Biomedical subjects

Carsten S Jacobsen

Publications and source records attributed to Carsten S Jacobsen.

8 recordsLinked to original sources

PubMed2007

Strong impact on the polycyclic aromatic hydrocarbon (PAH)-degrading community of a PAH-polluted soil but marginal effect on PAH degradation when priming with bioremediated soil dominated by mycobacteria.

Bioaugmentation of soil polluted with polycyclic aromatic hydrocarbons (PAHs) is often disappointing because of the low survival rate and low activity of the introduced degrader bacteria. We therefore investigated the possibility of priming PAH degradation in soil by adding 2% of bioremediated soil with a high capacity for PAH degradation. The culturable PAH-degrading community of the bioremediated primer soil was dominated by Mycobacterium spp. A microcosm containing pristine soil artificially polluted with PAHs and primed with bioremediated soil showed a fast, 100- to 1,000-fold increase in numbers of culturable phenanthrene-, pyrene-, and fluoranthene degraders and a 160-fold increase in copy numbers of the mycobacterial PAH dioxygenase gene pdo1. A nonpolluted microcosm primed with bioremediated soil showed a high rate of survival of the introduced degrader community during the 112 days of incubation. A nonprimed control microcosm containing pristine soil artificially polluted with PAHs showed only small increases in the numbers of culturable PAH degraders and no pdo1 genes. Initial PAH degradation rates were highest in the primed microcosm, but later, the degradation rates were comparable in primed and nonprimed soil. Thus, the proliferation and persistence of the introduced, soil-adapted degraders had only a marginal effect on PAH degradation. Given the small effect of priming with bioremediated soil and the likely presence of PAH degraders in almost all PAH-contaminated soils, it seems questionable to prime PAH-contaminated soil with bioremediated soil as a means of large-scale soil bioremediation.

Arthrobacter↗

PubMed2006

Biodegradation, bioaccessibility, and genotoxicity of diffuse polycyclic aromatic hydrocarbon (PAH) pollution at a motorway site.

Diffuse pollution of surface soil with polycyclic aromatic hydrocarbons (PAHs) is problematic in terms of the large areas and volumes of polluted soil. The levels and effects of diffuse PAH pollution at a motorway site were investigated. Surface soil was sampled with increasing distance from the asphalt pavement and tested for total amounts of PAHs, amounts of bioaccessible PAHs, total bacterial populations, PAH degrader populations, the potential for mineralization of 14C-PAHs, and mutagenicity. Elevated PAH concentrations were found in the samples taken 1-8 m from the pavement. Soil sampled at greater distances (12-24 m) contained only background levels of PAHs. The total bacterial populations (CFU and numbers of 16S rDNA genes) were similar for all soil samples, whereas the microbial degrader populations (culturable PAH degraders and numbers of PAH dioxygenase genes) were most abundant in the most polluted samples close to the pavement. Hydroxypropyl-beta-cyclodextrin extraction of soil PAHs, as a direct estimate of the bioaccessibility, indicated that only 1-5% of the PAHs were accessible to soil bacteria. This low bioaccessibility is suggested to be due to sorption to traffic soot particles. The increased PAH level close to the pavement was reflected in slightly increased mutagenic activity (1 m, 0.32 +/- 0.08 revertants g(-1) soil; background/ 24 m: 0.08 +/- 0.04), determined by the Salmonella/ microsome assay of total extractable PAHs activated by liver enzymes. The potential for lighter molecular weight PAH degradation in combination with low bioaccessibility of heavier PAHs is proposed to lead to a likely increase in concentration of heavier PAHs over time. These residues are, however, likely to be of low biological significance.

Adsorption↗

PubMed2006

Microbial degradation of street dust polycyclic aromatic hydrocarbons in microcosms simulating diffuse pollution of urban soil.

