Enhanced <Emphasis Type="Italic">Scirpus triqueter</Emphasis> phytoremediation of pyrene and lead co-contaminated soil with alkyl polyglucoside and nitrilotriacetic acid combined application

Purpose

This study aimed to evaluate the effect of combination of alkyl polyglucoside (APG) and nitrilotriacetic acid (NTA) on improving the efficiency of phytoremediation for pyrene and lead (Pb) co-contaminated soil by Scirpus triqueter.

Materials and methods

Seedlings of S. triqueter with a similar size and biomass (3 g/pot) were grown on 2-month aged soil contaminated with 184.5 mg kg^?1of pyrene and 454.3 mg kg^?1 of Pb at pH?=?8.3. After growth for 10 days, different doses of APG and NTA were added into the soil. After 60 days, the height of plants, Pb concentrations in plants, and pyrene amounts in soil were determined.

Results and discussion

Combined application of NTA and APG with lower dosage (1 + 1 g kg^?1 soil and 1 + 2 g kg^?1 soil) had no notable negative influence on the growth of S. triqueter. Moreover, significant synergy on Pb accumulation in S. triqueter was achieved with APG and NTA combined application. Besides, the dissipation of pyrene from soil after 60-day planting was increased in APG and NTA treatments when compared with the control treatments. Application of APG alone or combined with NTA had greater effect on enhancing dissipation of pyrene from soil than NTA alone.

Conclusions

This study demonstrated that the remediation of Pb and pyrene co-contaminated soil by S. triqueter can be enhanced by combined application of APG and NTA. Long-term evaluation of this strategy is needed in co-contaminated field sites.

     

Manganese (II) Removal from Aqueous Solutions by <Emphasis Type="Italic">Bacillus cereus</Emphasis>: an Optimization Study Using Experimental Design and Response Surface Methodology

The present study was carried out in order to investigate the removal of soluble Mn²⁺ from an aqueous solution using Bacillus cereus. A manganese aqueous solution at 50 mg L^?1 was treated, and the product was less than 1 mg L^?1 of residual concentration, which complied with environmental regulations. Before the optimization, B. cereus was able to remove Mn²⁺ ions from an aqueous solution; however, the residual content was around 2.5 mg L^?1. Screening experiments aiming at defining the effects of the growth medium composition indicated that both casamino acid-peptone and yeast extract contributed to manganese removal. These experiments also showed the interaction between these two components of the culture media, nevertheless the use of glucose did not prove significant. Considering these observations, the Doehlert design was used to generate a response surface. The model was significant with the p value lower than 0.05 and the lack-of-fit not significant (p > 0.05). The optimized composition of the growth medium was defined as 0.5 g L^?1 of casamino acid-peptone and 0.25 g L^?1 of yeast extract, whereas glucose could be removed from the original growth medium. When the optimized condition of the growth medium was used, the time required for manganese removal was reduced from 21 to 8 days. After optimization, B. cereus was capable of producing high manganese removal, reducing the residual concentration to levels below 1.0 mg L^?1.     

Enhanced dissipation of DEHP in soil and simultaneously reduced bioaccumulation of DEHP in vegetable using bioaugmentation with exogenous bacteria

The widely used plastic film containing di(2-ethylhexyl) phthalate (DEHP) in agriculture has caused serious soil pollution and poses risks to human health through the food chain. An effective DEHP degradation bacteria, Microbacterium sp. J-1, was newly isolated from landfill soil. Response surface methodology was successfully employed for optimization resulting in 96% degradation of DEHP (200 mg L^?1) within 5 days. This strain degraded DEHP by hydrolysis of the ester bond and hydroxylation of the aromatic ring to form 2-ethyl hexanol, mono-(2-ethylhexyl) phthalate, phthalate acid, and protocatechuic acid, and subsequently transformed these compounds with a maximum specific degradation rate (q _max), half-saturation constant (K _s ), and inhibition constant (K _i ) of 1.46 day^?1, 180.2 mg L^?1, and 332.8 mg L^?1, respectively. Bioaugmentation of DEHP-contaminated soils with the strain J-1 greatly enhanced the DEHP dissipation rate (~88%). Moreover, this strain could efficiently colonize the rhizosphere soil of inoculated vegetables and further enhanced DEHP degradation (~97%), leading to a significant decrease (>70%) in DEHP accumulation in shoots and roots of the inoculated vegetables compared to uninoculated vegetables. The results highlighted the roles of the inoculated exogenous bacteria in simultaneously bioremediating contaminated soils and reducing bioaccumulation of DEHP in the edible part of the vegetable for food safety.     

