Enrichment of dissimilatory Fe(III)-reducing bacteria from groundwater of the Siklós BTEX-contaminated site (Hungary)

Farkas, Milán; Szoboszlay, Sándor; Benedek, Tibor; Révész, Fruzsina; Veres, Péter G.; Kriszt, Balázs; Táncsics, Andräs

doi:10.1007/s12223-016-0473-8

Cited by 16 publications

(15 citation statements)

References 33 publications

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“…Microbial community analysis at a greater taxonomic resolution showed that both the freshly retrieved and incubated Fe(III)-coated and uncoated pumice slurries unamended with electron donors enriched for a close relative to Rhodoferax ferrireducens (6.4 and 5.8%, freshly retrieved; 15 and 2%, incubated with no electron donor; Figure 8). Similar to previous observations (Islam et al, 2004;Rowland et al, 2007;Hery et al, 2010;Zhuang et al, 2011;Farkas et al, 2017), electron donor addition altered the community diversity at the Genus level. Deployed Fe(III)-coated pumice slurries amended with electron donors enriched a higher population of Fe(III)-reducers (80% of the identified species) compared to the deployed uncoated pumice slurries amended with electron donors (31% of the identified species).…”

Section: Fe(iii)-reducers Captured By the Deployed "Microbe Baits"supporting

confidence: 89%

A Novel “Microbial Bait” Technique for Capturing Fe(III)-Reducing Bacteria

et al. 2020

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Microbial reduction of Fe(III) is a key geochemical process in anoxic environments, controlling the degradation of organics and the mobility of metals and radionuclides. To further understand these processes, it is vital to develop a reliable means of capturing Fe(III)-reducing microorganisms from the field for analysis and lab-based investigations. In this study, a novel method of capturing Fe(III)-reducing bacteria using Fe(III)-coated pumice "microbe-baits" was demonstrated. The methodology involved the coating of pumice (approximately diameter 4 to 6 mm) with a bioavailable Fe(III) mineral (akaganeite), and was verified by deployment into a freshwater spring for 2 months. On retrieval, the coated pumice baits were incubated in a series of lab-based microcosms, amended with and without electron donors (lactate and acetate), and incubated at 20 • C for 8 weeks. 16S rRNA gene sequencing using the Illumina MiSeq platform showed that the Fe(III)-coated pumice baits, when incubated in the presence of lactate and acetate, enriched for Deltaproteobacteria (relative abundance of 52% of the sequences detected corresponded to Geobacter species and 24% to Desulfovibrio species). In the absence of added electron donors, Betaproteobacteria were the most abundant class detected, most heavily represented by a close relative to Rhodoferax ferrireducens (15% of species detected), that most likely used organic matter sequestered from the spring waters to support Fe(III) reduction. In addition, TEM-EDS analysis of the Fe(III)-coated pumice slurries amended with electron donors revealed that a biogenic Fe(II) mineral, magnetite, was formed at the end of the incubation period. These results demonstrate that Fe(III)-coated pumice "microbe baits" can potentially help target metal-reducing bacteria for culture-dependent studies, to further our understanding of the nano-scale microbe-mineral interactions in aquifers.

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Section: Fe(iii)-reducers Captured By the Deployed "Microbe Baits"supporting

confidence: 89%

A Novel “Microbial Bait” Technique for Capturing Fe(III)-Reducing Bacteria

et al. 2020

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“…The high abundance of this bacterium in the groundwater of the Siklós site has been noted earlier (Farkas et al . 2017 ). However, aromatic hydrocarbon degrading capability of the type strain has not been tested, and it is currently not available in culture collections.…”

Section: Discussionmentioning

confidence: 99%

“… 2012 , 2013 ; Farkas et al . 2017 ) in Siklós, Hungary, in April 2015. Sediment samples were taken from the bottom of a monitoring well at 6 m below ground surface in the center of the contaminant plume (well ST-2).…”

Section: Methodsmentioning

confidence: 99%

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Stable isotope probing of hypoxic toluene degradation at the Siklós aquifer reveals prominent role of Rhodocyclaceae

