Analysis Of Community Composition Research Articles

Effects of Polycyclic Aromatic Hydrocarbons on Soil Bacterial and Fungal Communities in Soils

Soil organic pollution (such as heavy metals, PAHs, etc.) has caused serious environmental problems, which have resulted in unexpected effects on contaminated soil ecosystems. However, knowledge of the interactions between environmental PAHs and bacterial and fungal communities is still limited. In this study, soil samples from different PAH-contaminated areas including non-contaminated areas (NC), low-contaminated areas (LC), and high-contaminated areas (HC) were selected. Results of toxic equivalent quantity (TEQ) indicated that Benzo[a]pyrene (BaP) and Dibenzo[a,h]anthracene (DBahA) constituted the main TEQs of ∑16PAHs. Incremental lifetime cancer risk (ILCR) assessment revealed that the main pathway of exposure to soil PAHs was dermal contact in adults and children. Furthermore, adults faced a higher total cancer risk (including dermal contact, ingestion, and inhalation) from soil PAHs than children. The microbial community composition analysis demonstrated that soil PAHs could decrease the diversity of bacterial and fungal communities. The relative abundance of Acidobacteriota, Gemmatimonadota, Fimicutes, Bacteroidota, Ascomycota, and Basidiomycota exhibited varying degrees of changes under different concentrations of PAHs. Benzo[a]anthracene (BaA) and Chrysene (Chr) drove the bacterial community composition, while BaP and DBahA drove the fungal community compositions. Co-occurrence network analysis revealed the high contamination levels of PAHs that could change the relationships among different microorganisms and reduce the complexity and stability of fungal and bacterial networks. Overall, these findings provide comprehensive insight into the responses of bacterial and fungal communities to PAHs.

Assembly of phyllosphere bacterial community with PsnWRKY70 in poplar

Plant microbiome plays an important role in growth and development, biotic and abiotic stresses, and genotype is one of the key factors in shaping the microbiome. In this study, the effect of PsnWRKY70 on the synthetic bacterial community of poplar was investigated. To explore the assembly mechanism of poplar phyllosphere bacteria. we used 39 strains of bacteria isolated from the phyllosphere of poplar to construct a synthetic bacterial community. The leaves of aseptic poplar tissue culture seedlings were inoculated with synthetic bacterial community, and the bacterial communities of poplar leaves inoculated with synthetic bacterial community for 0 d, 5 d, 10 d and 15d were sequenced for 16 s. Bacterial community composition, PCoA, and Lefse analyses were performed. The results showed that the bacterial community in the phyllosphere of poplar tended to be in a stable equilibrium state after inoculation with the synthetic bacterial community. The results of β diversity analysis showed that there were significant differences in the bacterial community structure of OE, RE and WT leaves at 5d and 10 d after inoculation with Syncom. It is mainly composed of Methylobacteriaceae, Enterbacteriaceae, Agrobacterium, Rhizobium, Pseudoxanthomonas and Stenotrophomonas. The results of differential bacterial analysis showed that Paracoccus, Arthrobacter and Rhodococcus had higher relative abundance and stability in OE line. PsnWRKY70 gene plays an important role in recruiting Paracoccus, Arthrobacter and Rhodococcus strains in poplar leaves.

Microbial community composition and co-occurrence network analysis of the rhizosphere soil of the main constructive tree species in Helan Mountain of Northwest China

To understand the microbial diversity and community composition within the main constructive tree species, Picea crassifolia, Betula platyphylla, and Pinus tabuliformis, in Helan Mountain and their response to changes in soil physicochemical factors, a high throughput sequencing technology was used to analyze the bacterial and fungal diversity and community structure. RDA (Redundancy Analysis) and Pearson correlation analysis were used to explore the influence of soil physicochemical factors on microbial community construction, and co-occurrence network analysis was conducted on the microbial communities. The results showed that the fungal and bacterial diversity was highest in B. platyphylla, and lowest in P. crassifolia. Additionally, the fungal/bacterial richness was greatest in the rhizosphere soils of P. tabuliformis and B. platyphylla. RDA and Pearson correlation analysis revealed that NN (nitrate nitrogen) and AP (available phosphorus) were the main determining factors of the bacterial community, while NN and SOC (soil water content) were the main determining factors of the fungal community. Pearson correlation analysis between soil physicochemical factors and the alpha diversity of the microbial communities revealed a significant positive correlation between pH and the bacterial and fungal diversity, while SOC, TN (total nitrogen), AP, and AN (available nitrogen) were significantly negatively correlated with the bacterial and fungal diversity. Co-occurrence network analysis revealed that the soil bacterial communities exhibit richer network nodes, edges, greater diversity, and greater network connectivity. Indicating that bacterial communities exhibit more complex and stable interaction patterns in soil. This study reveals the complex interactive relationship between microbial communities and soil physicochemical factors in forest ecosystems. By analyzing the response of rhizosphere microbial communities of major tree species in Helan Mountain to nutrient dynamics and pH changes, we can deepen our understanding of the role of microorganisms in regulating ecosystem functions and provide theoretical basis for soil improvement and ecological restoration strategies.

