Carbon Substrate Utilization Research Articles

Soil Properties and Multi-Pollution Affect Taxonomic and Functional Bacterial Diversity in a Range of French Soils Displaying an Anthropisation Gradient.

The intensive industrial activities of the twentieth century have left behind highly contaminated wasteland soils. It is well known that soil parameters and the presence of pollutants shape microbial communities. But in such industrial waste sites, the soil multi-contamination with organic (polycyclic aromatic hydrocarbons, PAH) and metallic (Zn, Pb, Cd) pollutants and long-term exposure may induce a selection pressure on microbial communities that may modify soil functioning. The aim of our study was to evaluate the impact of long-term multi-contamination and soil characteristics on bacterial taxonomic and functional diversity as related to the carbon cycle. We worked on 10 soils from northeast of France distributed into three groups (low anthropised controls, slag heaps, and settling ponds) based on their physico-chemical properties (texture, C, N) and pollution level. We assessed bacterial taxonomic diversity by 16S rDNA Illumina sequencing, and functional diversity using Biolog® and MicroResp™ microtiter plate tools. Although taxonomic diversity at the phylum level was not different among the soil groups, many operational taxonomic units were influenced by metal or PAH pollution, and by soil texture and total nitrogen content. Functional diversity was not influenced by PAH contamination while metal pollution selected microbial communities with reduced metabolic functional diversity but more tolerant to zinc. Limited microbial utilisation of carbon substrates in metal-polluted soils was mainly due to the nitrogen content. Based on these two observations, we hypothesised that reduced microbial activity and lower carbon cycle-related functional diversity may have contributed to the accumulation of organic matter in the soils that exhibited the highest levels of metal pollution.

Bioreactor Operating Strategies for Improved Polyhydroxyalkanoate (PHA) Productivity.

Microbial polyhydroxyalkanoates (PHAs) are promising biodegradable polymers that may alleviate some of the environmental burden of petroleum-derived polymers. The requirements for carbon substrates and energy for bioreactor operations are major factors contributing to the high production costs and environmental impact of PHAs. Improving the process productivity is an important aspect of cost reduction, which has been attempted using a variety of fed-batch, continuous, and semi-continuous bioreactor systems, with variable results. The purpose of this review is to summarize the bioreactor operations targeting high PHA productivity using pure cultures. The highest volumetric PHA productivity was reported more than 20 years ago for poly(3-hydroxybutryate) (PHB) production from sucrose (5.1 g L−1 h−1). In the time since, similar results have not been achieved on a scale of more than 100 L. More recently, a number fed-batch and semi-continuous (cyclic) bioreactor operation strategies have reported reasonably high productivities (1 g L−1 h−1 to 2 g L−1 h−1) under more realistic conditions for pilot or industrial-scale production, including the utilization of lower-cost waste carbon substrates and atmospheric air as the aeration medium, as well as cultivation under non-sterile conditions. Little development has occurred in the area of fully continuously fed bioreactor systems over the last eight years.

Carbon mineralization and microbial activity in agricultural topsoil and subsoil as regulated by root nitrogen and recalcitrant carbon concentrations

Aims Mechanisms of subsoil carbon sequestration from deep-rooted plants are elusive, but may contribute to climate change mitigation. This study addressed the role of root chemistry on carbon mineralization and microbiology in a temperate agricultural subsoil (60 and 300 cm depth)compared to topsoil (20 cm depth). Methods Roots from different plant species were chemically characterized and root-induced CO2 production was measured in controlled soil incubations (20 weeks). Total carbon losses, β-glucosidase activity, carbon substrate utilization, and bacterial gene copy numbers were determined. After 20 weeks, resultant carbon mineralization responses to mineral nitrogen (N) were tested. Results Root-induced carbon losses were significantly lower in subsoils (32–41%) than in topsoil (58%). Carbon losses varied according to root chemistry and were mainly linked to root N concentration for subsoils and to lignin and hemicellulose concentration for topsoil. Increases in β-glucosidase activity and bacterial numbers in subsoils were also linked to rootN concentration. Added mineral N preferentially stimulated CO2 production from roots with low concentrations of N, lignin and hemicellulose. Conclusions The results were compatible with a concept of N availability and chemically recalcitrant root compounds interacting to control subsoil carbon decomposition. Implications for carbon sequestration from deep-rooted plants are discussed.

