Microbial diversity in solar greenhouse soils in Round-Bohai Bay-Region, China: The influence of cultivation year and environmental condition

Insights into the responses of fungal taxonomy and function to different metal(loid) contamination levels

Fungi possess prominent tolerance and detoxification capacities in highly metal(loid)-polluted systems, yet little is known about their responding behaviors under different contamination conditions. Here, we systematically investigated the structure and function profiles of fungal communities in an abandoned reservoir mainly contaminated by multiple metal(loid)s such as Al, Be, Cd, Co, Cr, and Cu. This abandoned reservoir consisted of three distinct zones, i.e., Zone I with the shortest deprecation time and the highest metal(loid) contamination; Zone II with the medium deprecation time and medium metal(loid) contamination; and Zone III with the longest abandonment time and the lowest metal(loid)contamination. The lowest pH and the highest contents of OM, TN, and TP were also observed for the high-contamination Zone I, followed by the moderate-contamination Zone II and the low-contamination Zone III. Fungal biodiversity was found to be robust and dominated by many endurable genera in Zone I, and notable cooperative relationships among fungal species facilitated their viability and prosperity under severe metal(loid) contaminations. Differently, the lowest biodiversity and fragile co-occurrence network were identified in Zone II. As metal(loid) contaminations reduced from Zone I to Zone III, dominant fungal functions gradually changed from undefined saprotroph guild to parasites or pathogens of plant-animal (i.e. animal pathogen, endophyte, and plant pathogen). Moreover, metal(loid)s combined with physicochemical properties jointly mediated the fungal taxonomic and functional responses to different metal(loid) contamination levels. Overall, this study not only broadens the understanding of taxonomic and functional repertoires of fungal communities under different metal(loid) contaminated conditions, but also highlights the crucial contributions of specific fungi to bioremediation and management in varying metal(loid)-polluted environments.

Effects of different heavy metal pollution levels on microbial community structure and risk assessment in Zn-Pb mining soils

Heavy metal contamination in soils seriously threatens human health and aggravates the global pollution burden. In this study, we investigated the risk of heavy metal contamination in soils at a Zn-Pb mineral processing plant in Longnan, China, and the effects of different heavy metal contamination levels on diverse microbial communities. Statistical analysis showed that, except for Ni, the average content of all detected metals (Zn, Pb, As, Cu, Cd, Hg) in the soil was higher than the background value of soil in the study area, which was most seriously contaminated with Pb and As. Comparison of functional divisions showed that heavy metal soil contamination was most serious in the raw material stacking area and the production area. Interpolation analysis showed that areas closer to the wastewater discharge area had higher contents of each heavy metal and were more seriously polluted. From the point of pollution index, the risk of heavy metal soil pollution in the study area was very high (RI = 2845.24, i.e., > 600), with Cd and Hg being the most serious pollutants compared with other heavy metals. Microbial community abundance, diversity, and structure differed at different levels of heavy metal contamination. The community diversity of bacteria decreased with increasing heavy metal concentrations, while no significant change in fungi was observed. Evidence from variation redundancy analysis (RDA) and the Spearman correlation analysis showed that the leading factors affecting microbial community composition were Cu, Cd, Hg, and pH. Actinobacteria and Gemmatimonadetes at the uncontaminated level (CL) were significantly and negatively correlated with the concentrations of Cu, Zn, Cd, and Pb. Proteobacteria and Chloroflexi at the severely contaminated level (SL) were significantly correlated with pH and Hg. However, heavy metal contamination had less effect on most of the dominant fungi. In conclusion, microbial communities such as Proteobacteria, Actinobacteria, Chloroflexi, and Ascomycota showed greater tolerance to heavy metals. These results could be used as important references for the remediation of heavy metal-contaminated soils.

