•Effect of fluoxetine and ketoprofen evaluated on aquatic communities using microcosms.•Alterations in N-cycle due to fluoxetine suggested by variations in nitrogen species.•Decreased brood rate of ...Daphnia magna in systems containing fluoxetine and ketoprofen.•Micro-eukaryotic communities largely altered in fluoxetine-containing systems.•Sub-lethal concentrations of the compounds caused disruption of ecological variables.
The effects of fluoxetine (antidepressant) and ketoprofen (analgesic) on aquatic ecosystems are largely unknown, particularly as a mixture. This work aimed at determining the effect of sublethal concentrations of both compounds individually (0.050 mg/L) and their mixture (0.025 mg/L each) on aquatic communities at a microcosm scale for a period of 14 d. Several physicochemical parameters were monitored to estimate functional alterations in the ecosystem, while model organisms (Daphnia magna, Lemna sp., Raphidocelis subcapitata) and the sequencing of 16S/18S rRNA genes permitted to determine effects on specific populations and changes in community composition, respectively. Disturbances were more clearly observed after 14 d, and overall, the microcosms containing fluoxetine (alone or in combination with ketoprofen) produced larger alterations on most physicochemical and biological variables, compared to the microcosm containing only ketoprofen, which suffered less severe changes. Differences in nitrogen species suggest alterations in the N-cycle due to the presence of fluoxetine; similarly, all pharmaceutical-containing systems decreased the brood rate of D. magna, while individual compounds inhibited the growth of Lemna sp. No clear trends were observed regarding R. subcapitata, as indirectly determined by chlorophyll quantification. The structure of micro-eukaryotic communities was altered in the fluoxetine-containing systems, whereas the structure of bacterial communities was affected to a greater extent by the mixture. The disruptions to the equilibrium of the microcosm demonstrate the ecological risk these compounds pose to aquatic ecosystems.
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•Elevated COD concentrations deteriorate the anammox activity.•Anammox activity is recovered with the decreasing COD/TN due to nitrite addition.•Primary phylum shifts from Chloroflexi to ...Proteobacteria with the elevated COD load.
Nitrogen removal with different organic carbon effect was investigated using anaerobic baffled reactor (ABR) anammox reactor. Results indicated that organic carbon exert an important effect on nitrogen removal through anammox process. When the feeding COD concentration was lower than 99.7mgL−1, nitrogen removal could be enhanced via the coexistence of denitrification and anammox. Elevated COD could further deteriorate the anammox activity with almost complete inhibition at the COD concentration of 284.1mgL−1. The nitrogen removal contribution rate of anammox was varied from 92.7% to 6.9%. However, the anammox activity was recovered when the COD/TN was decreased from 2.33 to 1.25 with influent nitrite addition. And, the anammox process was again intensified from 27.0 to 51.2%. High-throughput Miseq sequencing analyses revealed that the predominant phylum changed from Chloroflexi to Proteobacteria with the elevated COD addition, which indicated COD concentration was the most important factor regulating the bacterial community structure.
American ginseng ( Panax quinquefolium L.) is a perennial plant that is cultivated for medicinal purposes. Unfortunately, outbreaks of root rot disease in American ginseng (AG) reduce yields and ...result in serious economic losses. Information on the dynamics of soil microbial communities associated with healthy and diseased AG of different ages is limited. The present study explored the differences in field soil microbial community structure, composition, interaction, and their predictive functions associated with healthy and diseased AG at different growth ages. Changes in soil physicochemical properties were also examined to determine the possible reasons for disease outbreaks. Results revealed that in different growth years, the genera of soil-borne pathogens, such as Alternaria , Botrytis , Cladosporium , Sarocladium , and Fusarium , were increased in diseased AG soil samples in comparison with those in the healthy AG soil samples. In contrast, the abundance of some key and potentially beneficial microbes, such as Bacillus , Chaetomium , Dyella , Kaistobacter , Paenibacillus , Penicillium , and Trichoderma , was decreased. Additionally, as AG plants age, the relative abundance of symbiotic fungi tended to decrease, while the relative abundance of potential plant pathogenic fungi gradually increased. Various soil properties, such as available phosphorus, the ratio of total nitrogen to total phosphorus (N/P), and pH, were significantly ( P < 0.05) associated with microbial community composition. Our findings provide a scientific basis for understanding the relationship among the root rot disease outbreaks in American ginseng as well as their corresponding soil microbial communities and soil physicochemical properties.