An overlooked nitrogen loss linked to anaerobic ammonium oxidation in estuarine sediments in China

Purpose

Despite its importance, anammox (anaerobic ammonium oxidation) in estuarine sediment systems remains poorly understood, particularly at the continental scale. This study aimed to understand the abundance, diversity, and activity of anammox bacteria and to determine the main factors influencing the anammox process in estuarine sediments in China.

Materials and methods

Estuarine sediments were collected from 18 estuaries spanning over 4000 km. Experiments using an ¹⁵ N–tracer, quantitative PCR, and clone library construction were used to determine the activity, abundance, and diversity of anammox bacteria. The impact of environmental factors on anammox processes was also determined.

Results and discussion

The abundance of the anammox-specific hydrazine synthase (hzsB) gene ranged from 1.8 × 10⁵ ± 3.4 × 10⁴ to 3.6 × 10⁸ ± 7.5 × 10⁷ copies g^?1 dw. Candidatus Scalindua, Brocadia, Kuenenia, Jettenia, and two novel unidentified clusters were detected, with Scalindua dominating the anammox population. Additionally, the abundances of Scalindua, Kuenenia, and Brocadia were found to be significantly correlated with latitude. The anammox rates ranged from 0.29 ± 0.15 to 13.68 ± 3.98 nmol N g^?1 dw h^?1 and contributed to 2.39–82.61% of total N₂ production. Pearson correlation analysis revealed that the anammox rate was positively correlated with total nitrogen, total carbon, and temperature, and was negatively correlated with dissolved oxygen (DO). The key factors influencing the hzsB gene abundance were ammonium concentration, salinity, and DO. Ammonium concentration, pH, temperature, and latitude were main variables shaping the anammox-associated bacterial community.

Conclusions

Our results suggested that anammox bacteria are ubiquitous in coastal estuaries in China and underline the importance of anammox resulting in N loss at a continental scale.

     

Enrichment of functional microbes and genes during pyrene degradation in two different soils

Purpose

Stimulating microbial degradation is a promising strategy for the remediation of soils contaminated with polycyclic aromatic hydrocarbons (PAHs). To better understand the functional microbial populations and processes involved in pyrene biodegradation in situ, the dynamics of pyrene degradation and functional microbial abundance were monitored during pyrene incubation in soils. We hope our findings will provide new insights into in situ pyrene biodegradation in soils and help to identify functional microbes from soils.

Materials and methods

Pyrene (60 mg kg^?1) was incubated with two different soils, one is lower PAH-containing agricultural soil (LS), and the other is higher PAH-containing industrial soil (HS). During incubation, triplicate samples were collected on days 0, 3, 7, 14, and 35. Pyrene in soil samples was analyzed using an Agilent gas chromatograph (7890A) equipped with a mass-selective detector (model 5897). DNA in soils was extracted with a FastDNA Spin kit for soil (Bio101, USA). The abundance of functional microbes and genes was monitored by a Taqman or SYBR Green based real-time PCR quantification using an iCycler iQ5 themocycler (Bio-Rad, USA). The diversity of PAH-RHDα GP genes was evaluated by constructing clone libraries and sequencing.

Results and discussion

In both soils, more than 80 % of the added pyrene was degraded within 35 days. After 35-day incubation, there was a significant enrichment of Gram-positive bacteria harboring PAH-ring hydroxylation dioxygenase (PAH-RHD_α GP) genes, and the abundance of Mycobacterium increased significantly. In PAH-RHD_α GP clone libraries from two soils, Mycobacterium was detected, while most sequences were closely related to uncultured Gram-positive bacteria. In addition, two pyrene catabolic pathways might be involved in pyrene degradation, as pyrene dioxygenase genes, nidA and nidA3, were dramatically enriched during incubation. Moreover, the abundance and diversity of potential degraders in two soils showed significantly difference in responding to pyrene stress. This result indicates that soil condition can significantly affect functional microbial populations and biological process for pyrene biodegradation.