Non-conventional yeast cell factories for sustainable bioprocesses.

The non-conventional yeasts Kluyveromyces lactis, Yarrowia lipolytica, Ogataea polymorpha and Pichia pastoris have been developed as eukaryotic expression hosts because of their desirable growth characteristics, including inhibitor and thermo-tolerance, utilisation of diverse carbon substrates and high amount of extracellular protein secretion. These yeasts already have established in the heterologous production of vaccines, therapeutic proteins, food additives and bio-renewable chemicals, but recent advances in the genetic tool box have the potential to greatly expand and diversify their impact on biotechnology. The diversity of these yeasts includes many strains possessing highly useful, and in some cases even uncommon, metabolic capabilities potentially helpful for the bioprocess industry. This review outlines the recent updates of non-conventional yeast in sustainable bioprocesses.

Characterization of plant carbon substrate utilization by Auxenochlorella protothecoides

Algae hold great potential as a source of renewable fuel due to their ability to produce refinery-compatible diesel and jet fuel precursors. Significant effort has been made to maximize productivity under photoautotrophic growth conditions; however, little progress has been made to discover and understand reduced carbon assimilation pathways or enzymatic degradation of complex carbon substrates in algae. We purport that utilization of plant-based carbon substrates in addition to photosynthesis (mixotrophic growth) for biochemical assimilation into biomass, biofuels, and bioproducts, can increase cultivation productivity and improve the economic viability of algal-derived biofuels. Herein we report that a freshwater production strain of microalgae, Auxenochlorella protothecoides UTEX 25, is capable of directly degrading and utilizing non-food plant substrates, such as switchgrass, for cell growth. Glycome profiling of plant substrates before and after addition to A. protothecoides cultures demonstrates the utilization of xyloglucans. Genomic, proteomic and transcriptomic analyses revealed the identity of many enzymes that are hypothesized to be involved in complex carbohydrate degradation, including several family 5 and 9 glycosyl hydrolases. This work paves the way for future designer engineering of plant‑carbon utilization to further improve productivity of algal production strains.

Assimilable organic carbon (AOC) determination using GFP-tagged Pseudomonas fluorescens P-17 in water by flow cytometry.

One of the newly developed methods for Assimilable organic carbon (AOC) determination is leveraged on the cell enumeration by flow cytometry (FC) which could provide a rapid and automated solution for AOC measurement. However, cell samples staining with fluorescence dye is indispensable to reduce background and machine noise. This step would bring additional cost and time consuming for this method. In this study, a green fluorescence protein (GFP) tagged strain derived of AOC testing strain Pseudomonas fluorescens P-17 (GFP-P17) was generated using Tn5 transposon mutagenesis. Continuous culture of this mutant GFP-P17 showed stable expression of eGFP signal detected by flow cytometry without staining step. In addition, this GFP-P17 strain displayed faster growth rate and had a wider range of carbon substrate utilization patterns as compared with P17 wild-type. With this strain, the capability of a new FC method with no dye staining was explored in standard acetate solution, which suggests linear correlation of counts with acetate carbon concentration. Furthermore, this FC method with GFP-P17 strain is applicable in monitoring GAC/BAC efficiency and condition as similar trends of AOC level in water treatment process were measured by both FC method and conventional spread plating count method. Therefore, this fast and easily applicable GFP-P17 based FC method could serve as a tool for routine microbiological drinking water monitoring.

