Probe-based qPCR assay enables the rapid and specific detection of bacterial degrading genes for the pesticide metaldehyde in soil

Castro-Gutiérrez, Víctor; Hassard, Francis; Moir, James

doi:10.1016/j.mimet.2022.106447

Cited by 5 publications

(5 citation statements)

References 22 publications

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“…Checking the presence of key degradative genes has been used to predict the likelihood of successful remediation of soils contaminated with specific organic compounds (Baelum et al, 2010;Sinkkonen et al, 2014;Castro-Gutierrez et al, 2022;Wilms et al, 2023). A prerequisite to determine the suitability of this approach is that the degradation pathway is known, at least in part (Salminen et al, 2008).…”

Section: Biostimulation Vs Bioaugmentationmentioning

confidence: 99%

Bioremediation of contaminated soil and groundwater by in situ biostimulation

Romantschuk,

Lahti-Leikas,

Kontro

et al. 2023

Front. Microbiol.

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Bioremediation by in situ biostimulation is an attractive alternative to excavation of contaminated soil. Many in situ remediation methods have been tested with some success; however, due to highly variable results in realistic field conditions, they have not been implemented as widely as they might deserve. To ensure success, methods should be validated under site-analogous conditions before full scale use, which requires expertise and local knowledge by the implementers. The focus here is on indigenous microbial degraders and evaluation of their performance. Identifying and removing biodegradation bottlenecks for degradation of organic pollutants is essential. Limiting factors commonly include: lack of oxygen or alternative electron acceptors, low temperature, and lack of essential nutrients. Additional factors: the bioavailability of the contaminating compound, pH, distribution of the contaminant, and soil structure and moisture, and in some cases, lack of degradation potential which may be amended with bioaugmentation. Methods to remove these bottlenecks are discussed. Implementers should also be prepared to combine methods or use them in sequence. Chemical/physical means may be used to enhance biostimulation. The review also suggests tools for assessing sustainability, life cycle assessment, and risk assessment. To help entrepreneurs, decision makers, and methods developers in the future, we suggest founding a database for otherwise seldom reported unsuccessful interventions, as well as the potential for artificial intelligence (AI) to assist in site evaluation and decision-making.

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Section: Biostimulation Vs Bioaugmentationmentioning

confidence: 99%

Bioremediation of contaminated soil and groundwater by in situ biostimulation

Romantschuk,

Lahti-Leikas,

Kontro

et al. 2023

Front. Microbiol.

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“…A degradation pathway was proposed based on the activity of the products of the mahX gene and the contiguous genes in the cluster, mahY and aldH (). Furthermore, quantitative polymerase chain reaction (qPCR) analyses indicated that peaks in the amount of mahX a nd mahY g enes in soil coincided with metaldehyde removal in 50 % of the soils tested, supporting the environmental relevance of this pathway [8].…”

Section: Introductionmentioning

confidence: 99%

“…1 ). Furthermore, quantitative polymerase chain reaction (qPCR) analyses indicated that peaks in the amount of mahX a nd mahY g enes in soil coincided with metaldehyde removal in 50 % of the soils tested, supporting the environmental relevance of this pathway [ 8 ].…”

Section: Introductionmentioning

confidence: 99%

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Dissemination of metaldehyde catabolic pathways is driven by mobile genetic elements in Proteobacteria