Conclusions

These results revealed that Mycobacterium as well as uncultured Gram-positive PAH-RHD_α genotypes may be the important group of pyrene degraders in soils, and two pyrene catabolic pathways, targeted by nidA and nidA3, might potentially contribute to in situ biodegradation of pyrene. This study characterized the response pattern of potential pyrene degraders to pyrene stress in two different soils, which would increase our understanding of the indigenous processes of pyrene biodegradation in soil environment.

     

Dominant Characteristics Between <Emphasis Type="Italic">Microcystis aeruginosa</Emphasis> and <Emphasis Type="Italic">Cyclotella</Emphasis> Sp. Accompanying Dilution Process in Eutrophic Lake

Although dilution of lake water has been used for improvement of water quality and algal blooms control, it has not necessarily succeeded to suppress the blooms. We hypothesized that the disappearance of algal blooms by dilution could be explained by flow regime, nutrient concentrations, and their interaction. This study investigated the effects of daily renewal rate (d), nitrogen (N) and phosphorus (P) concentration, and their interaction on the domination between Microcystis aeruginosa and Cyclotella sp. through a monoxenic culture experiment. The simulation model as functions of the N:P mass ratio and dilution rate (D) (calculated from d) was constructed, and the dominant characteristics of both species were predicted based on the model using parameters obtained in a monoculture experiment and our previous study. Results of monoxenic culture experiment revealed that M. aeruginosa dominated in all conditions (d = 5 or 15%; N = 1.0 or 2.5 or 5.0 mg-N L^?1; P = 0.1 or 0.5 mg-P L^?1) and the predicted cell densities were substantially correspondent to experimental data. Under various N:P ratios and D values, characteristics of domination for each species were predicted, indicating that Cyclotella sp. tended to be dominant under high P concentrations (P ≥ 0.36 mg-P L^?1) when the N:P ratio was less than 7.0, and M. aeruginosa could not form algal blooms at the N:P ratio ≤ 7.0 (N ≤ 0.7 mg-N L^?1). It was also suggested that the dilution rate leading to the Cyclotella sp. domination required 0.20 day^?1 or higher regardless of the N:P ratios.

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Graphical Abstract ? M. aeruginosa and Cyclotella sp. could be a superior competitor in nutrient-limited and nutrient-rich conditions, respectively. ? The simulation model in this study indicated that the predicted cell density and nutrient concentration were substantially correspondent to experimental data. ? The model predicted that Cyclotella sp. tended to be dominant at the P ≥ 0.36 mg-P L^?1 when the N:P ratio was less than 7.0, and M. aeruginosa could not form algal blooms at the N:P ratio ≤ 7.0 (N ≤ 0.7 mg-N L^?1).

     

Concentrations and Exports of Fecal Indicator Bacteria in Watersheds with Varying Densities of Onsite Wastewater Systems

The research goal was to determine if onsite wastewater system (OWS) density had an influence on the concentrations and watershed exports of Escherichia coli and enterococci in urbanizing watersheds. Eight watersheds with OWS densities ranging from <?0.1 to 1.88 systems ha^?1 plus a watershed served by sewer (Sewer) and a mostly forested, natural watershed (Natural) in the Piedmont of North Carolina served as the study locations. Stream samples were collected approximately monthly during baseflow conditions between January 2015 and December 2016 (n?=?21). Median concentrations of E. coli (2014 most probable number (MPN) 100 mL^?1) and enterococci (168 MPN 100 mL^?1) were elevated in streams draining watersheds with a high density of OWS (>?0.77 system ha^?1) relative to watersheds with a low (<?0.77 system ha^?1) density (E. coli: 204 MPN 100 mL^?1 and enterococci: 88 MPN 100 mL^?1) and control watersheds (Natural: E. coli: 355 MPN 100 mL^?1 and enterococci: 62 MPN 100 mL^?1; Sewer: 177 MPN 100 mL^?1 and 130 MPN 100 mL^?1). Samples collected from watersheds with a high density of OWS had E. coli and enterococci concentrations that exceeded recommended thresholds 88 and 57% of times sampled, respectively. Results show that stream E. coli and enterococci concentrations and exports are influenced by the density of OWS in urbanizing watersheds. Cost share programs to help finance OWS repairs and maintenance are suggested to help improve water quality in watersheds with OWS.     

