Soil plastisphere interferes with soil bacterial community and their functions in the rhizosphere of pepper (Capsicum annuum L.).

With a growing number of research reports on microplastics (MPs), there is increasing concern regarding MPs-induced contamination in soil ecological systems. Notwithstanding, the interaction between the plastisphere and rhizosphere microbial hotspots in soil-plant systems, as well as the diversity and composition of plastisphere microbial communities in such systems, remain largely unexplored. This study evaluated the response of rhizosphere bacterial communities to MPs at three growth stages of pepper and examined the bacterial communities present on MPs (plastisphere). The 16 S rRNA revealed that, under the stress of MPs, the Chao1 and Shannon index of the pepper soil bacterial community decreased. Meanwhile the relative abundance of Actinobacteriota was decreased, and that of Proteobacteria was increased. Furthermore, the plastisphere serves as a unique microbial habitat (niche) that recruits the colonization of specific bacterial groups, including potential plastic-degrading bacteria and potential pathogens (e.g., Massilia and Pseudomonas). Simultaneously, the plastisphere recruits specific bacteria that may impact the rhizosphere soil bacterial communities, thus indirectly affecting plant growth. Functional prediction using PICRUSt2 revealed higher activity in the plastisphere for Metabolism of terpenoids and polyketides, Human diseases, and Xenobiotics biodegradation and metabolism. Notably, the human diseases metabolic pathway exhibited increased activity, suggesting potential ecological risks associated with pathogens. These results highlighted that the plastisphere serves as a unique microbial habitat (niche) in the soil ecological systems, recruiting specific bacteria and potentially interfering with the surrounding soil microbial community, thereby influencing the functional characteristics of the soil ecological systems.

[Effects of Biochar Application on Physicochemical Properties and Bacterial Communities of Microplastic-contaminated Calcareous Soil].

Microplastics are widely distributed in the soil environment, threatening the soil ecological environment system and changing soil physicochemical properties and microbial characteristics. Biochar is often used as a soil amendment to improve soil quality due to its special pore structure and good soil nutrient retention ability. However, the understanding of the effects and mechanisms of biochar application on the physicochemical properties and bacterial communities of microplastic-contaminated soils is still very limited. Therefore, a 21-day micro-soil culture experiment was conducted to analyze the effects of biochar application on physicochemical properties and bacterial community changes in soil contaminated with different concentrations of microplastics using 16S rRNA high-throughput sequencing technology. The results revealed that the application of biochar slowed down the decrease in nitrate nitrogen and Olsen-P contents in microplastic-contaminated soil and increased the total phosphorus content. Biochar addition increased the relative abundance of tolerant phylum such as Acidobacteriota, Actinobacteriota, and Bacteroidota in microplastic-contaminated calcareous soil. Proteobacteria, Acidobacteriota, and Actinobacteriota were the dominant bacteria of the soil bacterial community in each treatment on day 7 and day 21. Compared with that on day 7, the relative abundance of Proteobacteria and Firmicutes significantly decreased, and the relative abundance of Acidobacteriota, Actinobacteriota, Bacteroidota, Chloroflexi, and Myxococcota increased on day 21. Biochar application also increased the relative abundance of Lysobacter in microplastic-contaminated soils. This study demonstrated that the application of biochar increased microplastic-resistant bacteria, enhanced the stability of microplastic-contaminated soil, and slowed down the pollution of microplastics to the soil. Moreover, biochar had great potential to improve the quality of microplastic-contaminated calcareous soil.

An Improved Bibliometric Analysis on Antibiotics in Soil Research.

Antibiotic compounds can enter the environment and eventually into drinking water, when manure containing non-metabolized antibiotic residues is applied to agricultural land. In this study, the publication data was analyzed from the aspects of countries, subject categories and keywords during the period of 1946-2016 from Web of Science. The results indicated that, during the period of 2004-2016, the United States, followed by China, dominated the publication of antibiotics in soil. Three most representative subject categories were "Microbiology", "Environmental science and ecology" and "Chemistry". The most studied antibiotic was tetracycline. Antibiotic resistance bacteria (ARB) and antibiotic resistance genes (ARGs) with the fate and transport mechanisms such as degradation, adsorption and desorption were the hot research topics in this field. This study suggests that research on ARB, ARGs and antibiotics in soil should be paid more attention in the future research.

