Response of microbial community and catabolic genes to simulated petroleum hydrocarbon spills in soils/sediments from different geographic locations

Liu, Q.; Tang, Jingjing; Liu, Xinxin; Song, Benru; Zhen, Mengmeng; Ashbolt, Nicholas J.

doi:10.1111/jam.13549

Cited by 16 publications

(6 citation statements)

References 45 publications

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“…The results presented above are consistent with the results of research on the metagenomes of oil-contaminated soils. Some authors found an increase in the share of Proteobacteria in soil samples, particularly Gammaproteobacteria 14 – 16 , 84 , 85 , which indicates that this is the best-adapted phylogenetic group for hydrocarbon pollution, particularly in cold environments. They also noted an increase in the abundance of Bacteroidetes, Firmicutes, and Actinobacteria; apparently, in acidic soils of cold climatic zones, an increase in the abundance of Actinobacteria was more noticeable whereas in areas with a warm climate and more alkaline soils, the shares of Bacteroidetes and Firmicutes, which were numerous, also increased.…”

Section: Resultsmentioning

confidence: 99%

Soil microbiota and microarthropod communities in oil contaminated sites in the European Subarctic

Melekhina

Belykh

Маркарова

et al. 2021

Sci Rep

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The present comprehensive study aimed to estimate the aftermath of oil contamination and the efficacy of removing the upper level of polluted soil under the conditions of the extreme northern taiga of northeastern European Russia. Soil samples from three sites were studied. Two sites were contaminated with the contents of a nearby sludge collector five years prior to sampling. The highly contaminated upper soil level was removed from one of them. The other was left for self-restoration. A chemical analysis of the soils was conducted, and changes in the composition of the soil zoocoenosis and bacterial and fungal microbiota were investigated. At both contaminated sites, a decrease in the abundance and taxonomic diversity of indicator groups of soil fauna, oribatid mites and collembolans compared to the background site were found. The pioneer eurytopic species Oppiella nova, Proisotoma minima and Xenyllodes armatus formed the basis of the microarthropod populations in the contaminated soil. A complete change in the composition of dominant taxonomic units was observed in the microbiota, both the bacterial and fungal communities. There was an increase in the proportion of representatives of Proteobacteria and Actinobacteria in polluted soils compared to the background community. Hydrocarbon-degrading bacteria—Alcanivorax, Rhodanobacter ginsengisoli, Acidobacterium capsulatum, and Acidocella—and fungi—Amorphotheca resinae abundances greatly increased in oil-contaminated soil. Moreover, among both bacteria and fungi, a sharp increase in the abundance of uncultivated organisms that deserve additional attention as potential oil degraders or organisms with a high resistance to oil contamination were observed. The removal of the upper soil level was partly effective in terms of decreasing the oil product concentration (from approximately 21 to 2.6 g/kg of soil) and preventing a decrease in taxonomic richness but did not prevent alterations in the composition of the microbiota or zoocoenosis.

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Section: Resultsmentioning

confidence: 99%

Soil microbiota and microarthropod communities in oil contaminated sites in the European Subarctic

Melekhina

Belykh

Маркарова

et al. 2021

Sci Rep

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“…Similarly, total microbial respiration in our microcosms increased following the application of naphthalene on days 17 and 38 (Fig 1). The reduced response in the first 10 days of application may be due to the restructuring of microbial populations under short-term environmental stresses [39, 40]. This finding corresponds to an obvious fluctuation in the ratios of fungi to bacteria, G + to G - bacteria and MBC to MBN in the naphthalene microcosm (Fig 2E and 2F, Fig 3C), which is in agreement with the results showing a reduction in the radial growth of fungal cultures after 6 days of naphthalene treatment [16].…”