Evaluation ofRhodiola crenulataon growth and metabolism of NB-1691, an MYCN-amplified neuroblastoma cell line

Outcomes of children with high grade neuroblastoma remain poor despite multi-agent chemotherapy regimens. Rhodiola crenulata extracts display anti-neoplastic properties against several cancers including breast cancer, melanoma, and glioblastoma. In this study, we evaluated the anti-neoplastic potential of Rhodiola crenulata extracts on human neuroblastoma cells. Through this work, cell viability and proliferation were evaluated following treatments with ethanol (vehicle control) or Rhodiola crenulata extract in neuroblastoma, NB-1691 or SK-N-AS cells, in vitro. HIF-1 transcriptional activity was evaluated using a dual luciferase assay. Quantitative real-time polymerase chain reaction was utilized to assess the expression of HIF-1 targets. Selected metabolic intermediates were evaluated for their ability to rescue cells from Rhodiola crenulata extract-induced death. Lactate dehydrogenase, pyruvate kinase, and pyruvate dehydrogenase activities and NAD+/NADH levels were assayed in vehicle and Rhodiola crenulata extract-treated cells. The effects of Rhodiola crenulata extracts on metabolism were assessed by respirometry and metabolic phenotyping/fingerprinting. Our results revealed striking cytotoxic effects upon Rhodiola crenulata extract treatment, especially prominent in NB-1691 cells. As a greater response was observed in NB-1691 cells therefore it was used for remaining experiments. Upon Rhodiola crenulata extract treatment, HIF-1 transcriptional activity was increased. This increase in activity correlated with changes in HIF-1 targets involved in cellular metabolism. Serendipitously, we observed that addition of pyruvate protected against the cytotoxic effects of Rhodiola crenulata extracts. Therefore, we focused on the metabolic effects of Rhodiola crenulata extracts on NB-1691 cells. We observed that while the activities of pyruvate kinase and pyruvate dehydrogenase activities were increased, the activity of lactate dehydrogenase activity was decreased upon Rhodiola crenulata extract treatment. We also noted a decline in the total NAD pool following Rhodiola crenulata extract treatment. This correlated with decreased cellular respiration and suppressed utilization of carbon substrates. Through this work, we observed significant cytotoxic effects of Rhodiola crenulata extract treatment upon treatment on NB-1691 cells, a human neuroblastoma cell line with MYCN amplification. Our studies suggest that these cytotoxic effects could be secondary to metabolic effect induced by treatment with Rhodiola crenulata extract.

Insight Into the Variation of Bacterial Structure in Atrazine-Contaminated Soil Regulating by Potential Phytoremediator: Pennisetum americanum (L.) K. Schum.

Although plants of the genus Pennisetum can accelerate the removal of atrazine from its rhizosphere, the roles played by this plant in adjusting the soil environment and soil microorganism properties that might contribute to pollutant removal are incompletely understood. We selected Pennisetum americanum (L.) K. Schum (P. americanum) as the test plant and investigated the interaction between P. americanum and atrazine-contaminated soil, focusing on the adjustment of the soil biochemical properties as well as bacterial functional and community diversity in the rhizosphere using Biolog EcoPlates and high-throughput sequencing of the 16S rRNA gene. The results demonstrate that the rhizosphere soil of P. americanum exhibited higher catalase activity, urease activity and water soluble organic carbon (WSOC) content, as well as a suitable pH for microorganisms after a 28-day incubation. The bacterial functional diversity indices (Shannon and McIntosh) for rhizosphere soil were 3.17 ± 0.04 and 6.43 ± 0.86 respectively, while these indices for non-rhizosphere soil were 2.95 ± 0.06 and 3.98 ± 0.27. Thus, bacteria in the P. americanum rhizosphere exhibited better carbon substrate utilization than non-rhizosphere bacteria. Though atrazine decreased the richness of the soil bacterial community, rhizosphere soil had higher bacterial community traits. For example, the Shannon diversity indices for rhizosphere and non-rhizosphere soil were 5.821 and 5.670 respectively. Meanwhile, some bacteria, such as those of the genera Paenibacillus, Rhizobium, Sphingobium, and Mycoplana, which facilitate soil nutrient cycling or organic pollutants degradation, were only found in rhizosphere soil after a 28-day remediation. Moreover, redundancy analysis suggests that the soil biochemical properties that were adjusted by the test plant exhibited correlations with the bacterial community composition and functional diversity. These results suggest that the soil environment and bacterial properties could be adjusted by P. americanum during phytoremediation of atrazine-contaminated soil.