Influence of reductive soil disinfestation or biochar amendment on bacterial communities and their utilization of plant-derived carbon in the rhizosphere of tomato.

Root-associated microorganisms play an important role in plant nutrition and productivity. However, our understanding of how a plant-microbiome system responds to pre-planting soil management remains limited. Here, continuous labeling with 13CO2 gas combined with stable isotope probing (SIP) was applied to explore bacterial utilization of plant-derived carbon (C) in the tomato rhizosphere as affected by biochar amendment or reductive soil disinfestation (RSD). Our results showed that RSD treatment strongly shaped the soil bacterial community composition, while biochar soil amendment had little impact on the community in the rhizosphere of tomato. We observed that the bacterial community in the RSD treatment, which actively utilized plant-derived C, belonged to various phyla (i.e., Proteobacteria, Cyanobacteria, Verrucomicrobia, and Acidobacteria), while the genus Streptomyces (phylum Actinobacteria) was the main bacterial taxa that actively utilized plant-derived C in the biochar and control treatments. This study provides evidence that biochar application or RSD pre-planting soil management practices induced distinct bacterial utilization of plant-derived C, which may in turn regulate plant productivity in agricultural systems. KEY POINTS: • Genus Streptomyces was the main bacterial group utilizing plant-derived carbon in both control and biochar treatments. • Reductive soil disinfestation altered bacterial utilization of plant-derived carbon. • Biochar did not alter the composition of the bacterial communities but had more labeled bacterial taxa utilizing plant-derived carbon.

[Diversity of Soil Eukaryotic Microbes in Different Succession Stages in Maolan Karst Forest of Guizhou].

As an indispensable part of the Maolan karst forest soil microorganisms, eukaryotic microbes play an important role in ecosystem material and energy flow. To investigate the composition and diversity of soil eukaryotic microbial communities under different succession stages in the Maolan karst forest, we explored the diversity and composition of soil eukaryotic microbes under four succession stages of primary forests (YSL), shrub forests (GML), bushes (GMC), and grassland (CD) via high-throughput sequencing (HTS) of the 18S rDNA. The results showed that the composition of soil eukaryotic microbial communities was similar in different succession stages under different classification levels. There was a significant difference in α diversity, Shannon, and Simpson's indices at different stages of succession as follows: YSL > GMC > GML > CD. The non-metric multidimensional scaling analysis showed that there were differences in the soil eukaryotic microbial community structure at different succession stages. The linear discriminant analysis effect size (LEfSe) analysis showed that the number of differential indicator species in YSL was higher than in GML, GML, and CD. The results of our study provide a theoretical basis for further research on soil eukaryotic microorganisms in different succession stages.

Characteristics of Bacterial Community and Function in Paddy Soil Profile around Antimony Mine and Its Response to Antimony and Arsenic Contamination.

Research of bacterial communities and metabolism potential of paddy soils contaminated by antimony (Sb) and arsenic (As) are vital to acquire understanding for their bioremediation. Here, the relative abundance of Sb and As metabolism genes, the diversity and composition of the bacterial community, and the influences of geochemical properties and the bacterial community and metabolism potential have been researched by Tax4Fun2 prediction and high-throughput sequencing. LEfSe (linear discriminant analysis effect size) analysis shown different taxa were enriched in dissimilar soil layers. RDA (Redundancy analysis) and relative importance analysis indicated the main properties including total sulfur (TS), total organic carbon (TOC), pH, and the bioavailable fractions of Sb and As affects the bacterial community, which Sbrec, Astot, and Asrec had greater impact on the bacterial taxonomic community. For example, Asrec, Astot, and Sbrec had a positive correlation with Chloroflexi and Rokubacteria, but negatively correlated with Proteobacteria and Actinobacteria. Obtaining metabolic function genes by using the tax prediction method. RDA, relative importance analysis, and co-occurrence network analysis showed the geochemical properties and bacterial community affected Sb and As related bacterial functions. The partial least squares path model (PLS-PM) analysis indicated Sb and As contamination fractions had negative effects on ecological function, bacterial community structure had positive influences on ecological function, and the direct effects of geochemical properties on ecological function was greater than community structure. The direct impact of As contamination fractions on bacterial community structure was greater than Sb, while the direct impact of Sb contamination fractions on bacterial function was more remarkable than As. Obviously, this study provides a scientific basis for the potential of biochemical remediation of Sb and As contamination in paddy soils profile.