Although organic fertilizer is usually recommended for improving soil quality and crop yields, it inevitably enhances methane (CH4) emissions. Effective measures to mitigate CH4 emissions while ...ensuring crop yields are urgently needed. A two-year experiment was performed to examine the effects of organic-inorganic fertilizer combinations on CH4 emissions, the CH4-related microbial community, soil biochemical characteristics, and rice yields during dual rice growing seasons in 2020–2021 at two locations (i.e., Nanning and Yulin City, Southern, China). The treatments were as follows: no N fertilizer (Neg-CF), 100 % chemical fertilizer (CF) (Pos-CF), 60 % cattle manure (CM) + 40 % CF (High-CM), 30 % CM + 70 % CF (Low-CM), 60 % poultry manure (PM) + 40 % CF (High-PM), and 30 % PM + 70 % CF (Low-PM). CH4 fluxes and related functional microorganism abundances were investigated using the closed chamber method and molecular procedures, respectively. The addition of organic manure significantly improved rice grain yields and soil properties, including total nitrogen (TN), soil organic carbon (SOC), and pH compared to the Pos-CF. Similarly, integrating organic and inorganic fertilizers led to significant increases in seasonal CH4 emissions, global warming potential (GWP), and the abundance of CH4-related soil microbes. Average increases in SOC, TN, CH4 emissions, and GWP in the High-PM treatment relative to the Pos-CF were 44.7, 36.4, 20.6, and 24.4 %, respectively, in Nanning; and 28.9, 33.3, 23.4, and 20.8 % in Yulin City, averaged across the years. Moreover, co-fertilization resulted in the highest increase in methanogenic diversity and abundance relative to Pos-CF only. Applying high proportions of manure improved the abundance of methanogenic soil archaea related to CH4 production compared with the plots with low proportions of manure. Interestingly, lower manure amendments produced the highest rice grain yields and lowest CH4 emissions while maintaining high soil qualities. In addition, regression analysis exhibited that SOC was highly positively associated with CH4 emissions. Above all, controlling the proportions of organic manure and CF may be a feasible approach for enhancing rice yields and soil quality while mitigating CH4 emissions. Of the treatments tested, the combination of 30 % organic manure (i.e., CM or PM) with 70 % CF (urea) performed the best. This study showed that combining manure and CF at a 30:70 ratio was the most effective approach for improving soil health and rice yields while ensuring environmental sustainability.
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•Insights and basis for N fertilization in a dual rice farming system are provided.•Reduced N application integrated with animal manure improved soil quality and rice yield.•CH4 emission rates for synthetic N and low levels of organic fertilizer are not significantly different from one another.•Manure and CH4-generating bacteria influence CH4 emission from rice fields.
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•Chili pepper improved color of sausages, but its key pigment was gradually declined.•Co-adding Flos Sophorae inhibited declines of capsanthin and capsaicin of pepper.•Flos Sophorae ...or chili pepper or their mixture hindered lipid oxidation in sausages.•Flos Sophorae and its combination with pepper improved microbiological communities.•Combination of Flos Sophorae and chili pepper as a nitrite alternative in sausages.
The main issue remains finding a nitrite alternative able to provide its multiple functions. Flos Sophorae exerts antioxidant and prebiotic actions, chili pepper has potent coloring capacity, thus this study investigated whether combination of Flos Sophorae and chili pepper could address the multiple activities of nitrite in Chinese sausages. Dry-fermented sausages were prepared: control and four treatments added with 150 mg/kg sodium nitrite (Nit), 0.2% Flos Sophorae (FS), 1% chili pepper (CP), and combination of 0.2% Flos Sophorae and 1% chili pepper (FS + CP). Results indicated that FS, CP and FS + CP had higher moisture, antioxidant activity and numbers of beneficial Staphylococcus and yeasts Candida, and lower numbers of Escherichia coli and harmful fungi, while FS had lower redness and harder texture than control. Their combination inhibited the declines of capsanthin and antioxidant capacity with ripening time, further improved microbiological communities compared with CP, and resulted in higher redness, similar color score and bacterial community, less lipid oxidation and softer texture compared with Nit. These results suggested that Flos Sophorae in combination with chili pepper could replace the nitrite’s contribution to red curing color and microbiological communities, and effectively hinder lipid oxidation in Chinese sausages.