Chemical Behavior of U(VI) in the Presence of Soil Components

Soil components from different environments (forest (OF), semiarid (SZ), and sand (AS)) were separated from fulvic and humic substances, characterized by DRX, EDS(SEM), and zero-charge points were determined. The sorption of U(VI) by these materials was determined considering contact time, concentration of U(VI), pH, ionic strength, and presence of sodium chloride and humic acids. The time to reach the kinetic sorption equilibrium was ca. 1 min for the components of the SZ and AS soils, whereas those from OF required longer times. The zero-charge points of the materials indicate that in the experimental conditions, the surfaces of the materials are positively charged, as are uranyl ions. The sorption kinetic data were well fitted to the pseudo-second-order model, which indicates chemical sorption. The maximum sorption capacities for U(VI) obtained from data fitted to the Langmuir model of OF and SZ were 49 and 19.8 mg g^?1 respectively. Sorption isotherm data for AS were best fitted to the Freundlich model (q_e?=?5.4 mg g^?1). The maximum values of distribution coefficients (K_d) were 23?±?7 L kg^?1, 545?±?64 L kg^?1, and 1178?±?229 L kg^?1 for AS, SZ, and OF, respectively; these values may depend on pH, contact time, initial concentration of U(VI), and the composition of the materials. Sodium chloride in the aqueous solutions affects U(VI) sorption by the materials SZ and AS. The effect of humic acids depends on pH, only in acid media soluble humate complexes may be formed.     

<Emphasis Type="Italic">Trichoderma</Emphasis> improves the growth of <Emphasis Type="Italic">Leymus chinensis</Emphasis>

Bio-fertilizer application has been proposed as a strategy for enhancing soil fertility, regulating soil microflora composition, and improving crop yields, and it has been widely applied in the agricultural yields. However, the application of bio-fertilizer in grassland has been poorly studied. We conducted in situ and pot experiments to investigate the practical effects of different fertilization regimes on Leymus chinensis growth, with a focus on the potential microecological mechanisms underlying the responses of soil microbial composition. L. chinensis biomass was significantly (P?<?0.05) increased by treatment with 6000 kg ha^?1 of Trichoderma bio-fertilizer compared with other treatments. We found a positive (R² =?0.6274, P <?0.001) correlation between bacterial alpha diversity and L. chinensis biomass. Hierarchical cluster analysis and nonmetric multidimensional scaling (NMDS) revealed that soil bacterial and fungal community compositions were all separated according to the fertilization regime used. The relative abundance of the most beneficial genera in bio-fertilizer (BOF) (6000 kg ha^?1Trichoderma bio-fertilizer) was significantly higher than in organic fertilizer (OF) (6000 kg ha^?1 organic fertilizer) or in CK (non-amend fertilizer), there the potential pathogenic genera were reduced. There were significant negative (P?<?0.05) correlations between L. chinensis biomass and the relative abundance of several potential pathogenic genera. However, the relative abundance of most beneficial genera were significantly (P?<?0.05) positively correlated with L. chinensis biomass. Soil properties had different effects on these beneficial and on these pathogenic genera, further influencing L. chinensis biomass.     

Effect of Cadmium Stress on Growth and Electrical Impedance Spectroscopy Parameters of <Emphasis Type="Italic">Cotinus coggygria</Emphasis> Roots

