Microbial communities in pyrene amended soil–compost mixture and fertilized soil

Adam, Iris K. U.; Duarte, M. M. L.; Pathmanathan, Jananan S.; Miltner, Anja; Brüls, Thomas; Kästner, Matthias

doi:10.1186/s13568-016-0306-9

Cited by 18 publications

(9 citation statements)

References 75 publications

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“…DO decreased values of the ecophysiological diversity index (EP) of organotrophic bacteria, Actinobacteria, and fungi, whereas P decreased EP of Actinobacteria. This is due to the succession of microorganisms utilizing various chemical compounds of DO and P [56,57], which is accompanied by changes in soil properties, i.e., disruption of trophic and aerobic conditions, and excess of active forms of organic carbon [58,59,60,61].…”

Section: Discussionmentioning

confidence: 99%

Implications of Soil Pollution with Diesel Oil and BP Petroleum with ACTIVE Technology for Soil Health

Borowik

Wyszkowska

Kucharski

et al. 2019

IJERPH

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Grass Elymus elongatus has a potential in phytoremediation and was used in this study in a potted experiment, which was performed to determine the effect of polluting soil (Eutric Cambisol) with diesel oil (DO) and unleaded petroleum (P) on the diversity of soil microorganisms, activity of soil enzymes, physicochemical properties of soil, and on the resistance of Elymus elongatus to DO and P, which altogether allowed evaluating soil health. Both petroleum products were administered in doses of 0 and 7 cm3 kg−1 soil d.m. Vegetation of Elymus elongatus spanned for 105 days. Grasses were harvested three times, i.e., on day 45, 75, and 105 of the experiment. The study results demonstrated a stronger toxic effect of DO than of P on the growth and development of Elymus elongatus. Diesel oil caused greater changes in soil microbiome compared to unleaded petroleum. This hypothesis was additionally confirmed by Shannon and Simpson indices computed based on operational taxonomic unit (OTU) abundance, whose values were the lowest in the DO-polluted soil. Soil pollution with DO reduced the counts of all bacterial taxa and stimulated the activity of soil enzymes, whereas soil pollution with P diminished the diversity of bacteria only at the phylum, class, order, and family levels, but significantly suppressed the enzymatic activity. More polycyclic aromatic hydrocarbons (PAHs) were degraded in the soil polluted with P compared to DO, which may be attributed to the stimulating effect of Elymus elongatus on this process, as it grew better in the soil polluted with P than in that polluted with DO.

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Section: Discussionmentioning

confidence: 99%

Implications of Soil Pollution with Diesel Oil and BP Petroleum with ACTIVE Technology for Soil Health

Borowik

Wyszkowska

Kucharski

et al. 2019

IJERPH

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“…Processing of metagenomics shotgun reads. The raw reads were processed as in Adam et al (2017) to reconstruct nearly complete genomes using the pre-assembly approach described in Gkanogiannis et al (2016).…”

Section: Metagenome Sequencingmentioning

confidence: 99%

Anaerobic degradation of phenanthrene by a sulfate‐reducing enrichment culture

Himmelberg

Brüls

Farmani

et al. 2018

Environmental Microbiology

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Anaerobic degradation processes are very important to attenuate polycyclic aromatic hydrocarbons (PAHs) in saturated, anoxic sediments. However, PAHs are poorly degradable, leading to very slow microbial growth and thus resulting in only a few cultures that have been enriched and studied so far. Here, we report on a new phenanthrene-degrading, sulfate-reducing enrichment culture, TRIP1. Genome-resolved metagenomics and strain specific cell counting with FISH and flow cytometry indicated that the culture is dominated by a microorganism belonging to the Desulfobacteraceae family (60% of the community) and sharing 93% 16S rRNA sequence similarity to the naphthalene-degrading, sulfate-reducing strain NaphS2. The anaerobic degradation pathway was studied by metabolite analyses and revealed phenanthroic acid as the major intermediate consistent with carboxylation as the initial activation reaction. Further reduced metabolites were indicative of a stepwise reduction of the ring system. We were able to measure the presumed second enzyme reaction in the pathway, phenanthroate-CoA ligase, in crude cell extracts. The reaction was specific for 2-phenanthroic acid and did not transform other isomers. The present study provides first insights into the anaerobic degradation pathways of three-ringed PAHs. The biochemical strategy follows principles known from anaerobic naphthalene degradation, including carboxylation and reduction of the aromatic ring system.