Characterization of Solibacillus silvestris strain AM1 that produces amyloid bioemulsifier.

Solibacillus silvestris AM1 was the first strain from the genus to be reported for the production of a functional amyloid and its potential use as a surface active agent, a thermostable glycoprotein amyloid bioemulsifier BE-AM1 capable of influencing environment and biofilm formation. Phylogenetic analysis based on 16S rRNA gene, molecular characterization studies on the basis of DNA-DNA hybridization and chemotaxonomic fatty acid methyl ester (FAME) analysis showed that S. silvestris AM1 as a strain matches with the type strain S. silvestris HR3-23. But strain AM1 differs from the type strain HR3-23 in carbon substrate utilization studies along with amyloid bioemulsifier production ability with potential industrial and environmental applications. S. silvestris AM1 exhibited bioemulsifier production at wide range of factors like pH and NaCl concentrations, while temperature influenced the bioemulsifier production indirectly (since it affected the growth). Bioemulsifier production was observed even at oligotrophic conditions (0.5 mg ml-1 ) seen usually in its native environment. In this study, we have characterized the amyloid producing S. silvestris AM1 taxonomically and also analyzed 16S rDNA of 103 sequences of Solibacillus sp. available, which indicated the possibility of new species in this genus and can be studied for industrially and environmentally important biomolecules.

Spatial and temporal variability of biological indicators of soil quality in two forest catchments in Belgium

Biological indicators, measurements based on the presence and activity of soil organisms, are increasingly being considered in assessments of forest soil quality. In addition to chemical indicators, such as soil organic carbon and pH, biological indicators can provide an early diagnosis of changes in soil quality and processes in response to environmental change and forest management actions. We investigated the spatial and temporal variability of selected bio-indicators in the forest floor of two catchments over three years. We further evaluated the sensitivity of these indicators to changes in the dominant tree species following reforestation and natural regeneration. Indicators of microbial abundance and activity (microbial biomass, potential respiration) and carbon maintenance costs (metabolic quotient) were higher under young spruce and mixed deciduous stands than pure stands of oak and beech. Our results indicate a greater microbial activity in autumn but a wider range of carbon substrate utilisation in spring. Assessment of seasonal differences in bio-indicator values is vital for the evaluation and planning of long-term studies and the development of reference values for forest soils in Belgium. Our results highlight the usefulness of these bio-indicators in identifying changes in soil quality, particularly in response to management activities, at small spatial scales.

Intraspecific functional and genetic diversity ofPetriella setifera

The aim of the study was an analysis of the intraspecific genetic and functional diversity of the new isolated fungal strains of P. setifera. This is the first report concerning the genetic and metabolic diversity of Petriella setifera strains isolated from industrial compost and the first description of a protocol for AFLP fingerprinting analysis optimised for these fungal species. The results showed a significant degree of variability among the isolates, which was demonstrated by the clearly subdivision of all the isolates into two clusters with 51% and 62% similarity, respectively. For the metabolic diversity, the BIOLOG system was used and this analysis revealed clearly different patterns of carbon substrates utilization between the isolates resulting in a clear separation of the five isolates into three clusters with 0%, 42% and 54% of similarity, respectively. These results suggest that genetic diversity does not always match the level of functional diversity, which may be useful in discovering the importance of this fungus to ecosystem functioning. The results indicated that P. setifera strains were able to degrade substrates produced in the degradation of hemicellulose (D-Arabinose, L-Arabinose, D-Glucuronic Acid, Xylitol, γ-Amino-Butyric Acid, D-Mannose, D-Xylose and L-Rhamnose), cellulose (α-D-Glucose and D-Cellobiose) and the synthesis of lignin (Quinic Acid) at a high level, showing their importance in ecosystem services as a decomposer of carbon compounds and as organisms, which make a significant contribution to carbon cycling in the ecosystem.The results showed for the first time that the use of molecular biology techniques (such as AFLP and BIOLOG analyses) may allow for the identification of intraspecific diversity of as yet poorly investigated fungal species with favourable consequences for our understanding their ecosystem function.