Biochar Amendment Stimulates Utilization of Plant-Derived Carbon by Soil Bacteria in an Intercropping System.

Plant-derived carbon (C) is considered fundamental to understand the interaction between rhizosphere microbes and plants in terrestrial ecosystems. Biochar soil amendment may enhance plant performance via changing soil properties or microbial diversity in the rhizosphere. However, our knowledge of how plant-microbiome associations respond to biochar amendment remains rather limited. Herein, 13CO2 steady-state labeling combined with DNA stable-isotope probing was used to characterize soil bacterial communities in the rhizosphere contributing to the utilization of plant-derived C. The diversity of bacteria active in the utilization of root exudates was determined after biochar amendment in a legume-based intercropping system (Vicia faba L., with Zea mays L.). The results showed the biochar application not only changed the bacterial community structure and diversity in the rhizosphere, but also altered bacterial members actively assimilating plant-derived C. There were more labeled species in the biochar-amended soils than the control soils. Compared with the control, the biochar amendment increased the relative abundances of Firmicutes and Bacteroidetes members (i.e., Bacillus, Clostridium, Sporomusa, Desulfosporosinus, and Alicyclobacillus) while decreasing the abundances of Proteobacteria members (e.g., Methylobacterium and Sphingomonas) utilizing plant-derived C. In contrast, slow-growing species of the phyla Acidobacteria, Planctomycetes, and Gemmatimonadetes were barely labeled. The bacteria found stimulated by the biochar amendment are known for their ability to fix nitrogen, solubilize phosphorus, or reduce iron and sulfur, which may potentially contribute to the "biochar effect" in the rhizosphere. This study is the first to provide empirical evidence that biochar amendment can alter the soil bacterial community assimilating plant-derived C; this may have consequences for nutrient cycling and improving plant performance in intercropping systems.

Prevalence of Antibiotic Resistance Genes in Air-Conditioning Systems in Hospitals, Farms, and Residences.

High-throughput quantitative PCR combined with Illumina sequencing and network analysis were used to characterize the antibiotic resistance gene (ARG) profiles in air-conditioning filters from different environments. In total, 177 ARGs comprising 10 ARG types were determined. The detectable numbers and the relative abundance of ARGs in hospitals and farms were significantly higher than those in city and village residences. Compared to hospitals, farms had a higher level of tetracycline, multidrug, integrase, and macrolide⁻lincosamide⁻streptogramin (MLS) B resistance genes but a lower level of beta-lactam resistance genes. The bl3_cpha gene was the most abundant resistance gene subtype in hospital samples with an abundance of 2.01 × 10-4 copies/16S rRNA, while a level of only 5.08 × 10-12 copies/16S rRNA was observed in farm samples. There was no significant difference in bacterial diversity among the hospitals, farms, and residences, and Proteobacteria was the most abundant phylum. Network analysis revealed that Proteobacteria and Actinobacteria were possible hosts of the beta-lactam, MLSB, aminoglycoside, multidrug, sulfonamide, and tetracycline resistance genes. The results demonstrate that ARGs exist in indoor environments and that farms and hospitals are important sources. This study provides a useful reference for understanding the distribution patterns and risk management of ARGs in indoor environments.

Dynamics of soil microbial communities following vegetation succession in a karst mountain ecosystem, Southwest China.

The interaction between soil property and soil microbial community in karst area still remains an open question. The characteristics of soil physicochemical properties and microbial community structure and their relationship under five vegetation succession stages (grassland, shrub land, secondary forest, plantation forest, and natural forest) at two soil depths (0-10 cm and 10-20 cm) were explored in a karst mountain ecosystem. We found that soil moisture content (SMC) and pH increased with soil depth across vegetation succession. The highest content of soil nutrients was found in the natural forest stage at both soil depths. The total PLFAs, the abundance of Gram-positive (GP) bacteria, actinomycetes (ACT), fungi, and arbuscular mycorrhizal fungi (AMF) were significantly (P < 0.05) related to variations with soil total carbon (TC) and total nitrogen (TN). Furthermore, the distribution of soil microbial community distinctly differed in vegetation succession both at two soil layers which was demonstrated by Principal-coordinates analysis. Redundancy analyses patterns indicated that soil TC and TN were positively related to cy19:0 and 10Me 16:0, but an opposite relationship with a15:0. Changes of soil microbial communities were significantly determined by vegetation succession, and soil microbial community structure can be a sensitive indicator to reflect the stabilization of karst mountain ecosystem, southwest of China.