Combined cellular phenotyping and high-throughput sequencing analysis reveals the symbiotic relationships between different types of macadamia root systems and arbuscular mycorrhizal fungi

Macadamia nuts, scientifically designated as Macadamia integrifolia, are a highly valuable crop that originated in Australia. This study provides a comprehensive examination of the symbiotic relationships between various macadamia root systems and arbuscular mycorrhizal fungi (AMF). The four principal macadamia-producing regions in Yunnan Province were selected for investigation on the basis of meticulous criteria. To determine the AMF infection rate, the roots were stained. Furthermore, high-throughput sequencing was employed to conduct a comprehensive analysis of the fungal diversity in the rhizosphere soil. The findings were definitive, indicating that both normal and cluster roots are capable of establishing a symbiotic relationship with AMF. Secondary forests exhibited significantly elevated fungal diversity relative to normal roots, while cluster roots demonstrated the lowest diversity and notable regional variation, indicating that the environment exerts a considerable influence on inter-root fungi and AMF. The analysis of the fungal community composition revealed that the predominant groups were Ascomycetes and Basidiomycetes. The FUNGuild function prediction clearly indicated distinct differences in the fungal functions of secondary forests, cluster roots, and normal roots. This study provides a scientific foundation for the sustainable development of macadamia nuts and significantly contributes to a deeper comprehension of the intricate interactions between macadamia and AMF, thereby fostering the long-term stable and healthy growth of the macadamia nut industry.

New insights into the spatial variability of microbial diversity and density in peatlands exposed to various electron acceptors with an emphasis on methanogenesis and CO2 fluxes.

Peatlands are vital in the global carbon cycle, acting as significant sinks for carbon and releasing methane (CH4) and carbon dioxide (CO2) into the atmosphere. However, the complex interactions between environmental factors and the microbial communities responsible for these greenhouse gas emissions remain insufficiently understood. To address this knowledge gap, a pilot-scale mesocosm study was conducted to assess the impact of different terminal electron acceptors (TEAs), including sulfate (SO4 2-), humic acid (HA), and goethite, on CH4 and CO2 emissions and microbial community structures in peatlands. Our results revealed that the addition of TEAs significantly altered the CH4 and CO2 emissions. Specifically, the addition of SO4 2- nearly doubled CO2 production while substantially inhibiting CH4 emissions. The combined addition of SO4 2- and HA, as well as HA alone, followed a similar pattern, albeit with less pronounced effects on CH4. Goethite addition resulted in the highest inhibition of CH4 among all treatments but did not significantly increase CO2 production. Community composition and network analysis indicated that TEAs primarily determined the structure of microbial communities, with each treatment exhibiting distinct taxa networks. Proteobacteria, Acidobacteria, Chloroflexi, and Bacteroidetes were the most abundant phyla across all mesocosms. The presence of methanotrophs, including Methylomirabilales and Methylococcales, was linked to the inhibition of CH4 emissions in these mesocosms. This study provides novel insights into the spatial variability of microbial diversity and density in peatlands under various TEAs, emphasizing the role of methanogenesis and CO2 fluxes in carbon cycling. Our findings enhance the understanding of carbon cycling in microbe-rich environments exposed to TEAs and highlight the potential for future studies to investigate the long-term effects of TEAs on microbial communities, enzymes, and carbon storage.