Táncsics

Szalay

Farkas

et al. 2018

FEMS Microbiology Ecology

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The availability of oxygen is often a limiting factor for the degradation of aromatic hydrocarbons in subsurface environments. However, while both aerobic and anaerobic degraders have been intensively studied, degradation betwixt, under micro- or hypoxic conditions has rarely been addressed. It is speculated that in environments with limited, but sustained oxygen supply, such as in the vicinity of groundwater monitoring wells, hypoxic degradation may take place. A large diversity of subfamily I.2.C extradiol dioxygenase genes has been previously detected in a BTEX-contaminated aquifer in Hungary. Older literature suggests that such catabolic potentials could be associated to hypoxic degradation. Bacterial communities dominated by members of the Rhodocyclaceae were found, but the majority of the detected C23O genotypes could not be affiliated to any known bacterial degrader lineages. To address this, a stable isotope probing (SIP) incubation of site sediments with 13C7-toluene was performed under microoxic conditions. A combination of 16S rRNA gene amplicon sequencing and T-RFLP fingerprinting of C23O genes from SIP gradient fractions revealed the central role of degraders within the Rhodocyclaceae in hypoxic toluene degradation. The main assimilators of 13C were identified as members of the genera Quatrionicoccus and Zoogloea, and a yet uncultured group of the Rhodocyclaceae.

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“…After ethanol precipitation, fragments were separated on a Model 3130 Genetic Analyzer (Applied Biosystems), while primary evaluation of electropherograms was performed using GeneMapper 4.0 software (Applied Biosystems). T-RFLP data were handled as described earlier (Farkas et al 2017). Cluster analysis (Jaccard and Bray-Curtis methods) of the T-RFLP electropherograms was performed using the PAST software package.…”

Section: Dna Isolation and T-rflp Fingerprintingmentioning

confidence: 99%

Microaerobic conditions caused the overwhelming dominance of Acinetobacter spp. and the marginalization of Rhodococcus spp. in diesel fuel/crude oil mixture-amended enrichment cultures

et al. 2019

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The aim of the present study was to reveal how different microbial communities evolve in diesel fuel/crude oil-contaminated environments under aerobic and microaerobic conditions. To investigate this question, aerobic and microaerobic bacterial enrichments amended with a diesel fuel/crude oil mixture were established and analysed. The representative aerobic enrichment community was dominated by Gammaproteobacteria (64.5%) with high an abundance of Betaproteobacteriales (36.5%), followed by Alphaproteobacteria (8.7%), Actinobacteria (5.6%), and Candidatus Saccharibacteria (4.5%). The most abundant alkane monooxygenase (alkB) genotypes in this enrichment could be linked to members of the genus Rhodococcus and to a novel Gammaproteobacterium, for which we generated a high-quality draft genome using genome-resolved metagenomics of the enrichment culture. Contrarily, in the microaerobic enrichment, Gammaproteobacteria (99%) overwhelmingly dominated the microbial community with a high abundance of the genera Acinetobacter (66.3%), Pseudomonas (11%) and Acidovorax (11%). Under microaerobic conditions, the vast majority of alkB gene sequences could be linked to Pseudomonas veronii. Consequently, results shed light on the fact that the excellent aliphatic hydrocarbon degrading Rhodococcus species favour clear aerobic conditions, while oxygen-limited conditions can facilitate the high abundance of Acinetobacter species in aliphatic hydrocarbon-contaminated subsurface environments.

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Enrichment of dissimilatory Fe(III)-reducing bacteria from groundwater of the Siklós BTEX-contaminated site (Hungary)

Cited by 16 publications

References 33 publications

A Novel “Microbial Bait” Technique for Capturing Fe(III)-Reducing Bacteria

A Novel “Microbial Bait” Technique for Capturing Fe(III)-Reducing Bacteria

Stable isotope probing of hypoxic toluene degradation at the Siklós aquifer reveals prominent role of Rhodocyclaceae

Microaerobic conditions caused the overwhelming dominance of Acinetobacter spp. and the marginalization of Rhodococcus spp. in diesel fuel/crude oil mixture-amended enrichment cultures

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