Bacterial metal resistance genes and metal bioavailability in contaminated sediments

Roosa, Stéphanie; Wattiez, Ruddy; Prygiel, Émilie; Lesven, Ludovic; Billon, Gabriel; Gillan, David

doi:10.1016/j.envpol.2014.02.031

Cited by 131 publications

(57 citation statements)

References 60 publications

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“…1B, 2 and S1B). The copA is encoding for a periplasmic multi-copper oxidase which specified in plasmids, and this system needs oxygen contrary to the other systems such P-type ATPases and cation diffusion facilitators (Roosa et al, 2014). This could explain the reduction of copA abundance and gene copies in AD of this study.…”

Section: Reduction Of Mrgsmentioning

confidence: 63%

“…Presumably, proteins encoded in the pco gene cluster are responsible for the handling of periplasmic copper delivered by CopA from the cytoplasm, and also there is significant Table 2 The profiles of the target ARGs in previous and the present studies correlation between pcoA and copA in this study. The czc operon is driven by a H + ion gradient that allows czcA (plasmid-borne Cd/Zn/Co resistance) to pump heavy metals out of the cytoplasm, and it has been demonstrated that the measurement of czcA gene levels could be used to estimate Cd/Zn/Co bioavailability in sediment compartments (Roosa et al, 2014). This may indicate that the changes of the speciation of heavy metals happened, and bioavailability of heavy metals may be reduced during AD.…”

Section: Reduction Of Mrgsmentioning

confidence: 99%

“…However, the bio-availability should be taken into account concerning the co-selection of heavy metals, because it is the bioavailable fractions of heavy metals that impose selective pressure on microbes. Moreover, MRGs could show better illustration of the real response of bacteria to the selective pressures caused by heavy metals (Roosa et al, 2014).…”

Section: Reduction Of Mrgsmentioning

confidence: 99%

See 2 more Smart Citations

Fate of antibiotic resistance genes and its drivers during anaerobic co-digestion of food waste and sewage sludge based on microwave pretreatment

Zhang

Chen

Sui

et al. 2016

Bioresource Technology

109

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Section: Reduction Of Mrgsmentioning

confidence: 63%

Section: Reduction Of Mrgsmentioning

confidence: 99%

Section: Reduction Of Mrgsmentioning

confidence: 99%

See 1 more Smart Citation

Fate of antibiotic resistance genes and its drivers during anaerobic co-digestion of food waste and sewage sludge based on microwave pretreatment

Zhang

Chen

Sui

et al. 2016

Bioresource Technology

109

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“…However, the selection pressure caused by heavy metals depend on the form and speciation that is bioavailable (Devi and Saroha, 2014;Li et al, 2010;Roosa et al, 2014). Thus, total heavy metals and copper speciation corresponding to the copper resistance genes were both determined in this study.…”

Section: Heavy Metal Analysismentioning

confidence: 99%

Sludge bio-drying: Effective to reduce both antibiotic resistance genes and mobile genetic elements

et al. 2016

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a b s t r a c tSewage sludge is considered as one of major contributors to the increased environmental burden of ARGs. Sludge bio-drying was increasingly adopted due to its faster sludge reduction compared with composting. The fate of ARGs during full-scale sludge bio-drying was investigated to determine whether it could effectively reduce ARGs, and the contributions of bacterial community, horizontal gene transfer (HGT) through mobile genetic elements (MGEs) and co-selection from heavy metals to ARGs profiles were discussed in detail. Two piles with different aeration strategies (Pile I, the improved and Pile II, the control) were operated to elucidate effects of aeration strategy on ARGs profiles. Results showed that sludge bio-drying could effectively reduce both most of targeted ARGs (0.4e3.1 logs) and MGEs (0.8e3.3 logs) by the improved aeration strategy, which also enhanced both the sludge bio-drying performance and ARGs reduction. The enrichment of ARGs including ermF, tetX and sulII could be well explained by the evolution of bioavailable heavy metals, not HGT through MGEs, and their potential host bacteria mainly existed in Bacteroidetes. Although changes of bacterial community contributed the most to ARGs profiles, HGT through MGEs should be paid more attention especially in the thermophilic stage of sludge bio-drying.