Environmental impact of an anthropogenic groundwater temperature hotspot

Heat emitted by buildings and other infrastructure accumulates in the subsurface. This additional heat can cause a pronounced shift in thermal boundary conditions of the important groundwater ecosystem. Shallow groundwater systems in Central Europe are often inhabited by communities of fauna adapted to cold and stable conditions as well as microorganisms, whose activity is dependent on ambient temperatures. At a local groundwater temperature hotspot of up to 23 °C, caused by a water park, we assessed the environmental impact of this thermal alteration on the shallow groundwater system. The results show that the overall groundwater quality at the site is influenced by anthropogenic land use, compared to wells in a nearby water protection zone. However, neither hydrochemical nor ecological characteristics of groundwater from wells in the vicinity of the water park indicate any significant dependence on temperature. Hence, we conclude that in this eutrophic and anoxic aquifer moderate heat stress does not lead to significant alterations in terms of hydrochemistry as well as microbiological properties. Due to the overall low oxygen concentrations (<1 mg/l), stygofauna is present only occasionally and cannot be used as bioindicators. These results have to be verified for other aquifer types and would benefit from a more in-depth analysis of microbial community composition.

The White-backed Woodpecker (Dendrocopos leucotos) as an umbrella species for threatened saproxylic beetle communities in Central European beech forests

The umbrella species concept is a popular conservation planning tool which postulates that conservation schemes targeting a specific species will indirectly benefit many other sympatric species. In Scandinavia and Central Europe, the White-backed Woodpecker (Dendrocopos leucotos) is considered an umbrella species for woodland birds and cryptogam species of conservation concern. Whether this also applies to saproxylic beetles, a group of high conservation concern, remains open. Therefore, we tested that umbrella function in Central European beech forests that are currently recolonized by this woodpecker. Relying on radiotracking data, we compared saproxylic beetle communities within the breeding home ranges of White-backed Woodpeckers (high and low activity of the bird) against forests with ascertained absence of the bird (control). Bayesian inference for linear regressions identified that species richness of threatened saproxylic beetles was 1.51 (lower and upper 5 % PPCrI=[1.09; 2.01]) times higher in sites with high White-backed Woodpecker activity compared to the control. Community composition analyses on threatened saproxylic beetles showed a reduced β-diversity at low and high White-backed Woodpecker sites compared to the control. Finally, an indicator species analysis showed that 17 saproxylic beetle species, including 4 threatened species, were positively associated with White-backed Woodpecker’s breeding home ranges, while only 3 species, but no threatened species, were associated with the control sites. Overall, our results suggest that the White-backed Woodpecker plays the role of an umbrella species for threatened saproxylic beetle communities, opening new opportunities for conservation planning in European beech forests.

Insights into the efficient electricity production performance using acid-treated straw in MFCs

In this study, a mixed electrogenic culture (RS) was successfully enriched from cow rumen fluid which produced a maximum current density of 634 ± 58 μA cm−2 using carboxymethyl cellulose (CMC) as the substrate in a three-electrode system. Furthermore, in the microbial fuel cells (MFCs) system, RS as the inoculum was able to generate electricity using treated corn straw instead of CMC as substrates. Power densities of 550 ± 25 mW m−2 from the alkali-treated straw, 842 ± 35 mW m−2 from neutral-treated straw, and 1377 ± 20 mW m−2 from acid-treated straw for RS were obtained with RS, respectively, which are all much higher than that of 110 ± 15 mW m−2 using untreated straw as the substrate. It can be found that the electricity generation performance of RS in MFCs using straw treated by different methods varied significantly. Among them, the power density using acid-treated straw was 1.64 and 2.50 times higher than that using neutral-treated and alkali-treated straw, respectively. Meanwhile, the power density of RS using acid-treated straw was 1.36 times and 1.58 times higher than that of RS using CMC and that of G. sulfurreducens PCA using small molecule acetic acid as the substrate, respectively. Microbial community composition analysis of the RS enriched using differently treated straw revealed that the relative abundances of 47.1 % for Geobacter and 14.7 % for Wolinella were dominant in the acid-treated straw RS by comparison of 1.9 %, 11.3 % and 14.0 %, 4.2 % for RS using alkali-treated and neutral-treated straw, respectively. In addition, the metabolite analysis of RS during electricity generation revealed that the RS enriched from acid-treated straw contained a higher amount of acetic acid (9.3 ± 0.4 mmol/L) as the carbon source for electrochemically active bacteria (EAB), such as G. sulfurreducens PCA, which was higher than the values of 4.3 ± 0.4 mmol/L (alkali-treated) and 0.34 ± 0.04 mmol/L (neutral-treated) straw. Therefore, these results implied that the degraded organic matters in the acid-treated straw contains more acetic acid, which is accessible to RS, enabling higher electricity production by enriching more efficient EAB. It can be seen that the acid-treated method for straw can effectively degrade the straw to low molecules (more acetic acid) which will improve the microbial community composition to produce higher electricity current. This study offers a promising practical method for recovery energy using straw in MFCs system in the future.

