Effects of petroleum contamination on soil metal(loid)s and microbial communities.

Microbial Biomass and PLFA Profile Changes in Rhizosphere of Pakchoi (Brassica chinensis L.) as Affected by External Cadmium Loading

For an alkaline–saline region in Northwest China, we examined the responses of soil microbial communities to flue gas desulfurization gypsum by-products (FGDB), a new ameliorant for alkaline–saline soils. In 2009 and 2010, we collected soils from 0–20 cm and 20–40 cm depths along an experimental FGDB gradient (0, 0.74, 1.49, 2.25, and 3.00 kg FGDB m−2). As a measure of microbial community composition and biomass, we analyzed phospholipid fatty acids (PLFAs). We used real-time quantitative polymerase chain reaction (qPCR) to measure abundance of bacterial 16 S rRNA copy numbers. Additionally, physicochemical soil parameters were measured by common laboratory methods. Microbial community composition differed along the FGDB gradient; however, the microbial parameters did not follow a linear response. We found that, in 2009, total PLFA concentrations, and concentrations of total bacterial and Gram-negative bacterial PLFAs were slightly higher at intermediate FGDB concentrations. In 2010, total PLFA concentrations, and concentrations of total bacterial, Gram-positive bacterial, Gram-negative bacterial, and fungal PLFAs as well as the fungal:bacterial PLFA ratio were highest at 1.49 kg FGDB m−2 and 3.00 kg FGDB m−2. PLFA concentrations often differed between 2009 and 2010; however, the patterns varied across the gradient and across microbial groups. For both years, PLFA concentrations were generally higher at 0–20 cm depth than at 20–40 cm depth. Similar results were obtained for the 16 S rRNA copy numbers of bacteria at 0–20 cm depth. FGDB addition resulted in an increase in soil Ca2+ and NO 3 − –N and a decrease in pH and electrical conductivity (EC). Shifts in PLFA-based microbial community composition and biomass could partly be explained by pH, soil organic carbon, total nitrogen (TN), soil moisture, EC, inorganic nitrogen, C/N, and Ca2+. Indirect effects via shifts in abiotic soil properties, therefore, seem to be an important pathway through which FGDB affect soil microbial communities. Our results demonstrate that addition of FGDB leads to significant changes in soil physicochemical and microbial parameters. As such, addition of FGDB can have large impacts on the functioning of soil ecosystems, such as carbon and nitrogen cycling processes.

Responses of soil microbial biomass and community composition to biological soil crusts in the revegetated areas of the Tengger Desert

Minimum tillage and residue retention increase soil microbial population size and diversity: Implications for conservation tillage.

Consistent effects of nitrogen addition on soil microbial communities across three successional stages in tropical forest ecosystems

Apple orchard surface soils in Japan are polluted with copper (Cu), lead (Pb), and arsenic (As) due to long-term use of metal-based pesticides. We investigated the effects of heavy metals accumulated in the surface soils in apple orchards on the microbial biomass and the microbial communities. Soil samples were taken from a chestnut orchard (unpolluted control) and five apple orchards with different degrees of heavy metal pollution. Total concentrations of Cu, Pb, and As in soil ranged from 29 to 931 mg/kg, 35 to 771 mg/kg, and 11 to 198 mg/kg, respectively. The amount of microbial biomass carbon expressed on a soil organic carbon basis decreased with increasing concentrations of heavy metals. Thus, the heavy metals that accumulated in apple orchard surface soils had adverse effects on the soil microbial biomass. The analysis of phospholipid fatty acid (PLFA) composition indicated that the microbial community structure had changed because of the pesticide-derived heavy metals in soil. The relative abundance of gram-positive bacterial marker PLFAs increased and that of fungal marker PLFA decreased with increasing concentrations of heavy metals in soil. Denaturing gradient gel electrophoreses targeting the 16S ribosomal RNA gene of bacteria and the 18S ribosomal RNA gene of fungi also showed shifts in the composition of bacterial and fungal communities induced by soil pollution with heavy metals. However, the diversity of microbial communities was not significantly affected by the heavy metal pollution. This was attributable to the adaptation of the microbial communities in apple orchard surface soils to heavy metals derived from previously used pesticides.

Summary The effects of past applications of farmyard manure (FYM, applied from 1942 to 1967), metal‐contaminated sewage sludge (applied from 1942 to 1961) and mineral fertilizer (NPK, applied from 1942 until now) on the microbial biomass and community structure in a sandy loam, arable soil from the Woburn Market Garden Experiment, UK, were investigated in 1998. Concentrations of Cu, Ni and Zn in soils which previously received sewage sludge were less than current European Union (EU) limits, but the soil Cd concentration was more than twice the permitted limit. Organic‐C concentration in the FYM‐treated soil and contaminated soils was about twice that of NPK‐treated soil. The initial microbial biomass‐C and estimates of total bacterial numbers by acridine orange direct count were significantly ( P < 0.05) greater in the FYM‐treated soil compared with the NPK‐treated and the most contaminated soils. Total phospholipid fatty acid (PLFA) concentration (another measure of biomass) was significantly greater in the FYM‐treated soil compared with either the low or high metal‐contaminated soils, both of which contained similar PLFA concentrations. In the metal‐contaminated soils, in contrast, fluorescent Pseudomonas counts, as a percentage of total plate counts, were at least 1.5 times greater than in the uncontaminated soils. The concentrations of these microbial parameters were significantly ( P < 0.05) less in the NPK soil than in all the other treatments. Biomass‐C as a percentage of organic‐C was also significantly ( P < 0.05) greater in the uncontaminated soils compared with the metal‐contaminated soils. Biomass specific respiration rates in the metal‐contaminated soils were c. 1.5 times those in the FYM‐treated soil. In the metal‐contaminated soils, the concentration of mono‐unsaturated and hydroxy‐fatty acids (derived from phospholipids), and lipopolysaccharide hydroxy‐fatty acids (all indicative of Gram‐negative bacteria) were significantly ( P < 0.05) greater than branched fatty acids (indicative of Gram‐positive bacteria). Furthermore, Gram‐negative counts were 62–68% greater than Gram‐positive counts in the metal‐contaminated soils. Branched fatty acid concentration was significantly ( P < 0.05) greater in the FYM‐treated soil than in the metal‐contaminated soils. Gram‐positive counts were also 63% greater than Gram‐negative counts in the FYM‐treated soil. We found that effects of the relatively small heavy metal concentration caused measurable decreases in soil microbial biomass‐C concentrations, acridine orange direct counts and Gram‐positive counts. There were also increases in biomass specific respiration rates, and the microbial community had changed substantially, nearly 40 years after the metal inputs ceased. We conclude that, at the very least, the current EU permitted limits for heavy metals in agricultural soils should not be relaxed.