Section: Discussionmentioning

confidence: 99%

Naphthalene exerts substantial nontarget effects on soil nitrogen mineralization processes in a subalpine forest soil: A microcosm study

et al. 2019

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Naphthalene has been widely used to test the functional roles of soil fauna, but its nontarget effects remain uncertain in various soils. To determine whether there is a potential nontarget effect on soil biochemical properties in subalpine forest soil, soils in a subalpine forest on the western Qinghai-Tibet Plateau were treated by naphthalene in microcosms. The responses of soil microbial activity and nutrients to naphthalene were studied following 52 days of incubation. The results showed that the naphthalene application obviously decreased the microbial respiration rate in the first 10 days of the incubation and then increased the rate in the following days of the incubation. Moreover, the naphthalene application did not significantly affect the microbial activities overall, measured as soil microbial phospholipid fatty acid (PLFA) abundances and biomasses, or most enzyme activities (invertase, nitrate reductase and nitrite reductase) during the whole incubation period. However, naphthalene suppressed increases in the DON, NH 4 + -N and NO 3 - -N contents and urease activity and led to the net mineralization of inorganic N (NH 4 + -N + NO 3 - -N), in contrast to the net immobilization result in the controls. These results suggest that naphthalene can exert direct nontarget effects on soil microbial respiration and N mineralization processes in subalpine soils. Caution should be taken when using naphthalene to repel soil animals in field experiments.

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“…DNA extracts from contaminated soil (DO microcosms) at days 14 and 63 were used for cloning of the alkB gene. PCR reaction components were as for 16S rRNA gene amplifications, except that the alkB forward (5'-AACTACMTCGARCAYTACGG-3') and reverse (5'-TGAMGATGTGGTYRCTGTTCC-3') primers (Liu et al, 2017) were at a final concentration of 0.4 mM in a total reaction volume of 50 l. PCR amplification was carried out at 94 °C for 3 min, followed by 30 cycles of 94 °C for 45 s, 50 °C for 60 s, 72 °C for 90 s, with a final extension at 72 °C for 10 min. Correct alkB amplicons of ~100 bp were purified from 1.5% (w/v) TAE-agarose gels, cloned into pCR2.1 using a TA cloning Kit (Invitrogen) according to the manufacturer's instructions and submitted for Sanger sequencing (University of Dundee, UK).…”

Section: Qpcr Of the Alkb Genementioning

confidence: 99%

“…In soils, while it has been suggested that community responses are more diverse and less pronounced, highly specific blooms of genera such as Alkanidiges have also been reported (Fuentes et al, 2016). The abundances of primary hydrocarbon-degrading genes such as alkane 1-monooxygenase (alkB), naphthalene dioxygenase (nah) and phenol monooxygenase (phe) also increase as a result of these community changes (Liu et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

Specific enrichment of hydrocarbonclastic bacteria from diesel-amended soil on biochar particles

Assil

Esegbue

Mašek

et al. 2021

Science of The Total Environment

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HIGHLIGHTS• Biochar was evaluated for the biostimulation of hydrocarbon contaminated soils.• Amplicon sequence variants (ASVs) reveal specific soil microbial responses to oil.• Oil amplifies 13 ASVs -putative hydrocarbon degraders -to high relative abundance.• Standard biochars reduce soil diversity loss and are enriched in oil-selected ASVs.• Biochar enriched with endogenous microbes is a promising approach to bioremediation.

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Response of microbial community and catabolic genes to simulated petroleum hydrocarbon spills in soils/sediments from different geographic locations

Abstract: When developing practical in-situ bioremediation approaches for PHs contamination of soils/sediment, appropriate microbial community structures and the abundance of PH-degrading genes appear to be influenced by geographic location.

Cited by 16 publications

References 45 publications

Soil microbiota and microarthropod communities in oil contaminated sites in the European Subarctic

Soil microbiota and microarthropod communities in oil contaminated sites in the European Subarctic

Naphthalene exerts substantial nontarget effects on soil nitrogen mineralization processes in a subalpine forest soil: A microcosm study

Specific enrichment of hydrocarbonclastic bacteria from diesel-amended soil on biochar particles

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