Gender-specific microbial signatures in saliva: Unveiling the association between the oral microbiome and the pathogenesis of glioma

The intricate interplay between the human oral microbiome and systemic health is increasingly being recognized, particularly in the context of central nervous system pathologies such as glioblastoma. In this study, we aimed to elucidate gender-specific differences in the salivary microbiome of glioma patients by utilizing 16S rRNA sequencing data from publicly available salivary microbiome datasets. We conducted comprehensive bioinformatics analysis, encompassing quality control, noise reduction, species classification, and microbial community composition analysis at various taxonomic levels. Machine learning algorithms were employed to identify microbial signatures associated with glioma. When compared to healthy controls, our analysis revealed distinct differences in the salivary microbiota of glioma patients. Notably, the genera Leptotrichia and Atopobium exhibited significant variations in abundance between genders. Leptotrichia was prevalent in healthy females but exhibited a reduced abundance in female glioma patients. In contrast, Atopobium was more abundant in male glioma patients. These findings suggest that hormonal influences might play a role in shaping the salivary microbiome and its association with glioma. We utilized a combination of LASSO-logistic regression and random forest models for feature selection, and identified key microbial features that differentiated glioma patients from healthy controls. We developed a diagnostic model with high predictive accuracy and area under the curve and principal component analysis metrics confirmed its robustness. The analysis of microbial markers, including Atopobium and Leptotrichia, highlighted the potential of the salivary microbiota as a non-invasive biomarker for the diagnosis and prognosis of glioma. Our findings highlight significant gender-specific disparities in the salivary microbiome of patients with glioma, offering new insights into the pathogenesis of glioma and paving the way for innovative diagnostic and therapeutic strategies. The use of saliva as a diagnostic fluid, given its ease of collection and non-invasive nature, holds immense promise for monitoring systemic health and the trajectory of disease. Future research should focus on investigating the underlying mechanisms by which the salivary microbiome influences the development of glioma and identifying potential microbiome-targeted therapies to enhance the management of glioma.

Contribution of groundwater-borne nutrients to eutrophication potential and the share of benthic algae in a large lowland river

Groundwater inflow can be a significant source of nutrients for riverine ecosystems, which can affect eutrophication i.e., the elevated primary production and the corresponding accumulation of algal biomass. Experimental and modelling work has shown that benthic algae (autotrophic biofilms) in particular benefit, as they have direct access to the inflowing groundwater-borne nutrients. Primarily the supply of phosphorus (P) enhances pelagic algal biomass, as it is the limiting nutrient for primary production in most freshwater systems. In this study, we estimate the effect of groundwater inflow on overall eutrophication of a large, European lowland river and tested its seasonal effect on biofilms in particular. We calculated the effects on overall eutrophication during summer according to the estimated input of groundwater-borne P and the C:P stoichiometry of planktonic algae in the Elbe River. Our model indicated that these diffuse P inputs have the potential to significantly increase eutrophication. Groundwater-P can contribute up to 1.5 t/d PO4 over the investigated 450 km stretch of the Elbe River under low flow conditions. This would result in an additional planktonic load of about 46 t/d of particulate organic carbon, thereby contributing to eutrophication at the regional scale in this river. In contrast, at the local scale, biofilms were collected seasonally from artificial substrata exposed in the river either in hydrogeologically active areas with groundwater inflow, or in areas of varying hydraulic connectivity. Analyses of biofilm macronutrients, structural components and biofilm community composition show distinct effects of season, hydrogeology and groundwater inflow. The dominant predictors were season and the interaction between hydrogeology and groundwater. Benthic eutrophication is most likely to occur in autumn in areas of loose rock with high groundwater inflow. The strong interaction of environmental factors in determining benthic eutrophication highlights the need to assess these factors in combination rather than in isolation.