The use of plants for ecological remediation is an important method of controlling heavy metals in polluted land. Cotinus coggygria is a landscape plant that is used extensively in landscaping and afforestation. In this study, the cadmium tolerance level of C. coggygria was evaluated using electrical impedance spectroscopy (EIS) to lay a theoretical foundation for broad applications of this species in Cd-polluted areas and provide theoretical support to broaden the application range of the EIS technique. Two-year-old potted seedlings of C. coggygria were placed in a greenhouse to analyse the changes in the growth, water content and EIS parameters of the roots following treatment with different Cd concentrations (50, 100, 200, 500, 1000 and 1500 mg kg^?1), and soil without added Cd was used as the control. The roots grew well following Cd treatments of 50 and 100 mg kg^?1. The Cd contents increased with the increase in Cd concentration in the soil. However, the lowest root Cd content was found at 4 months of treatment. The extracellular resistance r_e and the intracellular resistance r_i increased first overall and then decreased with the increasing Cd concentration, and both parameters increased with a longer treatment duration. The water content had a significant negative correlation with the Cd content (P?<?0.01) and the r_e (P?<?0.05). C. coggygria could tolerate a soil Cd concentration of 100 mg kg^?1. There was a turning point in the growth, water content and EIS parameters of the C. coggygria roots when the soil Cd concentration reached 200 mg kg^?1. The root water content and r_e could reflect the level of Cd tolerance in C. coggygria.     

Effect of Metals on Decolorization of Reactive Blue HERD by <Emphasis Type="Italic">Comamonas</Emphasis> sp. UVS

Comamonas sp. UVS was able to decolorize Reactive Blue HERD (RBHERD) dye (50 mg L^?1) within 6 h under static condition. The maximum dye concentration degraded was 1,200 mg L^?1 within 210 h. A numerical simulation with the model gives an optimal value of 35.71?±?0.696 mg dye g^?1 cell h^?1 for maximum rate (V_max) and 112.35?±?0.34 mg L^?1 for the Michaelis constant (K_m). Comamonas sp. UVS has capability of decolorization of RBHERD in the presence of Mg²⁺, Ca²⁺, Cd²⁺, and Zn²⁺, whereas decolorization was completely inhibited by Cu²⁺. Metal ions also affected the levels of biotransformation enzymes during decolorization of RBHERD. Comamonas sp. UVS was also able to decolorize textile effluent with significant reduction in COD. The biodegradation of RBHERD dye was monitored by UV–vis spectroscopy, FTIR spectroscopy, and HPLC.     

Changes in methane emission and methanogenic and methanotrophic communities in restored wetland with introduction of <Emphasis Type="Italic">Alnus trabeculosa</Emphasis>

Purpose

The dynamics and uncertainties in wetland methane budgets affected by the introduction of Alnus trabeculosa H. necessitate research on production of methane by methanogenic archaea and consumption by methane-oxidizing microorganisms simultaneously.

Materials and methods

This study investigated methane emission in situ by the closed chamber method, and methanogenic and methanotrophic communities using denatured gradient gel electrophoresis (DGGE) and quantitative PCR based on mcrA (methyl coenzyme M reductase), pmoA (particulate methane monooxygenase) genes in the rhizosphere and non-rhizosphere soils in the indigenous pure Phragmites australis T., and A. trabeculosa–P. australis mixed communities in Chongxi wetland.

Results and discussion

Methane flux rate from the pure P. australis community was 2.4 times larger than that of A. trabeculosa–P. australis mixed community in the rhizosphere and 1.7 times larger in the non-rhizosphere, respectively. The abundance of methanogens was lower in the mixed community soils (3.56?×?10³–6.90?×?10³ copies g^?1 dry soil) compared with the P. australis community (1.47?×?10⁴–1.89?×?10⁴ copies g^?1 dry soil), whereas the methanotrophs showed an opposite trend (2.08?×?10⁶–1.39?×?10⁶ copies g^?1 dry soil for P. australis and 6.20?×?10⁶–1.99?×?10⁶ copies g^?1 dry soil for mixed community soil). A liner relationship between methane emission rates against pmoA/mcrA ratios (R ²?=?0.5818, p?<?0.05, n?=?15) was observed. The community structures of the methane-cycling microorganism based on mcrA and pmoA suggested that acetoclastic methanogens belonging to Methanosarcinaceae and a particular type II methanotroph, Methylocystis, were dominant in these two plant communities.

Conclusions

The introduction of A. trabeculosa would promote the proliferation of methanotrophs, especially the dominant Methylocystis, but not methanogens, ultimately diminishing methane emission in the wetland.