Soil property and management effects on grassland microbial communities across a latitudinal gradient in Germany

油田区多环芳烃污染盐碱土壤活性微生物群落结构解析

Humic acid (HA) is considered a promising soil amendment for improving soil fertility. However, the effects of HA application on the microbial community, especially in aeolian sandy soils of semi-arid regions, remain insufficiently elucidated. To address this gap, a field experiment was conducted to investigate the changes in soil properties, bacterial and fungal diversity, and community structure in a buckwheat field in the fourth year after a single application of lignite humic acid (L-HA) at 0 (L-HA0), 2 (L-HA1), 4 (L-HA2), and 6 (L-HA3) ton·ha−1 in an aeolian sandy soil in Inner Mongolia, China. The results demonstrated that four years after L-HA application, there was a significant (p < 0.05) decrease in soil pH, accompanied by an increase in soil water content and nutrient levels, including organic matter and total N, available P, and K. Additionally, the application of L-HA enhanced microbial biomass C and N and stimulated enzyme activities, such as urease and invertase, with these effects being more pronounced at higher application rates (L-HA2 and L-HA3). However, HA addition did not significantly (p < 0.05) affect soil microbial biomass P or alkaline phosphatase activity. The L-HA amendment enhanced the α-diversity indices of soil bacteria but did not significantly (p < 0.05) affect soil fungal diversity. The addition of L-HA induced significant changes in the composition of the soil microbial community at both the phylum and genus levels, with significant variability in microbial responses observed across the different L-HA application rates. The incorporation of L-HA notably enriched the composition of bacterial and fungal communities at the phylum level, particularly those involved in carbon cycling, including the bacterial phyla Proteobacteria and Actinobacteriota and the fungal phyla Ascomycota and Rozellomycota. At the genus level, higher L-HA application rates, specifically L-HA2 and L-HA3, exerted statistically significant (p < 0.05) effects on most bacterial and fungal genera. Specifically, these treatments increased the abundance of bacterial genera, such as Rokubacterium and fungal genera, including Plectosphaerella, Tausonia, Talaromyces, and Clonostachys. Conversely, the relative abundance of the bacterial genera Vicinamibacter and Subgroup_7, as well as the fungal genus Niesslia, was significantly reduced. Redundancy analysis (RDA) indicated that bacterial community compositions were closely associated with soil parameters, such as available P (AP), microbial biomass carbon (SMC), microbial biomass nitrogen (SMN), microbial biomass phosphorus (SMP), and invertase, while all tested soil parameters, except for alkaline phosphatase, significantly influenced the fungal community structure. Given that the changes in these soil parameters were highly correlated with the amounts of L-HA addition, this suggests that the impacts of long-term L-HA amendment on the soil bacterial and fungal communities were linked to alterations in soil physicochemical and biological properties.

Substrate inputs and pH as factors controlling microbial biomass, activity and community structure in an arable soil

Chlorimuron-ethyl and atrazine are two herbicides with long half-lives in soil; their long-term and excessive application has led to a series of environmental problems. In this study, the strains Chenggangzhangella methanolivorans CHL1 and Arthrobacter sp. ART1 were combined and used for the remediation of chlorimuron-ethyl, atrazine and combined contaminated soils in a microcosm experiment. Changes in chlorimuron-ethyl and atrazine concentrations in soils were monitored, and variations in the soil microbial community were studied by phospholipid fatty acid (PLFA) analysis. The two inoculated degrading strains accelerated the degradation of chlorimuron-ethyl and atrazine in soil, especially in the combined contaminated soil. Addition of the two herbicides and their combination generally decreased the concentrations of total PLFAs, total bacterial PLFAs, Gram-negative and Gram-positive bacterial PLFAs and Shannon-Wiener indices, and changed microbial community composition, whilst stimulating fungal PLFA concentrations. In addition, the combined herbicide treatment had more impact on microbial biomass than the single herbicide treatments. Inoculation treatments significantly relieved the effects of herbicides on soil microbial biomass, diversity and community structure. This study demonstrated that strains CHL1 and ATR1 have the potential to remediate chlorimuron-ethyl, atrazine and combined contaminated soils, and provided valuable information for remediation of chlorimuron-ethyl, atrazine and combined contaminated soils in situ.

Linkages between ecoenzymatic stoichiometry and microbial community structure under long-term fertilization in paddy soil: A case study in China

Microbial biomass, activity, and community structure in horticultural soils under conventional and organic management strategies

Biochar modulates heavy metal toxicity and improves microbial carbon use efficiency in soil