Nitrate Uptake and Primary Production Along the Amazon River Plume Continuum

AbstractThe Amazon River plume (ARP) has been shown to support high rates of nitrogen fixation and primary production. However, nitrogen fixation alone cannot account for total primary production determined in the region, hinting that other nitrogen uptake processes might play a role. For the first time, we measured nitrate uptake rates in the ARP during three cruises in May 2018, June 2019 and April/May 2021, along with primary production rates and an analysis of phytoplankton community composition via high performance liquid chromatography. Based on a classification according to the salt content the region was divided into estuarine (ES), mesohaline (MH) and oceanic (OC) stations. Primary production was light limited near the river mouth at ES stations and was maximal off the coasts of French Guiana and Suriname, where also nitrate uptake was highest with rates of 11.4 mmol m−2 d−1. The role of eddies pinching off a deflecting plume are discussed as possible reason for higher nutrient concentrations at the MH stations. Surprisingly, at most MH stations north of 5°N, nitrate uptake rates were low despite the presence of sufficient substrate concentration (up to 1.44 μM nitrate). Diatoms, dinoflagellates or Synechococcus sp. dominated phytoplankton communities. OC stations showed lowest productivity rates in accordance with oligotrophic conditions. However, rates seem to be sufficient to completely deplete the remaining riverine nitrate, preventing its export to the open ocean.

Correlation between the Characteristic Flavour and Microbial Community of Xuanwei Ham after Ripening

Xuanwei ham is a traditional fermented meat product in China with a unique production process and excellent-quality reputation at home and abroad. To reveal the microbial community succession of Xuanwei ham at different post-ripening times (W1-4) and its relationship with flavour formation, the microbial community, free amino acids, and volatile flavour compounds (VOCs) were analysed by high-throughput sequencing, liquid chromatography (LC), and gas chromatography–mass spectrometry (GC-MS), respectively. A total of 25 free amino acids were detected, among which W3 contained the fewest, and most were generally lower than in hams in the other three years. Fifty-nine VOCs were detected, among which 17 were esters, and the highest ester content was found in W4. Analysis of the bacterial community composition revealed that the bacterial community composition of ham samples from W3 and other years differed greatly, and at the gate level, the dominant bacterial group of Xuanwei ham from different years was Pseudomonadota. At the genus level, the most abundant genera in W1, W2, and W4 were all dominated by Sarocladium, Klebsiella, and Vibrio, with Klebsiella being the most abundant in W1. The most abundant genus in W3 was Vibrio, and the second most dominant genera were Sarocladium and Gammaretrovirus. In short, this study provides a theoretical basis for the storage, quality, and improvement of Xuanwei ham.

Analysis of the Fungal Community Composition in Endemic Orchids with Terrestrial Habitat in Subtropical Regions.

Habenaria and Liparis are well-known orchid genera that grow in terrestrial habitats in the tropics, subtropics or temperate zones. Three species have been found in subtropical regions of China, inhabiting terrestrial to epiphytic habitats. This study focuses on three species, H. dentata (distributed in Asia), H. yachangensis, and L. gigantea. For H. yachangensis and L. gigantea, there is no information about the mycorrhizal community in these species. This study aims to conduct the fungal community screening of Chinese ground orchids from subtropical regions. We performed a comparative analysis of the fungal community among H. dentata, H. yachangensis, and L. gigantea, determining their ITS regions using NGS paired-end sequences. The results clarified the diversity and the predominance of fungal genera. Ascomycota was abundant compared to Basidiomycota or other fungi groups in all communities, with a high dominance in all populations, especially for L. gigantea. At different root spatial locations, the fungal community diversity and richness were higher in the soil than in the rhizosphere or inner root. However, the results suggest that L. gigantea has a different fungal community compared to Habenaria species. In this order, the subtropical terrestrial orchids have a different fungal network compared to the northern terrestrial orchids. Also, there is a high probability of co-existence and co-evolution of endophytic fungi in these terrestrial orchids, indicating the potential role of host plants in selecting an endophytic fungal community. Furthermore, our results highlight the need to elucidate the microbe interactions of these unique orchids for long-term purposes, such as isolating indigenous fungi for suitable inoculants for further orchid propagation, restoration, and conservation.