     

Evaluation of Mercury,Lead, Arsenic,and Cadmium in Some Species of Fish in the Atrato River Delta,Gulf of Urabá, Colombian Caribbean

The concentrations of mercury, lead, cadmium, and arsenic were evaluated in 96 samples, 12 by each one of the following eight fish species: snook (Centropomus undecimalis), crevalle jack (Caranx hippos), Serra Spanish mackerel (Scomberomorus brasiliensis), southern red snapper (Lutjanus purpureus), blue runner (Caranx crysos), Atlantic tarpon (Megalops atlanticus), ladyfish (Elops saurus), and Atlantic goliath grouper (Epinephelus itajara), which were collected during 1 year in the Atrato River Delta in the Gulf of Urabá, Colombian Caribbean. Three fish were caught from each of the following sites the community usually uses to catch them (known as fishing grounds): Bahía Candelaria, Bahía Marirrío, Bocas del Roto, and Bocas del Atrato. The quantification of metals was performed by microwave-induced plasma-optical emission spectrometry. The Pb concentration fluctuated from 0.672 to 3.110 mg kg^?1, surpassing the maximum permissible limit (MPL?=?0.3 mg kg^?1) for human consumption for all species. The Hg concentration ranged between < Limit of detection and 6.303 mg kg^?1, and in the crevalle jack and Atlantic tarpon, concentrations exceeded the MPL (0.5 mg kg^?1). The levels of Cd and As were not significant in the studied species and did not exceed the MPL (0.05 mg kg^?1).     

Tillage system affects fertilizer-induced nitrous oxide emissions

Since the development of effective N₂O mitigation options is a key challenge for future agricultural practice, we studied the interactive effect of tillage systems on fertilizer-derived N₂O emissions and the abundance of microbial communities involved in N₂O production and reduction. Soil samples from 0–10 cm and 10–20 cm depth of reduced tillage and ploughed plots were incubated with dairy slurry (SL) and manure compost (MC) in comparison with calcium ammonium nitrate (CAN) and an unfertilized control (ZERO) for 42 days. N₂O and CO₂ fluxes, ammonium, nitrate, dissolved organic C, and functional gene abundances (16S rRNA gene, nirK, nirS, nosZ, bacterial and archaeal amoA) were regularly monitored. Averaged across all soil samples, N₂O emissions decreased in the order CAN and SL (CAN?=?748.8?±?206.3, SL?=?489.4?±?107.2 μg kg^?1) followed by MC (284.2?±?67.3 μg kg^?1) and ZERO (29.1?±?5.9 μg kg^?1). Highest cumulative N₂O emissions were found in 10–20 cm of the reduced tilled soil in CAN and SL. N₂O fluxes were assigned to ammonium as source in CAN and SL and correlated positively to bacterial amoA abundances. Additionally, nosZ abundances correlated negatively to N₂O fluxes in the organic fertilizer treatments. Soils showed a gradient in soil organic C, 16S rRNA, nirK, and nosZ with greater amounts in the 0–10 than 10–20 cm layer. Abundances of bacterial and archaeal amoA were higher in reduced tilled soil compared to ploughed soils. The study highlights that tillage system induced biophysicochemical stratification impacts net N₂O emissions within the soil profile according to N and C species added during fertilization.     

Remediation of Diquat-Contaminated Water by Electrochemical Advanced Oxidation Processes Using Boron-Doped Diamond (BDD) Anodes

The electrochemical elimination of the herbicide diquat dibromide (DQ) in an undivided electrochemical cell (Condiacell®-type cell) and an H-type cell (a divided electrochemical cell) using boron-doped diamond (BDD) electrodes is reported for the first time. The degradation of essentially 100% of the DQ present was achieved in the undivided electrochemical cell and ca. 92% in the H-type cell. Nearly 80% of the total organic carbon (TOC) and of the chemical oxygen demand (COD) were removed after 5 h of treatment at different current densities (i.e., 0.5, 1.0, and 1.5 mA/cm² for the undivided cell, and 2.5, 5.0, and 7.5 mA/cm² for the H-type cell) with a maximum specific energy consumption of approximately 150 kWh kg^?1 of COD degraded in the undivided cell, and 300 kWh kg^?1 of COD in the H-type cell. Energy consumption of about 0.30 kWh g^?1 of TOC occurred in the undivided electrochemical cell and 2.0 in the H-type cell. In spite of obtaining similar percentages of DQ degradation and of COD and TOC removal, a smaller energy usage was required in the undivided cell since smaller current densities were employed. Best results were obtained with the undivided cell, since it required a smaller current density to obtain virtually the same percentage of DQ degradation and removal of COD and TOC. The results obtained herein show that the use of electrochemical advanced oxidation processes may be a good alternative for DQ degradation in polluted water.     