Active tailings disturb the surrounding vegetation soil fungal community: Diversity, assembly process and co-occurrence patterns

Soil fungi play an important role in the soil biogeochemical cycle and are important biological indicators for the ecological remediation of mine tailings contaminated sites, therefore understanding the characteristics of soil fungal communities is a key aspect of pollution remediation. However, the influence of biological factors on the characteristics of fungal community diversity; assembly mechanisms and co-occurrence patterns of fungal community along environmental gradients around tailings are not well understood. In this study, soil samples from forest, agriculture and grass around tailings were collected to reveal the assembly mechanisms and co-occurrence patterns of soil fungal community and to quantify the contribution of abiotic and biotic factors to fungal diversity. The results suggest that vegetation types and Cu concentration together drive the distribution of fungal diversity. We found that Exophiala has potential as a biomarker species indicative of restoration progress. Increased environmental stress accelerates the process of changing fungal community assemblages from stochastic to deterministic, while also allowing fungal communities tend to resist tailings-induced environmental stresses through species coexistence. Together, this study provides new insights into the influence of biological factors on fungal community diversity, as well as revealing mechanisms of fungal community assembly and co-occurrence patterns, which are important for understanding the maintenance mechanisms of fungal community diversity and ecological remediation of tailings-contaminated soils.

Differential Microbial Communities in Paddy Soils Between Guiyang Plateaus and Chengdu Basins Drive the Incidence of Rice Bacterial Diseases

Southwest China has the most complex rice-growing regions in China. With great differences in topography, consisting mainly of basins and plateaus, ecological factors differ greatly between regions. In this study, bulk paddy soils collected from long-term rice fields in Chengdu (basins) and Guiyang (plateaus) were used to study the correlation between microbial diversity and the incidence of rice bacterial diseases. Results showed that the microbial community composition in paddy soils and the microbial functional categories differed significantly between basins and plateaus. They shared >70% of the dominant genera (abundance >1%), but the abundance of the dominant genera differed significantly. Functional analysis found that bulk paddy soils from Chengdu were significantly enriched in virulence factor-related genes; soils from Guiyang were enriched in biosynthesis of secondary metabolites, especially antibiotics. Correspondingly, Chengdu was significantly enriched in leaf bacterial pathogens Acidovorax, Xanthomonas, and Pseudomonas. Greenhouse experiments and correlation analysis showed that soil chemical properties had a greater effect on microbial community composition and positively correlated with the higher incidence of rice bacterial foot rot in Guiyang, whereas temperature had a greater effect on soil microbial functions and positively correlated with the higher severity index of leaf bacterial diseases in Chengdu. Our results provide a new perspective on how differences in microbial communities in paddy soils can influence the incidence of rice bacterial diseases in areas with different topographies.

Residual concentrations and ecological risks of neonicotinoid insecticides in the soils of tomato and cucumber greenhouses in Shouguang, Shandong Province, East China

Neonicotinoid insecticides (NNIs) are the most widely used insecticides in China and worldwide. Continuous use of NNIs can lead to their accumulation in soil, causing potential ecological risks due to their relatively long half-life. We used liquid chromatography-tandem mass spectrometry (LC-MS/MS) to investigate the residual levels of nine neonicotinoids in greenhouse soils in Shouguang, East China, at different soil depths and with different crops (tomato and cucumber) after varying periods of cultivation. Seven neonicotinoids were detected in the soils of the tomato greenhouses and six were detected in the soils of the cucumber greenhouses, with total concentrations ranging from 0.731 to 11.383 μg kg^-1 and 0.363 to 19.224 μg kg^-1, respectively. In all samples, the neonicotinoid residues in the soils cultivated for 8-9 years were lower than in those cultivated for 2 years and 14-17 years. In the tomato greenhouse soils, the residual levels of NNIs were highest in the topsoil, with progressively lower concentrations found with depth. Under cucumber cultivation, the NNI residue levels were also highest in the topsoil but there was little difference between the middle and lower soil layers. Total organic carbon (TOC) decreased with soil depth while pH showed the opposite trend, showing a significant negative correlation in both types of soils (tomato soils ρ = -0.900, p = .001; cucumber soils ρ = -0.883, p = .002). Furthermore, TOC was significantly positively correlated, and pH was negatively correlated, with total NNI concentrations in both types of soils (TOC: tomato soils ρ = 0.800, p = .010; cucumber soils ρ = 0.881, p = .004; pH: tomato soils ρ = -0.850, p = .004; cucumber soils ρ = -0.643, p = .086). The results of an ecological risk analysis showed that acetamiprid represents a particularly high toxicity risk in these soils. Based on our analysis, NNI residues in the soils of tomato greenhouses and their associated ecological risks deserve more attention than those of cucumber greenhouse soils.