Diffuse pollution with polycyclic aromatic hydrocarbons (PAHs) of topsoil in urban regions has caused increasing concerns in recent years. We simulated diffuse pollution of soil in microcosms by spiking sandy topsoil (A-horizon) and coarse, mineral subsoil (C-horizon) with street dust (PM63) isolated from municipal street sweepings from central Copenhagen. The microbial communities adapted to PAH degradation in microcosms spiked with street dust in both A-horizon and C-horizon soils, in spite of low PAH-concentrations. The increased potential for PAH degradation was demonstrated on several levels: by slowly diminishing PAH-concentrations, increased mineralization of 14C-PAHs, increasing numbers of PAH degraders and increased prevalence of nah and pdo1 PAH degradation genes, i.e. the microbial communities quickly adapted to PAH degradation. Three- and 4-ring PAHs from the street dust were biodegraded to some extent (10-20%), but 5- and 6-ring PAHs were not biodegraded in spite of frequent soil mixing and high PAH degradation potentials. In addition to biodegradation, leaching of 2-, 3- and 4-ring PAHs from the A-horizon to the C-horizon seems to reduce PAH-levels in surface soil. Over time, levels of 2-, 3- and 4-ring PAHs in surface soil may reach equilibrium between input and the combination of biodegradation and leaching. However, levels of the environmentally critical 5- and 6-ring PAHs will probably continue to rise. We presume that sorption to black carbon particles is responsible for the persistence and low bioaccessibility of 5- and 6-ring PAHs in diffusely polluted soil.

Animals↗

PubMed2005

Elucidating the key member of a linuron-mineralizing bacterial community by PCR and reverse transcription-PCR denaturing gradient gel electrophoresis 16S rRNA gene fingerprinting and cultivation.

A bacterial community from Danish agricultural soil was enriched with linuron [N-(3,4-dichlorophenyl)-N'-methoxy-N'-methylurea] as the sole carbon and nitrogen source. The community mineralized [ring-U-14C]linuron completely to 14CO2 and 14C-biomass. Denaturing gradient gel electrophoresis analysis and cultivation revealed that a Variovorax sp. was responsible for the mineralization activity.

Comamonadaceae↗

PubMed2005

Aging of triazine amine in soils demonstrated through sorption, desorption, and bioavailability measurements.

The aging of triazine amine in soil was studied during a time course of 119 d by measuring bioavailability in terms of mineralization after inoculation of the triazine amine-degrading bacterium Rhodococcus erythropolis TA57. The bioavailability was measured in four soil samples: A-, B-, and C-horizons from an agricultural soil profile and in a peat soil. The sorption of triazine amine in the soil samples was quantified during the period of aging in terms of sorption distribution coefficients (Kd) and desorption distribution coefficients (Kd,des). Measures of bioavailability and triazine amine concentration in the nonavailable fraction showed effects of aging in the soils that were rich in organic matter. The triazine amine bioavailability declined significantly during the aging period in soils containing greater than 2% organic carbon, whereas the B- and C-horizons showed no signs of aging, in agreement with their low content of organic material. Corresponding to this, desorption decreased significantly in the A-horizon but, surprisingly, not in the peat soil. Analyses by thin-layer chromatography indicated an association of aqueous triazine amine and dissolved organic matter in the peat soil. This gives an explanation for both the significant decrease in bioavailability and the noncorresponding stability of the nonavailable (i.e., nondesorbed) fraction.

Adsorption↗

PubMed2004

Influence of frozen storage on herbicide degradation capacity in surface and subsurface sandy soils.