Geographic distance and amorphous iron affect the abundance and distribution of <Emphasis Type="Italic">Geobacteraceae</Emphasis> in paddy soils in China

Purpose

Geobacteraceae are important dissimilatory Fe (III)-reducing microorganisms, influencing the cycling of metals, nutrients as well as the degradation of organic contaminants. However, little is known about their distribution, diversity, and abundance of Geobacteraceae and the effects of environment factors and geographic distance on the distribution and diversity of Geobacteraceae in paddy soils remain unclear. Therefore, the objectives of this study were to investigate the distribution, diversity, and abundance of Geobacteraceae in paddy soils and to determine key factors in shaping the Geobacteraceae distribution, environmental factors, geographic distance, or both and to quantify their contribution to Geobacteraceae variation.

Materials and methods

Illumina sequencing and quantitative real-time PCR using a primer set targeting 16S rRNA genes of bacteria affiliated with the family Geobacteraceae were employed to measure the community composition, diversity, and abundance patterns of 16S rRNA genes of Geobacteraceae in 16 samples collected from north to south of China. MRT, Mantel test, and VPA were used to analyze the relationship between communities of Geobacteraceae and environmental factors and geographic distance.

Results and discussion

Quantitative PCR showed that the abundance of 16S rRNA genes of Geobacteraceae ranged from (1.20?±?0.18)?×?10⁸ to 1.13?×?10⁹?±?2.25?×?10⁸ copies per gram of soil (dry weight) across different types of soils. Illumina sequencing results showed Geobacter was the dominant genus within the family of Geobacteraceae. Multivariate regression tree (MRT) analysis showed that soil amorphous iron contributed more (22.46 %) to the variation of dominant species of Geobacteraceae than other examined soil chemical factors such as pH (14.52 %), ammonium (5.12 %), and dissolved organic carbon (4.74 %). Additionally, more geographically distant sites harbored less similar communities. Variance partitioning analysis (VPA) showed that geographic distance contributed more to the variation of Geobacteraceae than any other factor, although the environmental factors explained more variation when combined. So, we detected the uneven distribution of Geobacteraceae in paddy soils of China and demonstrated that Geobacteraceae community composition was strongly associated with geographic distance and soil chemical factors including aFe, pH, Fe, DOC, C:N, and NO₃ ^?-N. These results greatly expand the knowledge of the distribution of Geobacteraceae in environments, particularly in terrestrial ecosystems.

Conclusions

Our results showed that geographic distance and amorphous iron played important roles in shaping Geobacteraceae community composition and revealed that both geographic distance and soil properties governed Geobacteraceae biogeography in paddy soils. Our findings will be critical in facilitating the prediction of element cycling by incorporating information on functional microbial communities into current biogeochemical models.

     

Taxon-specific responses of soil microbial communities to different soil priming effects induced by addition of plant residues and their biochars

Purpose

This work investigated changes in priming effects and the taxonomy of soil microbial communities after being amended with plant feedstock and its corresponding biochar.

Materials and methods

A soil incubation was conducted for 180 days to monitor the mineralization and evolution of soil-primed C after addition of maize and its biochar pyrolysed at 450 °C. Responses of individual microbial taxa were identified and compared using the next-generation sequencing method.

Results and discussion

Cumulative CO₂ showed similar trends but different magnitudes in soil supplied with feedstock and its biochar. Feedstock addition resulted in a positive priming effect of 1999 mg C kg^?1 soil (+253.7 %) while biochar gave negative primed C of ?872.1 mg C kg^?1 soil (?254.3 %). Linear relationships between mineralized material and mineralized soil C were detected. Most priming occurred in the first 15 days, indicating co-metabolism. Differences in priming may be explained by differences in properties of plant material, especially the water-extractable organic C. Predominant phyla were affiliated to Acidobacteria, Actinobacteria, Chloroflexi, Gemmatimonadetes, Firmicutes, Planctomycetes, Proteobacteria, Verrucomicrobia, Ascomycota, Basidiomycota, Blastocladiomycota, Chytridiomycota, Zygomycota, Euryarchaeota, and Thaumarchaeota during decomposition. Cluster analysis resulted in separate phylogenetic grouping of feedstock and biochar. Bacteria (Acidobacteria, Firmicutes, Gemmatimonadetes, Planctomycetes), fungi (Ascomycota), and archaea (Euryarchaeota) were closely correlated to primed soil C (R ²?=??0.98, ?0.99, 0.84, 0.81, 0.91, and 0.91, respectively).