Analysis of microbial community composition and diversity in the rhizosphere of Salvia miltiorrhiza at different growth stages.

Salvia miltiorrhiza is a kind of medicinal plant with various pharmacological activities. Few studies on the composition and diversity of rhizosphere microbial communities at different growth stages have been conducted on Salvia miltiorrhiz; in particular, salviorrhiza grows in soil that has been continuously planted for 3 years. The purpose of this study was to understand the changes of soil physicochemical properties of Salvia miltiorrhiza at different growth stages, and to study the composition and diversity of rhizosphere microbial community at different growth stages. Illumina NovaSeq sequencing technology was used to analyze the bacterial 16S rRNA gene and the fungal ITS region in the rhizosphere soil of Salvia miltiorrhiza at different growth stages. The results showed that the dominant bacterial phyla in the Salvia miltiorrhiza rhizosphere were Proteobacteria, Bacteroidetes, Acidobacteria, Firmicutes, Actinobacteria, and Chloroflexi. The dominant fungal phyla were Ascomycota, Mortierellomycota, Basidiomycota, and Rozellomycota. During the growth of Salvia miltiorrhiza, the physical and chemical properties of soil changed. As the Salvia miltiorrhiza grew, the content of available phosphorus, available potassium, pH, nitrate nitrogen, and ammonium nitrogen significantly decreased. Ammonium nitrogen and nitrate nitrogen had a greater impact on the bacterial community structure in the rhizosphere than on the fungal community structure. The work was to reveal differences in the rhizosphere bacterial and fungal community structure during different growth stages of Salvia miltiorrhiza, further understand the changes of rhizosphere microbial ecological characteristics and soil physicochemical properties during the cultivation of Salvia miltiorrhiza.

Comparative metagenomic analysis of microbial community compositions and functions in cage aquaculture and its nearby non-aquaculture environments.

In the context of burgeoning global aquaculture, its environmental repercussions, particularly in marine ecosystems, have gained significant attentions. Cage aquaculture, a prominent method, has been observed to significantly influence marine environments by discharging substantial amounts of organic materials and pollutants. It is also one of the important reasons for water eutrophication. This study investigated the impacts of cage aquaculture on microbial diversity and functional potential using metagenomics. Specifically, a comparison was made of the physicochemical indicators and microbial diversity between three grouper aquaculture cage nets in Lingshui Xincun Port and three nearby non-aquaculture area surface waters. We found that compared to non-aquaculture areas, the eutrophication indicators in aquaculture environments significantly increased, and the abundances of Vibrio and Pseudoalteromonas in aquaculture environments significantly rose. Additionally, microbial functional genes related to carbon, nitrogen, and sulfur metabolisms were also found to be significantly affected by aquaculture activities. The correlation analysis between microbial populations and environmental factors revealed that the abundances of most microbial taxa showed positive correlations with dissolved inorganic nitrogen, soluble reactive phosphorus, NH4+, and negative correlations with dissolved oxygen. Overall, this study elucidated the significant impacts of aquaculture-induced eutrophication on the diversity and functions of planktonic bacterial communities.

Comparative analysis of oropharyngeal microbiota in healthcare workers post-COVID-19.

To date, more than 770 million individuals have become coronavirus disease 2019 (COVID-19) convalescents worldwide. Emerging evidence highlights the influence of COVID-19 on the oral microbiome during both acute and convalescent disease phases. Front-line healthcare workers are at an elevated risk of exposure to viral infections, and the effects of COVID-19 on their oral microbiome remain relatively unexplored. Oropharyngeal swab specimens, collected one month after a negative COVID-19 test from a cohort comprising 55 healthcare workers, underwent 16S rRNA sequencing. We conducted a comparative analysis between this post-COVID-19 cohort and the pre-infection dataset from the same participants. Community composition analysis, indicator species analysis, alpha diversity assessment, beta diversity exploration, and functional prediction were evaluated. The Shannon and Simpson indexes of the oral microbial community declined significantly in the post-COVID-19 group when compared with the pre-infection cohort. Moreover, there was clear intergroup clustering between the two groups. In the post-COVID-19 group, the phylum Firmicutes showed a significant increase. Further, there were clear differences in relative abundance of several bacterial genera in contrast with the pre-infection group, including Streptococcus, Gemella, Granulicatella, Capnocytophaga, Leptotrichia, Fusobacterium, and Prevotella. We identified Gemella enrichment in the post-COVID-19 group, potentially serving as a recovery period performance indicator. Functional prediction revealed lipopolysaccharide biosynthesis downregulation in the post-COVID-19 group, an outcome with host inflammatory response modulation and innate defence mechanism implications. During the recovery phase of COVID-19, the oral microbiome diversity of front-line healthcare workers failed to fully return to its pre-infection state. Despite the negative COVID-19 test result one month later, notable disparities persisted in the composition and functional attributes of the oral microbiota.