Structural and metabolic diversity of rhizosphere microbial communities of Phragmites karka in a tropical coastal lagoon

The structural and metabolic diversity of rhizosphere microbial communities of Phragmites karka, a perennial reed, was examined through high-throughput sequencing of 16S rRNA genes, taxonomic-to-metabolic mapping, and the BIOLOG® community level physiological profiling. Rhizosphere sediments were collected from P. karka stands along the shoreline of Chilika Lagoon during the year 2014–2015. At the genus level, bacterial communities were largely composed of Thiobacillus, Methylotenera, Bacillus, Steroidobacter and Escherichia/Shigella whereas Methanomassiliicoccus was one of the most abundant genus in the archaeal communities. In general, rhizosphere communities of samples from the same locations were more similar in their composition than from other sites. Salinity played an important role in driving the community composition along with ‘rhizosphere effect’. Carbon substrate utilization profiles of rhizosphere communities were highly diverse and the highest utilization was recorded in wells containing tween 40 (polymer), D-mannitol (carbohydrates), L-asparagine (amino acids), 4-hydroxybenzoic acid (phenols), putrescine (amines), and D-galacturonic acid (carboxylic acids). Of these, L-asparagine and D-mannitol were preferentially utilized by all rhizosphere communities. Metabolic mapping suggested that rhizosphere microbial communities could play a critical role in maintaining the ecological health of coastal wetlands through cycling of carbon, nitrogen, and sulfur, and degradation of hydrocarbon and xenobiotic compounds. Overall, this study demonstrated a high variability in the community structure and carbon metabolic profiles of rhizosphere communities of P. karka and suggested that nutrient cycling related ecosystem services that are mediated by the rhizosphere microbial communities of reeds must be included in the management and conservation plan of wetlands.

The invasive plant Impatiens glandulifera affects soil fungal diversity and the bacterial community in forests

Invasive plants may severely impact native biodiversity and ecosystem functioning. We examined potential effects of the invasive annual plant Impatiens glandulifera Royle on soil fungal and bacterial communities in temperate forests. Using a space-for-time approach, we established 72 plots in forest areas invaded by I. glandulifera and in forest areas, which were not yet invaded, equally distributed over three coniferous and three deciduous forests. In each plot, we determined plant species richness and abundance in the above-ground vegetation as well as the diversity and composition of the soil fungal community using T-RFLP analysis. Biolog Ecoplates were used to assess the activity of soil bacteria. The invasion of I. glandulifera caused significant shifts in plant species composition. Invaded plots were characterized by a higher diversity and an altered composition of the soil fungal community and by a lower soil bacterial activity in late spring. Carbon substrate utilization patterns of soil bacteria were also changed in invaded plots. Our experiment shows that I. glandulifera can modify soil fungal and bacterial communities, indicating an indirect effect of altered soil properties induced by the invasive plant, combined with the release of allelopathic compounds into the soil.

Draft genome sequence of Elstera cyanobacteriorum, a novel facultative aerobic bacterium isolated from cyanobacterial aggregates in a eutrophic lake

We reported the draft genome of Elstera cyanobacteriorum, containing 3.95Mb. The G+C content of the genome is 62.4%. This strain possesses motility and chemotaxis genes, multiple carbon substrate utilization gene clusters and denitrifying reductase gene clusters. The sequence will provide the genetic basis for better understanding of adaptation to cyanobacterial aggregates and nitrogen removal during cyanobacterial blooming.

Functional sustainability of periphytic biofilms in organic matter and Cu2+ removal during prolonged exposure to TiO2 nanoparticles.