Effect of Different Substrates on Soil Microbial Community Structure and the Mechanisms of Reductive Soil Disinfestation.

Reductive soil disinfestation (RSD) has recently attracted much attention owing to its effectiveness for controlling pathogens. In this study, we aimed to evaluate the effects of different C/N substrates on RSD and to explore the changes in microbial community structure during RSD treatment. The experimental set up included 10 groups, as follows: CK, without substrates; RSD treatments with alfalfa (Medicago sativa L.)[AL], maize (Zea mays Linn. Sp.) straw [MS], and rice (Oryza sativa L.) straw [RS], with three levels of addition (0.5% [L], 2% [M], and 5% [H]), yielding ALL, ALM, ALH, MSL, MSM, MSH, RSL, RSM, and RSH groups. Compared with CK, RSD treatments significantly increased the content of NH 4 + -N, and effectively eliminated the accumulated NO 3 - -N in the soil. The relative abundances of organic acid producers, including Clostridium, Coprococcus, and Oxobacter, in all RSD groups were significantly higher than those in the CK by day 21. Moreover, on day 21, Aspergillus and Fusarium in all RSD groups were significantly lower than those in the CK. In summary, RSD treatments clearly increased the relative abundances of organic acid generators and effectively inhibited pathogens; however, when the C/N was too low and the amount of addition too high, ammonia poisoning and rapid growth of some microorganisms (e.g., Pseudallescheria and Arthrographis) may occur.

Risk Assessment and Source Identification of Toxic Metals in the Agricultural Soil around a Pb/Zn Mining and Smelting Area in Southwest China.

Mining and smelting activities are the primary sources of toxic metal pollution in China. The purpose of this study was to investigate the pollution risk and identify sources of metals in the arable soil of a Zn/Pb mining and smelting district located in Huize, in Southwest China. Topsoil (346) and profile (three) samples were collected and analyzed to determine the total concentrations of eight toxic elements (Cd, Hg, As, Pb, Cr, Cu, Zn and Ni). The results showed that the mean Cd, Hg, As, Pb, Cr, Cu, Zn and Ni concentrations were 9.07, 0.37, 25.0, 512, 88.7, 239, 1761 and 90.3 mg/kg, respectively, all of which exceeded both the Huize and Yunnan soil background levels. Overall the topsoil was quite acidic, with a mean pH of 5.51. The mean geoaccumulation index (Igeo) revealed that the pollution level was in the order of Pb > Zn > Cd > Hg > As > Ni > Cu > Cr. The ecological risk index (Ei) indicated that there were serious contamination risks for Cd and Hg, high risk for Pb, moderate risk for As, and Cd and Hg were the dominant contributors to the high combined ecological risk index (Er) with a mean parameter of 699 meaning a serious ecological risk. The Nemerow pollution index (Pn) showed that 99.1% of soil samples were highly polluted or worse. Horizontally, high concentrations of Cd, Hg, As, Pb and Zn appeared in the north and middle of the study area, while Cr, Cu and Ni showed an opposite trend. Vertically, as the depth increased, Cd, Hg, As, Pb and Zn contents declined, but Cr, Cu and Ni exhibited an increasing trend. The mobilities of the metals were in the order of Zn > Cd > Hg > As > Pb. Horizontal and vertical distribution, coupled with correlation analysis, PCA and CA suggested that Cd, Hg, As, Pb and Zn mainly came from the anthropogenic sources, whereas Cr and Ni had a lithogenic origin. The source of Cu was a combination of the presence of parent materials as well as human activities. This study provides a base for the local government to control the toxic metal pollution and restore the soil environment system and an effective method to identify the sources of the studied pollutants.