The degradation of MCPA and metribuzin was investigated in laboratory batch experiments using fresh and frozen-stored soil samples from the unsaturated zone of a sandy soil. Mineralization potentials measured in fresh and frozen-stored soils were similar, and mineralization kinetics in surface and subsurface soils could be fitted using the same kinetic models. MCPA mineralization data from all three horizons were best described with the exponential growth form of the three-half-order model. During the mineralization of MCPA, growth in MCPA-degrading microbial populations was confirmed by increases in the abundance of tfdA genes following MCPA exposure. In contrast to MCPA, metribuzin mineralization followed zero-order kinetics, and very little metribuzin was mineralized (<1%) in all three of the investigated soil horizons. In addition, metribuzin dissipation and metabolite formation were also measured in surface and subsurface soils using LC-MS/MS. Differences in metribuzin dissipation were observed in the A-horizon at the beginning of the experiment and resulted in substantially different 50% disappearance time, DT50, values for frozen-stored (36 days) and fresh (<15 days) soil samples. However, the % of metribuzin remaining in fresh and frozen-stored surface soils was comparable from day 37 and thereafter.

2-Methyl-4-chlorophenoxyacetic Acid↗

PubMed2004

Sorption, mineralization and mobility of N-(phosphonomethyl)glycine (glyphosate) in five different types of gravel.

Sorption, mineralization and mobility of glyphosate were studied in six substrates: the five types of gravel most frequently used as surfacing in Denmark and a sandy agricultural soil from Simmelkaer that served as a reference soil. Cumulative mineralization of [methyl-14C]glyphosate in batch studies was highest in coarse gravel, amounting to 14% after 4 days at 30 degrees C and 32% after 31 days. Mineralization was slowest in the sandy reference soil, amounting to only 2% after 31 days. The adsorption coefficient (Kd) of glyphosate in gravel ranged from 62 to 164 litre kg(-1), while that in the sandy reference soil was 410 litre kg(-1). The results indicate that the relatively low Kd in gravel allows a relatively high rate of glyphosate mineralization by the biomass. When Kd is high, in contrast, mineralization is slow. Lowering the temperature to 10 degrees C decreased mineralization by 50% in one of two gravels. The leaching of glyphosate was screened in simple columns of gravel or soil in which precipitation events (20 mm over a 2-h period) were simulated on three occasions, starting either immediately after or 2 days after application of glyphosate. [14C]Glyphosate was applied as a tracer mixed with the commercial product Roundup Garden at the recommended rate of 2.4 kg glyphosate ha(-1), equivalent to 1 microg g(-1) soil. The highest concentration of [14C] compounds (expressed in terms of glyphosate concentration) in leachate from the columns exceeded 1300 microg litre(-1), and was detected in rounded gravel after the first rain event. No glyphosate was detected in leachate from the sandy reference soil.

Adsorption↗

PubMed2002

Method for spiking soil samples with organic compounds.

We examined the harmful side effects on indigenous soil microorganisms of two organic solvents, acetone and dichloromethane, that are normally used for spiking of soil with polycyclic aromatic hydrocarbons for experimental purposes. The solvents were applied in two contamination protocols to either the whole soil sample or 25% of the soil volume, which was subsequently mixed with 75% untreated soil. For dichloromethane, we included a third protocol, which involved application to 80% of the soil volume with or without phenanthrene and introduction of Pseudomonas fluorescens VKI171 SJ132 genetically tagged with luxAB::Tn5. For both solvents, application to the whole sample resulted in severe side effects on both indigenous protozoa and bacteria. Application of dichloromethane to the whole soil volume immediately reduced the number of protozoa to below the detection limit. In one of the soils, the protozoan population was able to recover to the initial level within 2 weeks, in terms of numbers of protozoa; protozoan diversity, however, remained low. In soil spiked with dichloromethane with or without phenanthrene, the introduced P. fluorescens VKI171 SJ132 was able to grow to a density 1,000-fold higher than in control soil, probably due mainly to release of predation from indigenous protozoa. In order to minimize solvent effects on indigenous soil microorganisms when spiking native soil samples with compounds having a low water solubility, we propose a common protocol in which the contaminant dissolved in acetone is added to 25% of the soil sample, followed by evaporation of the solvent and mixing with the remaining 75% of the soil sample.

Acetone↗