Genetics and Biochemistry of Biphenyl and PCB Biodegradation

Agulló, Loreine; Pieper, Dietmar H.; Seeger, Michael

doi:10.1007/978-3-319-39782-5_30-1

Cited by 4 publications

(2 citation statements)

References 133 publications

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“…This presence of chlorobenzoates as dead‐end metabolites in PCB biodegradation presents a problem as they are toxic to the PCB degraders . Typically, PCBs consist of at least 60 different congeners, and microorganisms were shown to act on only a fraction of these . This prompted research into various ways to optimize the activities of related enzymes in PCB biodegradation .…”

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confidence: 99%

“…This prompted research into various ways to optimize the activities of related enzymes in PCB biodegradation . However, most of the research on enzyme optimization was mainly directed toward biphenyl‐1,2‐dioxygenase, as this is the key enzyme that specifies the types of congeners to be degraded by a PCB degrader . The presence of dead‐end metabolites presents another problem as they halt the biodegradation process, and hence the need for research on how to deal with them .…”

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confidence: 99%

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Dechlorination of polychlorobiphenyl degradation metabolites by a recombinant glutathione S‐transferase from Acidovorax sp. KKS102

Shehu

Alias

2019

FEBS Open Bio

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A glutathione S ‐transferase ( GST ) with a potential dehalogenation function against various organochlorine substrates was identified from a polychlorobiphenyl ( PCB )‐degrading organism, Acidovorax sp. KKS 102. A homolog of the gene BphK (biphenyl upper pathway K), named BphK‐ KKS , was cloned, purified and biochemically characterized. Bioinformatic analysis indicated several conserved amino acids that participated in the catalytic activity of the enzyme, and site‐directed mutagenesis of these conserved amino acids revealed their importance in the enzyme's catalytic activity. The wild‐type and mutant (C10F, K107T and A180P) recombinant proteins displayed wider substrate specificity. The wild‐type recombinant GST reacted towards 1‐chloro‐2,4‐dinitrobenzene ( CDNB ), ethacrynic acid, hydrogen peroxide and cumene hydroperoxide. The mutated recombinant proteins, however, showed significant variation in specific activities towards the substrates. A combination of a molecular docking study and a chloride ion detection assay showed potential interaction with and a dechlorination function against 2‐, 3‐ and 4‐chlorobenzoates (metabolites generated during PCB biodegradation) in addition to some organochlorine pesticides (dichlorodiphenyltrichloroethane, endosulfan and permethrin). It was demonstrated that the behavior of the dechlorinating activities varied among the wild‐type and mutant recombinant proteins. Kinetic studies (using CDNB and glutathione) showed that the kinetic parameters K m , V max , K cat and K m / K cat were all affected by the mutations. While C10F and A180P mutants displayed an increase in GST activity and the dechlorination function of the enzyme, the K107T mutant displayed variable results, suggesting a functional role of Lys107 in determining substrate specificity of the enzyme. These results demonstrated that the enzyme should be valuable in the bioremediation of metabolites generated during PCB biodegradation.

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confidence: 99%

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confidence: 99%

Dechlorination of polychlorobiphenyl degradation metabolites by a recombinant glutathione S‐transferase from Acidovorax sp. KKS102

Shehu

Alias

2019

FEBS Open Bio

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Rhizoremediation of Persistent Organic Pollutants (POPs) from the Soil

Gogoi,

Sarma

2023

Land Remediation and Management: Bioengineering Strategies

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C1 compounds shape the microbial community of an abandoned century-old oil exploration well

Rojas‐Gätjens¹,

Fuentes-Schweizer

Rojas-Jiménez

et al. 2020

Preprint

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The search for microorganisms that degrade hydrocarbons is highly relevant because it enables the bioremediation of these substances cheaply and without dangerous by-products. In this work, we studied the microbial communities of an exploratory oil well, abandoned a century ago, located in the Cahuita National Park of Costa Rica. Cahuita well is characterized by a continuous efflux of methane and the presence of a mixture of hydrocarbons including C2-dibenzothiophene, phenanthrene or anthracene, fluoranthene pyrene, dibenzothiophene, tricyclic terpanes, pyrene, sesquiterpenes, sterane and n-alkanes. Based on the analysis of 16S rRNA gene amplicons, we detected a significant abundance of methylotrophic bacteria (Methylobacillus (6.3-26.0 % of total reads) and Methylococcus (4.1-30.6 %)) and the presence of common genera associated with hydrocarbon degradation, such as Comamonas (0.8-4.6 %), Hydrogenophaga (1.5-3.3 %) Rhodobacter (1.0-4.9 %) and Flavobacterium (1.1-6.5 %). We evidenced the presence of methane monooxygenase (MMO) activities, responsible for the first step in methane metabolism, by amplifying the pmo gene from environmental DNA. We also isolated a strain of Methylorubrum rhodesianum, which was capable of using methanol as its sole carbon source. This work represents a contribution to the understanding of the ecology of communities of microorganisms in environments with permanently high concentrations of methane and hydrocarbons, which also has biotechnological implications for the bioremediation of highly polluting petroleum components.

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Genetics and Biochemistry of Biphenyl and PCB Biodegradation

Cited by 4 publications

References 133 publications

Dechlorination of polychlorobiphenyl degradation metabolites by a recombinant glutathione S‐transferase from Acidovorax sp. KKS102

Dechlorination of polychlorobiphenyl degradation metabolites by a recombinant glutathione S‐transferase from Acidovorax sp. KKS102

Rhizoremediation of Persistent Organic Pollutants (POPs) from the Soil

C1 compounds shape the microbial community of an abandoned century-old oil exploration well

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