Responses of microbial communities to nanotoxicity in aquatic ecosystems are largely unknown, particularly with respect to relationship between community dynamics and functions. Here, periphytic biofilms were selected as a model of species-rich microbial communities to elucidate their responses when exposed to titanium dioxide nanoparticles (TiO2-NPs). Especially, the relationships between the functions (e.g. organic matter and Cu2+ removal) and community dynamics after long-term exposure to TiO2-NPs were assessed systematically. After 5days exposure to TiO2-NPs (5mgL-1), periphytic biofilms showed sustainable functions in pollutant removal and strong plasticity in defensing the toxic disturbance of TiO2-NPs, including photosynthesis and carbon metabolic diversity. The sustainable pollutant removal functions of periphytic biofilms were attributed to their functional redundancy. Specifically, periphytic biofilms altered their composition with cyanobacteria, Sphingobacteriia and Spirochaetes being the newly dominant taxa, and changed the carbon substrate utilization pattern to maintain high photosynthesis and metabolic rates. Moreover, extracellular polymeric substances (EPS) especially proteins were overproduced to bind the NPs and thereby reduce the nanotoxicity. The information obtained in this study may greatly help to understand the interactions between microbial community dynamics and function under NPs exposure conditions and functional redundancy is an important mechanism of periphytic biofilms to maintain sustainable functions.

Microbial Carbon Substrate Utilization Differences among High- and Average-Yield Soybean Areas

Since soybean (Glycine max L. (Merr.)) yields greater than 6719 kg ha−1 have only recently and infrequently been achieved, little is known about the soil microbiological environment related to high-yield soybean production. Soil microbiological properties are often overlooked when assessing agronomic practices for optimal production. Therefore, a greater understanding is needed regarding how soil biological properties may differ between high- and average-yielding areas within fields. The objectives of this study were to (i) evaluate the effects of region on soil microbial carbon substrate utilization differences between high- (HY) and average-yield (AY) areas and (ii) assess the effect of yield area on selected microbiological property differences. Replicate soil samples were collected from the 0–10 cm depth from yield-contest-entered fields in close proximity that had both a HY and an AY area. Samples were collected immediately prior to or just after soybean harvest in 2014 and 2015 from each of seven geographic regions within Arkansas. Averaged across yield area, community-level carbon substrate utilization and Shannon’s and Simpson’s functional diversity and evenness were greater (p < 0.05) in Region 7 than all other regions. Averaged across regions, Shannon’s functional diversity and evenness were greater (p < 0.05) in HY than in AY areas. Principal component analysis demonstrated that a greater variety of carbon substrates were used in HY than AY areas. These results may help producers understand the soil microbiological environment in their own fields that contribute to or hinder achieving high-yielding soybeans; however, additional parameters may need to be assessed for a more comprehensive understanding of the soil environment that is associated with high-yielding soybean.

The Tale of a Neglected Energy Source: Elevated Hydrogen Exposure Affects both Microbial Diversity and Function in Soil.

The enrichment of H2-oxidizing bacteria (HOB) by H2 generated by nitrogen-fixing nodules has been shown to have a fertilization effect on several different crops. The benefit of HOB is attributed to their production of plant growth-promoting factors, yet their interactions with other members of soil microbial communities have received little attention. Here we report that the energy potential of H2, when supplied to soil, alters ecological niche partitioning of bacteria and fungi, with multifaceted consequences for both generalist and specialist microbial functions. We used dynamic microcosms to expose soil to the typical atmospheric H2 mixing ratio (0.5 ppmv) permeating soils, as well as mixing ratios comparable to those found at the soil-nodule interface (10,000 ppmv). Elevated H2 exposure exerted direct effects on two HOB subpopulations distinguished by their affinity for H2 while enhancing community level carbon substrate utilization potential and lowering CH4 uptake activity in soil. We found that H2 triggered changes in the abundance of microorganisms that were reproducible yet inconsistent across soils at the taxonomic level and even among HOB. Overall, H2 exposure altered microbial process rates at an intensity that depends upon soil abiotic and biotic features. We argue that further examination of direct and indirect effects of H2 on soil microbial communities will lead to a better understanding of the H2 fertilization effect and soil biogeochemical processes.IMPORTANCE An innovative dynamic microcosm chamber system was used to demonstrate that H2 diffusing in soil triggers changes in the distribution of HOB and non-HOB. Although the response was uneven at the taxonomic level, an unexpected coordinated response of microbial functions was observed, including abatement of CH4 oxidation activity and stimulation of carbon turnover. Our work suggests that elevated H2 rewires soil biogeochemical structure through a combination of direct effects on the growth and persistence of HOB and indirect effects on a variety of microbial processes involving HOB and non-HOB.