Dynamics of soil microbial recovery from cropland to orchard along a 20-year chronosequence in a degraded karst ecosystem.

The 'Grain for Green' project (GGP) is the largest ecological rehabilitation project in China. A large body of croplands has been abandoned or converted to shrubs or grasslands since 1999. Soil microbes are recognized as sensitive responders of environmental changes, therefore, they are considered as a key component of ecological rehabilitation. However, very limited field experiments have been conducted to investigate the responses of soil microorganisms to restoration projects, especially in karst regions of China. In order to evaluate the response of soil microbial community to ecological restoration, we determined soil microbial community composition by means of qPCR, PLFAs, and high-throughput amplicon sequencing following conversion of cropland to Chinese prickly ash (Zanthoxylum bungeanum Maxim) orchard (CP) along a 20-year chronosequence in a degraded karst ecosystem. Our results showed that soil nutrient contents significantly increased following cropland to CP conversion. qPCR results showed that the highest bacterial abundance was found in the 20-year CP, but bacterial abundance decreased during the first 5-year land-use conversion. Conversion of cropland to CP strongly impacted soil microbial community composition, despite the cropland sites having a long cultivation history (>50 years). However, soil bacterial diversity remained unchanged within a 20-year land-use conversion. Actinobacteria, Proteobacteria, and Acidobacteria were the main bacterial phyla in all land-use sites. In particular, various members of Actinobacteria (e.g., Solirubrobacteraceae) tended to increase their relative abundances in responding to land-use conversion, which may imply that the shifts of soil microbial communities associated with recovering of ecological conditions. Overall, given the rapid yet differential response to ecological restoration, investigation of the belowground microbial community can provide an effective way of assessing ecological recovery of restoration projects in the karst region.

Dynamics of microbial biomass and community composition after short-term water status change in Chinese paddy soils.

Paddy soil experiences repeated anaerobic and aerobic changes during rice growth, the dramatic dynamics of soil water status accompanied by changes in redox condition and O2 availability. However, the effect of rapid water status change on soil microbial biomass and community composition is not well explored. Here, we present a comprehensive study focusing on the short-term water status change in 13 Chinese paddy soils. In order to gain a reliable way to determine soil microbial biomass carbon (MBC) in flooded or water-saturated soils, we also evaluated two different procedures (nitrogen bubbled and 100 °C water bath) to remove chloroform in extracts during the fumigation process. Compared to non-flooded paddy soils, the flooded paddy soils tended to have a lower microbial biomass, and this was much clearer using adenosine 5'-triphosphate (ATP) and phospholipid fatty acid (PLFA) analysis compared to biomass measured by the fumigation method. Fungal biomass, which was indicated by both ergosterol and the PLFA 18:2ω6,9c, also decreased after short-term flooding. Changes in soil microbial community composition (determined by PLFA biomarkers) were observed after short-term flooding, but the extent varied between soils. This study indicates that the dynamics of short-term water status altered the soil microbial biomass (ATP, MBC, and total PLFA) and community composition. Finally, our results suggested that liquid fumigation combined with the nitrogen-bubbled method is the best choice for analyzing MBC concentrations in water-saturated soils.

[Effects of Chinese prickly ash orchard on soil organic carbon mineralization and labile organic carbon in karst rocky desertification region of Guizhou province].

Taking 5-year-old Chinese prickly ash orchard (PO-5), 17-year-old Chinese prickly ash orchard (PO- 17), 30-year-old Chinese prickly ash orchard (PO-30) and the forest land (FL, about 60 years) in typical demonstration area of desertification control test in southwestern Guizhou as our research objects, the aim of this study using a batch incubation experiment was to research the mineralization characteristics of soil organic carbon and changes of the labile soil organic carbon contents at different depths (0-15 cm, 15-30 cm, and 30-50 cm). The results showed that: the cumulative mineralization amounts of soil organic carbon were in the order of 30-year-old Chinese prickly ash orchard, the forest land, 5-year-old Chinese prickly ash orchard and 17-year-old Chinese prickly ash orchard at corresponding depth. Distribution ratios of CO2-C cumulative mineralization amount to SOC contents were higher in Chinese prickly ash orchards than in forest land at each depth. Cultivation of Chinese prickly ash in long-term enhanced the mineralization of soil organic carbon, and decreased the stability of soil organic carbon. Readily oxidized carbon and particulate organic carbon in forest land soils were significantly more than those in Chinese prickly ash orchards at each depth (P < 0.05). With the increasing times of cultivation of Chinese prickly ash, the contents of readily oxidized carbon and particulate organic carbon first increased and then declined at 0-15 cm and 15-30 cm depth, respectively, but an opposite trend was found at 30-50 cm depth. At 0-15 cm and 15-30 cm, cultivation of Chinese prickly ash could be good for improving the contents of labile soil organic carbon in short term, but it was not conducive in long-term. In this study, we found that cultivation of Chinese prickly ash was beneficial for the accumulation of labile organic carbon at the 30-50 cm depth.