Effects of pesticide residues on bacterial community diversity and structure in typical greenhouse soils with increasing cultivation years in Northern China

The understanding of soil microbiome is important for sustainable cultivation, especially under greenhouse conditions. Here, we investigated the changes in soil pesticide residues and microbial diversity and community structure at different cultivation years under a greenhouse system. The 9-to-14 years sites were found to have the least diversity/rich microbial population as compared to sites under 8 years and over 16 years, as analyzed with alpha diversity index. In total, 42 bacterial phyla were identified across soils with different pesticide residues and cultivation ages. Proteobacteria, Acidobacteria, and Bacteroidetes represented the dominant phyla, that accounted for 34.2-43.4%, 9.7-19.3% and 9.2-16.5% of the total population, respectively. Our data prove that certain pesticides contribute to variation in soil microbial community and that soil bacteria respond differently to cultivation years under greenhouse conditions. Thus, this study provides an insight into microbial community structure changes by pesticides under greenhouse systems and natural biodegradation may have an important part in pesticides soil decontamination.

The variation in microbial community structure under different heavy metal contamination levels in paddy soils

As a global pollution problem, heavy metal contamination poses a serious hazard to soil microorganisms which play an extremely important role in soil chemical cycling and ecological persistence. However, the effects that different levels of heavy metal contamination in soils have on microorganisms and the interactions between them are still unclear. The purpose of this research is to analyze the microbial structure under different levels of heavy metal contamination, find out heavy metal tolerant species under different environmental conditions, then provide useful reference for the bioremediation of contaminated farmland. In this study, 16s rRNA high-throughput sequencing technology was used to investigate the microbial communities in severe level (SL), moderate level (ML), light level (LL) and clean level (CL) of heavy metal contaminated soils, and the relationships between environment variables and microorganisms were analyzed. The results showed that the concentrations of heavy metals and soil physicochemical properties had various impacts on microbial community composition under different heavy metal contamination levels. Most dominant bacteria were in significant negative correlation with Cd in ML region, and significantly correlated with TN and OM in LL region. However, there was no significant correlation between dominant fungi and the physicochemical properties in LL region. And most of the dominant fungi were significantly correlated with the heavy metal concentrations in SL region. The bacterial phyla such as Proteobacteria, Acidobacteria and Bacteroidetes showed more tolerance with heavy metal contamination in SL, ML and LL regions, respectively. Meanwhile, the dominant fungi of Ascomycota, Basidiomycota, Chytridiomycota, Glomeromycota, Zygomycota and Rozellomycota showed stronger correlations with heavy metal contamination in SL and LL regions. These results indicated that some microorganisms had strong tolerance to heavy metal contamination and had certain heavy metals digestion ability, which can create an appropriate soil environment for the growth of food crops.

Long-Term Plastic Greenhouse Cultivation Changes Soil Microbial Community Structures: A Case Study

Plastic greenhouse vegetable cultivation (PGVC) has been widely developed around the world and has resulted in great changes in soil properties and potential contamination by phthalate esters (PAEs). Using high-throughput sequencing, this study investigated the succession and potential factors impacting soil microbial community structures over 20 years of PGVC. The results showed that the pH of soils under PGVC were significantly lower, while the nutrient contents of soils were higher, relative to those of open field soil. The residue concentrations of PAEs in soil under PGVC increased with increasing periods of PGVC. The fungal community diversity, rather than the bacterial community diversity, was significantly reduced in soils under PGVC. However, both the soil bacterial and fungal community structures were changed by long-term PGVC. Among the tested soil physicochemical properties, soil pH and clay were the top two factors affecting the soil bacterial community, while pH and phosphorus (P) mainly affected the soil fungal community structures. No relationship between the changes of microbial communities and PAE residues in soil was observed. This study indicates that the soil acidification and nutrient accumulation under PGVC mainly shifted the changes of soil microbial community structures, which could occur after only 5 years of PGVC.