Microbial bioremediation and biosurfactants

Promiscuous NAD-dependent dehydrogenases enable efficient bacterial growth on the PET monomer ethylene glycol

This study identifies NAD-dependent dehydrogenases in Paracoccus denitrificans that enable efficient bacterial growth on ethylene glycol, with implications for biotechnological applications.

Isolation and Screening of Polyethylene Terephthalate (PET)-degrading bacteria from Municipal Waste Disposal Site in West Java, Indonesia

This study isolates and screens PET-degrading bacteria from two landfills in West Java, identifying six isolates with PET degradation activity confirmed by SEM and enzyme assays.

Microbial Worlds Apart: Distinct Communities in Crude Oil and Production Waters

The paper compares microbial communities in crude oil and production water from oil fields, finding that crude oil samples better represent reservoir microbiomes than production water.

Heterologous expression of microbial nitroreductases for TNT degradation in transgenic animals

The paper engineers Drosophila melanogaster to express microbial nitroreductases for TNT degradation screening, finding cofactor-dependent activity in fly lysates.

Characterization of Newly Discovered Polyester Polyurethane-degrading Methylobacterium Aquaticum Strain A1

This paper characterizes Methylobacterium aquaticum A1, a novel strain capable of degrading polyester polyurethane, identifying potential enzyme candidates involved in the process.

Widespread distribution of the BpfA-carrying bacteria involved in the bisphenol F degradation in Pseudomonadota and Actinomycetota

This study identifies a novel oxidase gene, bpfA, involved in bisphenol F degradation and shows its widespread distribution in environmental metagenomes.

Identification and functional characterization of toluene degradation genes in Acinetobacter sp. Tol 5

This study identifies and characterizes the toluene degradation pathway in Acinetobacter sp. Tol 5, revealing its functional TOD genes and their role in aromatic compound metabolism.

Multi-omics insights into the response of Aspergillus parasiticus to long-chain alkanes in relation to polyethylene degradation

This study uses multi-omics analysis to investigate how Aspergillus parasiticus metabolizes long-chain alkanes and secretes enzymes that modify polyethylene, revealing key oxidases and biosurfactants involved in plastic degradation.

Collective Microbial Effects Drive Toxin Bioremediation and Enable Rational Design

This study uses community-function landscapes to design synthetic microbial consortia for BPA degradation, showing that toxicity increases epistasis and enables predictable bioremediation.

Deciphering Reductive Dehalogenase Specificity Through Targeted Mutagenesis of Chloroalkane Reductases

This study identifies key residues in CfrA that alter substrate preference through targeted mutagenesis, showing that two mutations can shift substrate specificity to dichloroethane.

The capability of plant-bacteria consortia to reduce the genotoxicity of unsymmetrical dimethylhydrazine in the environment

This study investigates how plant-bacteria consortia reduce the genotoxicity of UDMH oxidation products using a biosensor and shows synergistic effects with specific plant species.

Genetic bioaugmentation-mediated bioremediation of terephthalate in soil microcosms using an engineered environmental plasmid

The paper demonstrates the use of an engineered environmental plasmid to enable terephthalate degradation in soil by transferring synthetic genes to resident bacteria.

Synergistic biodegradation of polyethylene by experimentally evolved bacterial biofilms

This study evolves bacterial biofilms to enhance polyethylene degradation, finding that evolved communities outperform ancestors through synergistic interactions and metabolic division of labor.

Microbial degradation of a widely used model polyethylene is restricted to medium- and long-chain alkanes and their oxidized derivatives

The paper identifies microbial communities capable of degrading medium- and long-chain alkanes and their oxidized derivatives in polyethylene, revealing the presence of these compounds in the model PE material.

Decoding emergent properties of microbial community functions through sub-community observations and interpretable machine learning

This study uses sub-community analysis and machine learning to predict and interpret microbial community functions, showing that small sub-communities can predict larger community functions.

The Niger Delta is Under a Pollution Warning: Hydrocarbon profiles in crude oil polluted soil remediated with Pleurotus ostreatus and Eisenia fitida.