[Effects of land use and abandonment on soil labile organic carbon in the Karst region of southwest China].

Effects of land use and land abandonment on labile organic carbon (LOC) in whole soils and different aggregate sizes were studied by sampling analysis of the soils in some typical land uses of the Karst region, southwest China. Results showed that the content and degree of dispersion of labile organic carbon decreased with soil depth, and the content of LOC was highly significant (P < 0.01) in 0-10 cm than in 10-20 cm and 20-30 cm. In the 0-10 cm soil layer, the content of LOC distribution in different aggregates was higher in the < 0.25 mm size, while no obvious changes of LOC among aggregates were found in the 10-20 cm and 20-30 cm depths. In different land use patterns, the LOC was the highest in paddy whether in whole soils or aggregates, followed by shrub, and the lowest in abandoned 3 years grassland. Within-between principal component analysis showed that the accumulation characters between land use and LOC were in the order of paddy > shrub > abandoned 15 years grassland = dry land > abandoned 3 years grassland, the content of LOC increased by 20.3% as compared to dryland, and had reached 80% of the content of shrub in abandoned 15 years grassland at the 0-10 cm depth, indicating that at the early stage of land abandonment, the natural recovery of carbon is relatively slow, while with the abandonment time increase, the carbon sink effect gradually appear.

[Relationships between soil and rocky desertification in typical karst mountain area based on redundancy analysis].

Redundancy analysis (RDA) was employed to reveal the relationships between soil and rocky desertification through vegetation investigation and analysis of soil samples collected in typical karst mountain area of southwest Guizhou Province. The results showed that except TP, TK and ACa, all other variables including SOC, TN, MBC, ROC, DOC, available nutrients and basal respiration showed significant downward trends during the rocky desertification process. RDA results showed significant correlations between different types of desertification and soil variables, described as non-degraded > potential desertification > light desertification > moderate desertification > severe desertification. Moreover, RDA showed that using SOC, TN, AN, and BD as soil indicators, 74.4% of the variance information on soil and rocky desertification could be explained. Furthermore, the results of correlation analysis showed that soil variables were significantly affected by surface vegetation. Considering the ecological function of the aboveground vegetation and the soil quality, Zanthoxylum would be a good choice for restoration of local vegetation in karst mountain area.

[Variation of soil organic carbon under different vegetation types in Karst Mountain areas of Guizhou Province, southwest China].

This paper studied the variation characteristics of soil organic carbon (SOC) and different particle sizes soil particulate organic carbon (POC) in normal soil and in micro-habitats under different vegetation types in typical Karst mountain areas of southwest Guizhou. Under different vegetation types, the SOC content in normal soil and in micro-habitats was all in the order of bare land < grass < shrub < forest, with the variation range being 7.18-43.42 g x kg(-1) in normal soil and being 6.62-46.47 g x kg(-1) and 9.01-52.07 g x kg(-1) in earth surface and stone pit, respectively. The POC/MOC (mineral-associated organic carbon) ratio under different vegetation types was in the order of bare land < grass < forest < shrub. Under the same vegetation types, the POC/MOC in stone pit was the highest, as compared to that in normal soil and in earth surface. In the process of bare land-grass-shrub-forest, the contents of different particle sizes soil POC increased, while the SOC mainly existed in the forms of sand- and silt organic carbon, indicating that in Karst region, soil carbon sequestration and SOC stability were weak, soil was easily subjected to outside interference and led to organic carbon running off, and thus, soil quality had the risk of decline or degradation.