Analysis of chlorhexidine, antibiotics and bacterial community composition in water environments from Brazil, Cameroon and Madagascar during the COVID-19 pandemic

The widespread of chlorhexidine and antibiotics in the water bodies, which grew during the global COVID-19 pandemic, can increase the dispersion of antibiotic resistance. We assessed the occurrence of these pharmaceutical compounds as well as SARS-CoV-2 and analysed the bacterial community structure of hospital and urban wastewaters from Brazil, Cameroon, and Madagascar. Water and wastewater samples (n = 59) were collected between January–June 2022. Chlorhexidine, azithromycin, levofloxacin, ceftriaxone, gentamicin and meropenem were screened by Ultra-High-Performance Liquid Chromatography coupled with mass spectrometer. SARS-CoV-2 was detected based on the nucleocapsid gene (in Cameroon and Madagascar), and envelope and spike protein-encoding genes (in Brazil). The total community-DNA was extracted and used for bacterial community analysis based on the 16S rRNA gene. To unravel likely interaction between pharmaceutical compounds and/or SARS-CoV-2 with the water bacterial community, multivariate statistics were performed. Chlorhexidine was found in hospital wastewater effluent from Brazil with a maximum concentration value of 89.28 μg/L. Additionally, antibiotic residues such as azithromycin and levofloxacin were also present at concentrations between 0.32–7.37 μg/L and 0.11–118.91 μg/L, respectively. In Cameroon, azithromycin was the most found antibiotic present at concentrations from 1.14 to 1.21 μg/L. In Madagascar instead, ceftriaxone (0.68–11.53 μg/L) and levofloxacin (0.15–0.30 μg/L) were commonly found. The bacterial phyla statistically significant different (P < 0,05) among participating countries were Proteobacteria, Patescibacteria and Dependentiae which were mainly abundant in waters sampled in Africa and, other phyla such as Firmicutes, Campylobacterota and Fusobacteriota were more abundant in Brazil. The phylum Caldisericota was only found in raw hospital wastewater samples from Madagascar. The canonical correspondence analysis results suggest significant correlation of azithromycin, meropenem and levofloxacin with bacteria families such as Enterococcaceae, Flavobacteriaceae, Deinococcaceae, Thermacetogeniaceae and Desulfomonilaceae, Spirochaetaceae, Methanosaetaceae, Synergistaceae, respectively. Water samples were also positive for SARS-CoV-2 with the lowest number of hospitalized COVID-19 patients in Madagascar (n = 7) and Brazil (n = 30). Our work provides new data about the bacterial community profile and the presence of pharmaceutical compounds in the hospital effluents from Brazil, Cameroon, and Madagascar, whose limited information is available. These compounds can exacerbate the spreading of antibiotic resistance and therefore pose a risk to public health.

Microbial communities of Schisandra sphenanthera Rehd. et Wils. and the correlations between microbial community and the active secondary metabolites.