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“…Alternatively, hosts can switch their innate immune response and can overload zinc availability to bacteria, thereby using the toxicity of high levels of zinc (Honsa et al 2013;Palmer and Skaar 2016). In general, bacteria have systems for managing environmental instabilities in zinc, including zinc importers and exporters (Roosa et al 2014;Hao et al 2015), which have sometimes further evolved to cope with host-induced lethal zinc fluctuations (Guilhen et al 2013;Honsa et al 2013;Braymer and Giedroc 2014;Djoko et al 2015;Palmer and Skaar 2016). Increased capacities for both resistance to or scavenging of host zinc have been linked to virulence in bacteria (Shafeeq et al 2013;Hao et al 2015) and often the systems involved exist on plasmids, pathogenicity islands and/or near transposable elements, thereby enabling their efficient transferal among bacteria (Roosa et al 2014).…”

Section: A Queenslandicamentioning

confidence: 99%

Horizontal gene transfer in the sponge Amphimedon queenslandica

Higgie¹

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Horizontal gene transfer (HGT) is the nonsexual transfer of genetic sequence across species boundaries.Historically, HGT has been assumed largely irrelevant to animal evolution, though widely recognised as an important evolutionary force in bacteria. From the recent boom in whole genome sequencing, many cases have emerged strongly supporting the occurrence of HGT in a wide range of animals.However, the extent, nature and mechanisms of HGT in animals remain poorly understood. Here, I explore these uncertainties using 576 HGTs previously reported in the genome of the demosponge Amphimedon queenslandica.The HGTs derive from bacterial, plant and fungal sources, contain a broad range of domain types, and many are differentially expressed throughout development. Some domains are highly enriched; phylogenetic analyses of the two largest groups, the Aspzincin_M35 and the PNP_UDP_1 domain groups, suggest that each results from one or few transfer events followed by post-transfer duplication.Their differential expression through development, and the conservation of domains and duplicates, together suggest that many of the HGT-derived genes are functioning in A. queenslandica. The largest group consists of aspzincins, a metallopeptidase found in bacteria and fungi, but not typically in animals.I detected aspzincins in representatives of all four of the sponge classes, suggesting that the original sponge aspzincin was transferred after sponges diverged from their last common ancestor with the Eumetazoa, but before the contemporary sponge classes emerged. In A. queenslandica, the aspzincins may have been co-opted for multiple functions, since 54 of the 90 fit into one of four ontogenetic expression profiles, each of which is putatively co-expressed with different suites of native genes.Based on secretion signals and the conservation of key catalytic residues, I propose that proteolytic activity is maintained in at least one of the aspzincin roles in A. queenslandica.Mobile elements are capable of genomic excision, movement and integration, they enable HGT in bacteria, and some animal HGTs are genomically close to eukaryotic transposable elements (TEs); as such, mobile elements are speculated as possible players in the mechanisms of interkingdom and interdomain HGT to animals. In A. queenslandica, the overall repeats densities around predicted Together, these results offer novel insight on HGT in A. queenslandica and demonstrate that HGT has a varied nature in this animal with an extensive impact, partially due to post-transfer duplications. Further, this work offers insights on possible mechanisms that led to the HGT derived genes of this sponge. iv Declaration by authorThis thesis is composed of my original work, and contains no material previously published or written by another person except where due reference has been made in the text. I have clearly stated the contribution by others to jointly-authored works that I have included in my thesis.

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Bacterial metal resistance genes and metal bioavailability in contaminated sediments

Cited by 131 publications

References 60 publications

Fate of antibiotic resistance genes and its drivers during anaerobic co-digestion of food waste and sewage sludge based on microwave pretreatment

Fate of antibiotic resistance genes and its drivers during anaerobic co-digestion of food waste and sewage sludge based on microwave pretreatment

Sludge bio-drying: Effective to reduce both antibiotic resistance genes and mobile genetic elements

Horizontal gene transfer in the sponge Amphimedon queenslandica

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