et al. 2022

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Bioremediation of metaldehyde from drinking water using metaldehyde-degrading strains has recently emerged as a promising alternative. Whole-genome sequencing was used to obtain full genomes for metaldehyde degraders Acinetobacter calcoaceticus E1 and Sphingobium CMET-H. For the former, the genetic context of the metaldehyde-degrading genes had not been explored, while for the latter, none of the degrading genes themselves had been identified. In A. calcoaceticus E1, IS91 and IS6-family insertion sequences (ISs) were found surrounding the metaldehyde-degrading gene cluster located in plasmid pAME76. This cluster was located in closely-related plasmids and associated to identical ISs in most metaldehyde-degrading β- and γ-Proteobacteria, indicating horizontal gene transfer (HGT). For Sphingobium CMET-H, sequence analysis suggested a phytanoyl-CoA family oxygenase as a metaldehyde-degrading gene candidate due to its close homology to a previously identified metaldehyde-degrading gene known as mahX. Heterologous gene expression in Escherichia coli alongside degradation tests verified its functional significance and the degrading gene homolog was henceforth called mahS. It was found that mahS is hosted within the conjugative plasmid pSM1 and its genetic context suggested a crossover between the metaldehyde and acetoin degradation pathways. Here, specific replicons and ISs responsible for maintaining and dispersing metaldehyde-degrading genes in α, β and γ-Proteobacteria through HGT were identified and described. In addition, a homologous gene implicated in the first step of metaldehyde utilisation in an α-Proteobacteria was uncovered. Insights into specific steps of this possible degradation pathway are provided.

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“…[10][11][12] It is worthwhile to point out that, in some cases, the pesticide degradation products are more toxic than the native substances 13 and that pesticide molecules can be degraded relatively rapidly in plants and soils according to the types of treatments and agronomic practices. 14,15 Synthetic pyrethroids are like the natural pyrethrins and were widely used in agriculture and as household insecticides. 16,17 Consequently, their application in the environment can cause the pollution of soils and surface and ground waters.…”

Section: Introductionmentioning

confidence: 99%

Photodegradation study of the fenvalerate insecticide by 1H NMR, 13C NMR, and GC-MS and structural elucidation of its transformation products

Thiaré

Diaw

Mbaye

et al. 2022

Maced. J. Chem. Chem. Eng.

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The photolysis of fenvalerate, a pyrethroid insecticide, was studied in acetonitrile by 1H nuclear magnetic resonance (NMR) and 13C NMR to identify the site of bond cleavage and gas chromatography-mass spectrometry (GC-MS) to establish the chemical structure of fenvalerate photoproducts. Ultraviolet (UV) irradiation of fenvalerate solutions was performed for 18 h with a solar light simulator, and the photolysis reaction obeyed first-order kinetics. Photolysis half-life time (t1/2) values ranged between 15.25 and 21.63 h (mean photodegradation percentage = 51.7 %) for 1H NMR and between 4.55 and 8.06 h (mean photodegradation percentage > 80 %) for 13C NMR. We observed five sites of bond cleavage, namely carbonyl-tertiary carbon, tertiary carbon-tertiary carbon, carbonyl-oxygen, carboxyl-tertiary carbon, and aromatic carbon-tertiary carbon, yielding photoproducts formation. GC-MS was associated with 1H NMR and 13C NMR to obtain a complete photodegradation mechanism. Before UV irradiation, two chromatogram peaks were obtained, due to the two fenvalerate isomers. Under irradiation, both peaks decreased, and new peaks appeared, corresponding to photoproduct formation. After a 12- to 13-h irradiation, 99.39 % of fenvalerate was degraded with a mean rate constant of 0.305 h–1. The chemical structure of the formed photoproducts was identified, either by using the National Institute of Standards and Technology (NIST) mass spectral database or by interpreting the mass spectra. Finally, a detailed mechanism was proposed for fenvalerate photodegradation.

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Probe-based qPCR assay enables the rapid and specific detection of bacterial degrading genes for the pesticide metaldehyde in soil

Cited by 5 publications

References 22 publications

Bioremediation of contaminated soil and groundwater by in situ biostimulation

Bioremediation of contaminated soil and groundwater by in situ biostimulation

Dissemination of metaldehyde catabolic pathways is driven by mobile genetic elements in Proteobacteria

Photodegradation study of the fenvalerate insecticide by 1H NMR, 13C NMR, and GC-MS and structural elucidation of its transformation products

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