional alterations in severe COVID-19, defined as acute respiratory or other organ failure.MethodsWe profiled 127 hospitalized patients with COVID-19 (n = 79 with severe COVID-19 and 48 with moderate) who collectively provided 241 stool samples from April 2020 to May 2021 to identify links between COVID-19 severity and gut microbial taxa, their biochemical pathways, and stool metabolites.ResultsForty-eight species were associated with severe disease after accounting for antibiotic use, age, sex, and various comorbidities. These included significant in-hospital depletions of Fusicatenibacter saccharivorans and Roseburia hominis, each previously linked to post-acute COVID syndrome or “long COVID,” suggesting these microbes may serve as early biomarkers for the eventual development of long COVID. A random forest classifier achieved excellent performance when tasked with classifying whether stool was obtained from patients with severe vs. moderate COVID-19, a finding that was externally validated in an independent cohort. Dedicated network analyses demonstrated fragile microbial ecology in severe disease, characterized by fracturing of clusters and reduced negative selection. We also observed shifts in predicted stool metabolite pools, implicating perturbed bile acid metabolism in severe disease.ConclusionsHere, we show that the gut microbiome differentiates individuals with a more severe disease course after infection with COVID-19 and offer several tractable and biologically plausible mechanisms through which gut microbial communities may influence COVID-19 disease course. Further studies are needed to expand upon these observations to better leverage the gut microbiome as a potential biomarker for disease severity and as a target for therapeutic intervention.

Comparative assessment of soil microbial community in crude oil contaminated sites

Petroleum refineries generate oily sludge that contains hazardous polycyclic aromatic hydrocarbons (PAH), and hence, its proper disposal is of foremost concern. Analysis of the physicochemical properties and functions of indigenous microbes of the contaminated sites are essential in deciding the strategy for bioremediation. This study analyses both parameters at two geographically distant sites, with different crude oil sources, and compares the metabolic capability of soil bacteria with reference to different contamination sources and the age of the contaminated site. The results indicate that organic carbon and total nitrogen derived from petroleum hydrocarbon negatively affect microbial diversity. Contamination levels vary widely on site, with levels of PAHs ranging from 5.04 to 1.66 × 103 μg kg−1 and 6.20 to 5.64 × 103 μg kg−1 in Assam and Gujarat sites respectively, covering a higher proportion of low molecular weight (LMW) PAHs (fluorene, phenanthrene, pyrene, and anthracene). Functional diversity values were observed to be positively correlated (p < 0.05) with acenaphthylene, fluorene, anthracene, and phenanthrene. Microbial diversity was the highest in fresh oily sludge which decreased upon storage, indicating that immediate bioremediation, soon after its generation, would be beneficial. Improvement in the bio-accessibility of hydrocarbon compounds by the treatment of biosurfactant produced by a (soil isolate/isolate) was demonstrated., with respect to substrate utilization.

A microcosm experiment on sediment remediation: microbial community assessment in sediment in presence of granulated coal ash

A microcosm experiment on sediment remediation: microbial community assessment in sediment in presence of granulated coal ash

Impacts of Binary Oxide Nanoparticles on the Soybean Plant and Its Rhizosphere, Associated Phytohormones, and Enzymes.

The utilization of binary oxide nanoparticles is geometrically increasing due to their numerous applications. Their intentional or accidental release after usage has led to their omnipresence in the environment. The usage of sludge or fertilizer containing binary oxide nanoparticles is likely to increase the chance of the plants being exposed to these binary oxide nanoparticles. The aim of the present review is to assess the detailed positive and negative impacts of these oxide nanoparticles on the soybean plants and its rhizosphere. In this study, methods of synthesizing binary oxide nanoparticles, as well as the merits and demerits of these methods, are discussed. Furthermore, various methods of characterizing the binary oxide nanoparticles in the tissues of soybean are highlighted. These characterization techniques help to track the nanoparticles inside the soybean plant. In addition, the assessment of rhizosphere microbial communities of soybean that have been exposed to these binary oxide nanoparticles is discussed. The impacts of binary oxide nanoparticles on the leaf, stem, root, seeds, and rhizosphere of soybean plant are comprehensively discussed. The impacts of binary oxides on the bioactive compounds such as phytohormones are also highlighted. Overall, it was observed that the impacts of the oxide nanoparticles on the soybean, rhizosphere, and bioactive compounds were dose-dependent. Lastly, the way forward on research involving the interactions of binary oxide nanoparticles and soybean plants is suggested.

Assessment of microbial communities colonizing the Azé prehistoric cave

• Biofilms were assessed inside and outside the Azé prehistorical cave. • Several vestiges remain in the cavity and are colonized by microorganisms. • Each section of the cave host different bacterial or phototrophic communities. • The microbial richness decreases from the outside to the bottom of the cave. • The outside environment is the main driver of the cave communities. This present study addresses the question of the composition of both prokaryotic and eukaryotic microbial communities outside, at the entrance and inside the prehistoric Azé cave using a metabarcoding survey. The results showed that cave bacteria as well as Eukaryote phototrophs richness were negatively correlated with the distance from the cave entrance. In fact, outside the cave, richness, diversity and specific OTUs were significantly higher in comparison to the entrance and the bottom of the cave. Moreover, this study reported that each section of the cave host different communities. The differences in communities provide a better understanding of the microorganism sources in the Azé show cave.