Shifts in soil microbial metabolic activities and community structures along a salinity gradient of irrigation water in a typical arid region of China

Saline water irrigation can change soil environment, which thereby influence soil microbial process. Based on a field experiment, the shifts in soil microbial metabolic activities and community structures under five irrigation salinities were studied using Biolog and metagenomic methods in this study. The results demonstrated that microbial metabolic activities were greatly restrained in saline water irrigated soils, as average well color development (AWCD) reduced under all saline water irrigation treatments. Although no significant difference in carbon substrate utilization of all six categories was observed among Mild, Medium, High and Severe treatments, the consumption of sole carbon source was significantly varied. Especially, asparagine, galacturonic, putrescine and 4-benzoic acid played a decisive role in dominating the differences. Soil bacterial richness and diversity increased with irrigation salinity while the number of bacterial phyla decreased. Three significantly increased (Proteobacteria, Actinobacteria and Chloroflexi), two decreased (Planctomycetes, Bacteroidetes) and two irresponsive (Gemmatimonadetes and Acidobacteria) phyla were observed as the dominant groups in saline water irrigated soils. The results presented here could improve the understanding of the soil biological process under saline circumstance.

Effects of 18 pharmaceuticals on the physiological diversity of edaphic microorganisms

Pharmaceutical residues can enter the terrestrial environment through the application of recycled water and contaminated biosolids to agricultural soils, were edaphic microfauna can would be threatened. This study thus assessed the effect of 18 widely consumed pharmaceuticals, belonging to four groups: antibiotics, non-steroidal anti-inflammatory drugs (NSAIDs), blood lipid-lowering agents (BLLA) and β-blockers, on the physiology of soil microbial communities from a ecological crop field. Biolog EcoPlates, containing 31 of the most common carbon sources found in forest and crop soils, were used to calculate both the averaged well colour development (AWCD), as an indicator of the entire capacity of degrading carbon sources, and the diversity of carbon source utilization, as an indicator of the physiological diversity. The results show that pharmaceuticals impact microbial communities by changing the ability of microbes to metabolize different carbon sources, thus affecting the metabolic diversity of the soil community. The toxicity of the pharmaceuticals was inversely related to the log Kow; indeed, NSAIDs were the least toxic and antibiotics were the most toxic, while BLLA and β-blockers presented intermediate toxicity. The antibiotic sulfamethoxazole imposed the greatest impact on microbial communities at concentrations from 100 mg/L, followed by the other two antibiotics (trimethoprim and tetracycline) and the β-blocker nadolol. Other chemical parameters (i.e. melting point, molecular weight, pKa or solubility) had little influence on toxicity. Microbial communities exposed to pharmaceuticals having similar physicochemical characteristics presented similar physiological diversity patterns of carbon substrate utilization. These results suggest that the repeated amendment of agricultural soils with biosolids or sludges containing pharmaceutical residuals may result in soil concentrations of concern regarding key ecological functions (i.e. the carbon cycle).

Phylogenetic conservation of substrate use specialization in leaf litter bacteria.

Environmental change will influence the ecosystem processes regulated by microbial communities, including leaf litter decomposition. To assess how microbial communities and their functioning might respond to increases in temperature, we quantified the distribution of traits related to carbon substrate utilization and temperature sensitivity in leaf litter bacteria isolated from a natural grassland ecosystem in Southern California. The isolates varied substantially in their carbon substrate use, as well as their response to temperature change. To better predict the functioning and responses in natural communities, we also examined if the functional and response traits were phylogenetically patterned or correlated with one another. We found that the distribution of functional traits displayed a phylogenetic pattern, but the sensitivity of the traits to changes in temperature did not. We also did not detect any correlations between carbon substrate use and sensitivity to changes in temperature. Together, these results suggest that information about microbial composition may provide insights to predicting ecosystem function under one temperature, but that these relationships may not hold under new temperature conditions.