In many cases, it is difficult to isolate the key microbial organisms from their communities present in natural environments. Metagenomic methods can recover near-complete genomes of the dominant ...microbial organisms in communities, and metatrancriptomic data could further reveal important genes and pathways related to their functions. In this study, three draft genomes of Clostridium ultunense-like bacteria were recovered based on metagenomic analyses, which is an essential syntrophic acetate-oxidizing bacteria (SAOB) member for maintaining high methane production in high-ammonium biogas digesters but difficult to isolate from its syntrophic partners. Firstly, syntrophic acetate-oxidizing bacteria in a microbial community series were enriched from a biogas digester by adding sodium acetate in the medium. Global analyses of C. ultunense suggested that it would combine the pyruvate-serine-glycine pathway and part of the Wood–Ljungdahl pathway for syntrophic acetate oxidization. Moreover, metatranscriptomic analyses showed that all of the genes of the proposed syntrophic acetate-oxidizing pathway present in the genome were actively transcribed in the microbiota. The functional bacterial enrichment and refined assembly method identify rare microbial genome in complex natural microbiota, which help to recover the syntrophic acetate-oxidizing pathway in C. ultunense strains in this study.
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•Syntrophic acetate-oxidizing bacteria and their potential syntrophic acetate-oxidizing pathway were investigated.•A biogas digester series dominated with Clostridium ultunense were enriched from one biogas digester.•Three draft C. ultunense genomes were recovered from the enriched microbiota.•Syntrophic acetate-oxidizing pathway combined the pyruvate-serine-glycine pathway and part of the W-L pathway was proposed.•The new proposed pathway was demonstrated by the metatranscriptomic analyses of the enriched microbiota.
1-Butyl-3-methylimidazolium chloride (BmimCl), an imidazolium-based ionic liquid, is considered the representative emerging persistent aquatic pollutant, and its environmental toxicity has attracted ...a growing concern. However, most of the investigations focused on monocultures or a single organism, with little information available on the complex syntrophic consortium that dominates the complex and successional biochemical processes, such as anaerobic digestion. In this study, the effect of BmimCl at environmentally relevant levels on glucose anaerobic digestion was therefore investigated in several laboratory-scale mesophilic anaerobic digesters to provide such support. Experimental results showed that BmimCl at 1-20 mg/L inhibited the methane production rate by 3.50-31.03%, and 20 mg/L BmimCl inhibited butyrate, hydrogen, and acetate biotransformation by 14.29%, 36.36%, and 11.57%, respectively. Toxicological mechanism studies revealed that extracellular polymeric substances (EPSs) adsorbed and accumulated BmimCl through carboxyl, amino, and hydroxyl groups, which destroyed the EPSs' conformational structure, thereby leading to the inactivation of microbial cells. MiSeq sequencing data indicated that the abundance of
,
, and
decreased by 6.01%, 7.02%, and 18.45%, respectively, in response to 20 mg/L BmimCl. Molecular ecological network analysis showed that compared with the control, the lower network complexity, fewer keystone taxa, and fewer associations among microbial taxa were found in the BmimCl-present digester, indicating the reduced stability of the microbial community.