Conclusions

Quality of plant materials (especially labile C) shifted microbial community (specific microbial taxa) responses, resulting in a distinctive priming intensity, giving a better understanding of the functional role of soil microbial community as an important driver of priming effect.

     

Microbial CO<Subscript>2</Subscript> assimilation is not limited by the decrease in autotrophic bacterial abundance and diversity in eroded watershed

The impacts of soil erosion on soil structure, nutrient, and microflora have been extensively studied but little is known about the responses of autotrophic bacterial community and associated carbon (C)-fixing potential to soil erosion. In this study, three abandoned croplands (ES1, ES2, and ES3) and three check dams (DS1, DS2, and DS3) in the Qiaozi watershed of Chinese Loess Plateau were selected as eroding sites and depositional sites, respectively, to evaluate the impacts of soil erosion on autotrophic bacterial community and associated C-fixing potential. Lower abundance and diversity of autotrophic bacteria were observed in nutrient-poor depositional sites compared with nutrient-rich eroding sites. However, the relative abundances of obligate autotrophic bacteria, such as Thiobacillus and Synechococcus, were significantly enhanced in depositional sites. Deposition of nutrient-poor soil contributed to the growth of obligate autotrophic bacteria. The maximum microbial C-fixing rate was observed in DS1 site (5.568?±?1.503 Mg C km^?2 year^?1), followed by DS3 site (5.306?±?2.130 Mg C km^?2 year^?1), and the minimum was observed in ES2 site (0.839?±?0.558 Mg C km^?2 year^?1). Soil deposition significantly enhanced microbial C-fixing rate. Assuming a total erosion area of 1.09?×?10⁷ km², microbial C-fixing potential in eroded landscape can range from 0.01 to 0.06 Pg C year^?1. But its effect on the C pool recovery of degraded soil is limited. Dissolved organic C (DOC) was the main explanatory factor for the variation in soil microbial C-fixing rate (72.0%, P?=?0.000).     

Straw amendment to paddy soil stimulates denitrification but biochar amendment promotes anaerobic ammonia oxidation

Purpose

Organic matter amendment is usually used to improve soil physicochemical properties and to sequester carbon for counteracting climate change. There is no doubt that such amendment will change microbial activity and soil nitrogen transformation processes. However, the effects of straw and biochar amendment on anammox and denitrification activity and on community structure in paddy soil are unclear.

Materials and methods

We conducted a 30-day pot experiment using rice straw and rice straw biochar to deepen our understanding about the activity, microbial abundance, and community structure associated with soil nitrogen cycling during rice growth.

Results and discussion

Regarding activity, anammox contributed 3.1–8.1% of N₂ production and denitrification contributed 91.9–96.9% of N₂ production; straw amendment resulted in the highest denitrification rate (38.9 nmol N g^?1 h^?1), while biochar amendment resulted in the highest anammox rate (1.60 nmol N g^?1 h^?1). Both straw and biochar amendments significantly increased the hzsB and nosZ gene abundance (p < 0.05). Straw amendment showed the highest nosZ gene abundance, while biochar amendment showed the highest hzsB gene abundance. Phylogenetic analysis of the anammox bacteria 16S rRNA genes indicated that Candidatus Brocadia and Kuenenia were the dominant genera detected in all treatments.

Conclusions

Straw and biochar amendments have different influences on anaerobic ammonia oxidation and denitrification within paddy soil. Our results suggested that the changes in denitrification and anammox rates in the biochar and straw treatments were mainly linked to functional gene abundance rather than microbial community structure and that denitrification played the more major role in N₂ production in paddy soil.