Schisandra sphenanthera Rehd. et Wils. is a plant used in traditional Chinese medicine (TCM). However, great differences exist in the content of active secondary metabolites in various parts of S. sphenanthera. Do microorganisms critically influence the accumulation of active components in different parts of S. sphenanthera? In this study, 16S/ITS amplicon sequencing analysis was applied to unravel microbial communities in rhizospheric soil and different parts of wild S. sphenanthera. At the same time, the active secondary metabolites in different parts were detected, and the correlation between the secondary metabolites and microorganisms was analyzed. The major components identified in the essential oils were sesquiterpene and oxygenated sesquiterpenes. The contents of essential oil components in fruit were much higher than that in stem and leaf, and the dominant essential oil components were different in these parts. The dominant components of the three parts were γ-muurolene, δ-cadinol, and trans farnesol (stem); α-cadinol and neoisolongifolene-8-ol (leaf); isosapathulenol, α-santalol, cedrenol, and longiverbenone (fruit). The microbial amplicon sequences were taxonomically grouped into eight (bacteria) and seven (fungi) different phyla. Community diversity and composition analyses showed that different parts of S. sphenanthera had similar and unique microbial communities, and functional prediction analysis showed that the main functions of microorganisms were related to metabolism. Moreover, the accumulation of secondary metabolites in S. sphenanthera was closely related to the microbial community composition, especially bacteria. In endophytic bacteria, Staphylococcus and Hypomicrobium had negative effects on five secondary metabolites, among which γ-muurolene and trans farnesol were the dominant components in the stem. That is, the dominant components in stems were greatly affected by microorganisms. Our results provided a new opportunity to further understand the effects of microorganisms on the active secondary metabolites and provided a basis for further research on the sustainable utilization of S. sphenanthera.

The drivers of benthic macroinvertebrates communities along a subtropical river system: Sediments chemistry or water quality?

AbstractImpacts of metal pollution, either on water or in sediments within aquatic systems have been a serious challenge globally. Little is known about the ecological impacts of metal pollution on benthic macroinvertebrates species in sub–tropical river systems. The aim of this study was to examine benthic macroinvertebrates community composition in relation to sediment metal concentrations and other physicochemical variables in the Mutshundudi River system. Benthic macroinvertebrates sampling and community composition analysis, sediment collection, processing, metal analysis and assessment of water variables in the river system were done across two seasons at 12 sampling sites. The river was categorized into three segments: upstream, midstream and downstream. The results from geo‐accumulation (Igeo) values showed that sediments were loaded with Na, Zn, and B in all river segments. In comparison with South African water quality guidelines for aquatic ecosystems, water quality ranged from good at upstream sites because of low anthropogenic activities to very poor in downstream sites because of high anthropogenic activities. Sediments from the Mutshundudi River showed significant differences on high concentrations of metals (i.e., Mg, K, Na, and Cu) and seasonal variations. Both water quality and sediment chemistry were considered the driving factors of benthic macroinvertebrates, since species densities and composition reduced with a decline in water and sediment quality during both cool–dry and hot–wet seasons. Continuous build‐up of the metal contaminants, such as Mg, K, Na, and Cu in river sediments may pose adverse impacts on macroinvertebrate community structure.

The Diversity and Community Composition of Three Plants' Rhizosphere Fungi in Kaolin Mining Areas.

Mining activities in the kaolin mining area have led to the disruption of the ecological health of the mining area and nearby soils, but the effects on the fungal communities in the rhizosphere soils of the plants are not clear. Three common plants (Conyza bonariensis, Artemisia annua, and Dodonaea viscosa) in kaolin mining areas were selected and analyzed their rhizosphere soil fungal communities using ITS sequencing. The alpha diversity indices (Chao1, Shannon, Simpson, observed-species, pielou-e) of the fungal communities decreased to different extents in different plants compared to the non-kauri mining area. The β-diversity (PCoA, NMDS) analysis showed that the rhizosphere soil fungal communities of the three plants in the kaolin mine area were significantly differentiated from those of the control plants grown in the non-kaolin mine area, and the extent of this differentiation varied among the plants. The analysis of fungal community composition showed that the dominant fungi in the rhizosphere fungi of C. bonariensis and A. annua changed, with an increase in the proportion of Mycosphaerella (genus) by about 20% in C. bonariensis and A. annua. An increase in the proportion of Didymella (genus) by 40% in D. viscosa was observed. At the same time, three plant rhizosphere soils were affected by kaolin mining activities with the appearance of new fungal genera Ochrocladosporium and Plenodomus. Predictive functional potential analysis of the samples revealed that a significant decrease in the potential of functions such as biosynthesis and glycolysis occurred in the rhizosphere fungal communities of kaolin-mined plants compared to non-kaolin-mined areas. The results show that heavy metals and plant species are the key factors influencing these changes, which suggests that selecting plants that can bring more abundant fungi can adapt to heavy metal contamination to restore soil ecology in the kaolin mining area.