The Aznalcóllar accident, which occurred in 1998, spilled 36 × 105 m3 of pyritic sludge and 9 × 105 m3 of acidic water around an area of 43 km2 in the south of Spain. This spill is considered one of ...the most important metal-mining associated accidents worldwide. In this study, two soil remediation techniques were evaluated: the addition of marble sludge (liming treatment, LS) and the mixing of recovered soils (RC) with contaminated soils (CT) (biopile treatment, BS). Both LS and BS significantly reduce the solubility of Cu, Zn, As, and Pb mainly due to the increase in pH and organic matter content, respectively. Soil basal respiration rate and the seed germination and root elongation bioassay with Lactuca sativa were used to evaluate the toxicity of the potential pollution in the sampled soils. Both bioassays showed that the CT soils exhibited the highest toxicity with a significant reduction in the toxicity of the amended soils (LS and BS). The abundance and structure of microbial communities in the soils were determined by qPCR and Illumina 16S rRNA sequencing, respectively. The absolute abundances of total bacterial and archaeal populations, ammonium oxidising bacteria, and denitrifiers in the CT soils were statistically lower than these found in the other three soils. Similarly, the structure of the bacterial community was highly different in the CT soils. Our results underline the persistence of the detrimental effect of pollutants in CT soils compared to the recuperated (RC) and amended soils (LS and BS). We also highlight the uses of liming or biopile as remediation techniques as satisfactory tools to reduce the impact of heavy metals in the contaminated Aznalcóllar soils.
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•The use of liming and biopile showed good performance as remediation techniques.•Soil amendments applied significantly reduced toxicity and heavy metals solubility.•The treatments restored the microbial quality of the soil.•Bacterial community structure at the phylum level is recovered after 20 years.
The impact of climate change in the European Alps has been roughly twice the global average, dramatically reducing permafrost extent and thickening of its active layer. Therefore, the study of the ...abiotic factors (i.e. chemical/physical parameters) affecting the microbial diversity inhabiting Alpine permafrost appears to be of dramatic relevance. Within the European Alps, the Stelvio area exhibits these effects in a particularly evident way, with important consequences on microbial ecosystems. Therefore, microbial communities inhabiting a permafrost core collected in the Scorluzzo active rock glacier (Stelvio Pass, Italian Central Alps) were investigated along a depth gradient (410 to 524 cm from the surface). The taxonomic structures of bacterial and fungal communities were investigated via a next-generation sequencing (NGS) approach (Illumina MiSeq), targeting the bacterial V3-V4 regions of 16S rDNA and the fungal ITS2 region. Abiotic soil factors (grain size, electrical conductivity, ice/water content, pH, Loss-on-Ignition - LOI, total and organic carbon, nitrogen and phosphorous) were analysed. Richness and Shannon-H diversity indices were correlated to abiotic factors. Bacterial diversity was significantly (p < 0.05) correlated with LOI, while fungal diversity was significantly (p < 0.05) correlated with the depth gradient. The Constrained Analysis of Principal (CAP) coordinates were used to study the correlation between abiotic parameters and the taxonomic structure of bacterial and fungal communities. Among all tested variables, the depth gradient, water content, pH and LOI affected the taxonomic structure of bacterial communities (in particular, the abundance of bacterial amplicon sequence variants - ASVs - assigned to Afipia sp., Chloroflexi, Gaiella sp., Oryzihumus sp. and Serratia, sp.), while fungal communities (ASVs assigned to Naganishia sp., Rhodotorula sp., Sordariomycetes and Taphrinales) were affected by the depth gradient. Co-occurrences (calculated by Pearson correlation coefficient) among microbial taxa (i.e. bacteria vs bacteria, bacteria vs fungi, fungi vs fungi) were investigated: the prevalence of significant (p < 0.05) positive co-occurrences was found, suggesting that the coexistence of different microbial taxa could play a crucial role in maintaining the ecological and taxonomic balance of both bacterial and fungal communities inhabiting the Alpine permafrost ecosystem. These findings suggest that the bacterial and fungal diversity of Alpine permafrost are affected in different ways by some abiotic factors.
•The structure of bacterial communities is affected by depth, % of water, pH and LOI.•The structure of fungal communities is affected by depth.•Bacterial communities are dominated by Actinobacteria and Proteobacteria.•Meyerozyma is the prevalent fungal genera found in Alpine permafrost.•The prevalence of positive co-occurrences between bacteria and fungi was found.
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