Characterizing Effects of Microbial Biostimulants and Whole-Soil Inoculums for Native Plant Revegetation

Soil microbes play important roles in plant health and ecosystem functioning, however, they can often be disturbed or depleted in degraded lands. During seed-based revegetation of such sites there is often very low germination and seedling establishment success, with recruitment of beneficial microbes to the rhizosphere one potential contributor to this problem. Here we investigated whether Australian native plant species may benefit from planting seed encapsulated within extruded seed pellets amended with one of two microbe-rich products: a commercial vermicast extract biostimulant or a whole-soil inoculum from a healthy reference site of native vegetation. Two manipulative glasshouse trials assessing the performance of two Australian native plant species (Acacia parramattensis and Indigofera australis) were carried out in both unmodified field-collected soil (trial 1) and in the same soil reduced in nutrients and microbes (trial 2). Seedling emergence and growth were compared between pelleted and bare-seeded controls and analyzed alongside soil nutrient concentrations and culturable microbial community assessments. The addition of microbial amendments maintained, but did not improve upon, high levels of emergence in both plant species relative to unamended pellets. In trial 1, mean time to emergence of Acacia parramattensis seedlings was slightly shorter in both amended pellet types relative to the standard pellets, and in trial 2, whole-soil inoculum pellets showed significantly improved growth metrics. This work shows that there is potential for microbial amendments to positively affect native plant emergence and growth, however exact effects are dependent on the type of amendment, the plant species, and the characteristics of the planting site soil.

Detritus‐hosted methanogenesis sustains the methane paradox in an alpine lake

AbstractAccumulation of methane in oxic waters of lakes and the ocean has been widely reported. Despite the importance for the greenhouse gas budget, mechanistic controls of such “methane paradox” remain elusive. Here, we use a combination of CH4 concentration and isotopic (δ13CCH4, δDH2O and δ18OH2O) measurements, plankton incubations and microbial community assessments to demonstrate the existence of the methane paradox in oxygenated waters of a meromictic lake (Lake Cadagno, Switzerland). Following mass dynamics using water isotopes, we exclude the possibility that the accumulation of CH4 at the thermocline results solely from lateral transport. Interannual variability in the magnitude of the methane paradox (between 0.5 and 5 μmol L−1) is associated to stratification patterns, changes in zooplankton biomass and planktonic detritus accumulation along density gradients, as well as fluctuating microbial cell numbers. The links between hydrodynamic conditions, aggregation of planktonic detritus and its microbiome, as well as the accumulation of CH4 in the water column are further supported by high‐resolution echo‐sounder measurements revealing backscatter maxima at the top of the thermocline, where detritus is effectively trapped, and by oxic incubations showing that CH4 is produced in zooplankton detritus (0.046 nmol L−1 to 0.095 CH4 mg dry mass L−1 d−1). Our results also show that detritus‐hosted methanogenesis is stimulated through the addition of methylphosphonate, suggesting that zooplankton‐associated microbiomes exploit organic phosphorus compounds to release CH4. Understanding the variability of the methane paradox in relation to changing hydrodynamics and plankton communities will be crucial to predict the future role of lakes in the global methane budget.

A Metagenomic Assessment of Soil Microbial Communities in a Coal Mine Spoil Dump Under Reclaimed Vegetation in La Guajira, Colombia

A Metagenomic Assessment of Soil Microbial Communities in a Coal Mine Spoil Dump Under Reclaimed Vegetation in La Guajira, Colombia

Peaks, pores, and dragon eggs: Uncovering and quantifying the heterogeneity of treatment wetland biofilm matrices

Biofilms serve to house diverse microbial communities, which are responsible for the majority of wastewater constituent degradation and transformation in treatment wetlands (TWs). TW biofilm has been generally conceptualized as a relatively uniform film covering available surfaces. However, no studies attaining direct visual 3D representations of biofilm morphology have been conducted. This study focuses on imaging the morphology of detached, gravel-associated, and rhizospheric (Phalaris arundinacea) biofilms from subsurface TW mesocosms. Images obtained through both traditional light microscopy, environmental scanning electron microscopy (E-SEM) and Wet-SEM revealed that TW biofilms are structurally heterogeneous ranging from corrugated films to clusters of aggregates. Features such as water channels and pores were observed suggesting that pollutant transport inside biofilms is complex, and that the interfacial surface area between water and biofilm is much larger than previously understood. Biofilm thickness generally ranged between 170 and 240 μm, with internal biofilm porosities estimated as 34 ± 10 %, reaching a maximum of 50 %. Internal biofilm matrix pore diameters ranged from 1 to 205.2 μm, with a distribution that favored pores and channels smaller than 10 μm, and a mean equivalent spherical diameter of 8.6 μm. Based on the large variation in pore and channel sizes it is expected that a variety of flow regimes and therefore pollutant dynamics are likely to occur inside TW biofilm matrices. Based on the visual evidence and analysis, a new conceptual model was created to reflect the microscale TW biofilm dynamics and morphology. This new conceptual model will serve to inform future biokinetic modelling, microscale hydrology, microbial community assessment, and pollutant treatment studies.