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“…In conclusion, it should be stressed, based on the conducted studies and the literature (Lipińska et al 2015 ; Wu et al 2014 ; Wyszkowska et al 2015 ), that oil products significantly affect the stability of the soil ecosystem. It should also be noted that the long-term exposure of a particular ecosystem to stimuli of different types leads to the development of appropriate defensive mechanisms that are capable of maintaining the proper soil biological balance (Griffiths and Philippot 2013 ), as even the most stable substances in the soil environment can be metabolised by microorganisms (Adam et al 2017 ; Fan et al 2014 ; Fatima et al 2015 ; El-Hanafy et al 2017 ). Even though oil-derived hydrocarbons may be degraded by bacteria, fungi, yeasts and algae, it is bacteria that perform an essential role in the transformation of PAHs (Table 1 ).…”

Section: Discussionmentioning

confidence: 99%

“…(Park and Park 2011 ; Ziółkowska and Wyszkowski 2010 ). The response of microorganisms and soil enzymes to the effects of particular oil products should be determined individually for particular types and brands of these products (Adam et al 2017 ; Niepceron et al 2013 ). Not only do they differ in the natural chemical composition but also in the content of improvers, which offer anti-corrosive, cidal, demulsifying, and anti-foam properties and may modify the effects of particular oil products on the quality of soil (Comber et al 2016 ; Ramkumar and Kirubakaran 2016 ).…”

Section: Introductionmentioning

confidence: 99%

“…As for bacteria, the following genera are dominant: Bacillus (Bento et al 2005 ; Fatima et al 2015 ), Pseudomonas (Fatima et al 2015 ), Staphylococcus (Moscoso et al 2012 ; Silva et al 2015 ), Acinetobacter (Chang et al 2011 ; Mnif et al 2015 ) and Paenibacillus (Lipińska et al 2015 ), while as regards fungi, the following genera predominate: Aspergillus (Diaz-Ramirez et al 2013 ; El-Hanafy et al 2017 ) and Candida (Fan et al 2014 ; Silva et al 2015 ). These products can also be removed from soil by, inter alia, biostimulation of autochthonous microorganisms (Adam et al 2017 ; Fan et al 2014 ), bioaugmentation (Chang et al 2011 ; Fan et al 2014 ; Galiulin and Galiulina 2015 ; Semrany et al 2012 ), phytoremediation (Agnello et al 2016 ; Sivitskaya and Wyszkowski 2013 ; Soleimani et al 2010 ) and electro-bioremediation (Shrestha et al 2010 ; Yuan et al 2016 ; Wang et al 2012 ). It is important, however, to observe the response of both cultured microorganisms (Kucharski and Jastrzębska 2005 ; Soleimani et al 2010 ; Wyszkowska et al 2015 ) to soil contamination and the enzymes of importance in terms of soil quality, i.e.…”

Section: Introductionmentioning

confidence: 99%

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Resistance of aerobic microorganisms and soil enzyme response to soil contamination with Ekodiesel Ultra fuel

Borowik

Wyszkowska

Wyszkowski

2017

Environ Sci Pollut Res

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This study determined the susceptibility of cultured soil microorganisms to the effects of Ekodiesel Ultra fuel (DO), to the enzymatic activity of soil and to soil contamination with PAHs. Studies into the effects of any type of oil products on reactions taking place in soil are necessary as particular fuels not only differ in the chemical composition of oil products but also in the composition of various fuel improvers and antimicrobial fuel additives. The subjects of the study included loamy sand and sandy loam which, in their natural state, have been classified into the soil subtype 3.1.1 Endocalcaric Cambisols. The soil was contaminated with the DO in amounts of 0, 5 and 10 cm3 kg−1. Differences were noted in the resistance of particular groups or genera of microorganisms to DO contamination in loamy sand (LS) and sandy loam (SL). In loamy sand and sandy loam, the most resistant microorganisms were oligotrophic spore-forming bacteria. The resistance of microorganisms to DO contamination was greater in LS than in SL. It decreased with the duration of exposure of microorganisms to the effects of DO. The factor of impact (IFDO) on the activity of particular enzymes varied. For dehydrogenases, urease, arylsulphatase and β-glucosidase, it had negative values, while for catalase, it had positive values and was close to 0 for acid phosphatase and alkaline phosphatase. However, in both soils, the noted index of biochemical activity of soil (BA) decreased with the increase in DO contamination. In addition, a positive correlation occurred between the degree of soil contamination and its PAH content.

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Microbial communities in pyrene amended soil–compost mixture and fertilized soil

Cited by 18 publications

References 75 publications

Implications of Soil Pollution with Diesel Oil and BP Petroleum with ACTIVE Technology for Soil Health

Implications of Soil Pollution with Diesel Oil and BP Petroleum with ACTIVE Technology for Soil Health

Anaerobic degradation of phenanthrene by a sulfate‐reducing enrichment culture

Resistance of aerobic microorganisms and soil enzyme response to soil contamination with Ekodiesel Ultra fuel

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