This study evaluates the effectiveness of Pleurotus ostreatus and Eisenia fetida in reducing hydrocarbon levels in crude oil-polluted soil, finding mushrooms significantly outperform earthworms in hydrocarbon reduction.

Aniline Dioxygenase in Rhodococcus ruber R1: Insights into Skatole Degradation

The paper identifies an aniline dioxygenase operon in Rhodococcus ruber R1 involved in skatole degradation and shows its potential for bioremediation.

Hydrocarbon Metabolism and Petroleum Seepage as Ecological and Evolutionary Drivers for Cycloclasticus

This study identifies two Cycloclasticus variants with distinct hydrocarbon metabolism capabilities linked to oceanic and seep environments, revealing their ecological roles in hydrocarbon cycling.

Contrasting kinetics of highly similar chloroalkane reductive dehalogenases

This study compares the kinetic properties of three closely related chloroalkane reductive dehalogenases, revealing distinct substrate preferences and inhibition sensitivities with implications for bioremediation.

Hydrocarbon-degrading microbial populations in permanently cold deep-sea sediments in the NW Atlantic

The paper examines hydrocarbon-degrading microbial responses in deep-sea sediments to naphtha amendment, finding that seep sediments remove BTEX compounds more effectively than non-seep sediments.

Whole genome sequence and 16S rRNA gene amplicon metagenomics of enhanced in-situ reductive dechlorination at a tetrachloroethene-contaminated superfund site

The paper compares whole genome sequencing and 16S rRNA gene amplicon metagenomics to study enhanced reductive dechlorination at a tetrachloroethene-contaminated site, showing WGS detects more microbial diversity and functional genes.

Biodegradation Potential of Neptunomonas naphthovoran - NAG-2N-126 for Crude Oil Pollution Mitigation: Experimental and Modelling Insights

This study evaluates the biodegradation potential of Neptunomonas naphthovoran NAG-2N-126 for crude oil pollution using experimental and mathematical modeling approaches, showing rapid growth and high aromatic compound degradation rates.

Synthetic bacterial consortium for degradation of plastic pyrolysis oil waste

This paper develops a synthetic bacterial consortium to degrade plastic pyrolysis oil waste, achieving high removal efficiencies for alkanes and aromatic hydrocarbons, and uses a neural network to model microbial activity.

HADEG: A Curated Database of Hydrocarbon Aerobic Degradation Enzymes and Genes

HADEG is a curated database of hydrocarbon aerobic degradation enzymes and genes based on experimental evidence, containing 259, 160, and 32 entries for petroleum, plastic, and biosurfactant degradation, respectively.

Evolution end classification of tfd gene clusters mediating bacterial degradation of 2,4-dichlorophenoxyacetic acid (2,4-D)

The paper classifies tfd gene clusters into four types using comparative genomic and phylogenetic analysis, revealing their evolutionary relationships and structural variations.

Interactive Analysis of Biosurfactants in Fruit-Waste Fermentation Samples using BioSurfDB and MEGAN

The paper analyzes fruit-waste fermentation samples to identify biosurfactant-producing microbes using metagenomic sequencing and integrates BiosurfDB into MEGAN for interactive exploration.

Complete genome sequence and Benzophenone-3 mineralisation potential of Rhodococcus sp. USK10, a bacterium isolated from riverbank sediment.

The paper presents the complete genome sequence of Rhodococcus sp. USK10, which can fully mineralize Benzophenone-3, a UV filter harmful to aquatic life.

CANT-HYD: A curated database of phylogeny-derived Hidden Markov Models for annotation of marker genes involved in hydrocarbon degradation

CANT-HYD provides a database of HMMs for annotating hydrocarbon degradation marker genes, showing widespread metabolic potential and scalability in metagenomic analysis.

Response and oil degradation activities of a northeast Atlantic bacterial community to biogenic and synthetic surfactants.

This study compares how a marine microbial community responds to crude oil with synthetic or biogenic surfactants, finding that synthetic dispersants enhance oil degradation but reduce microbial diversity.

enviLink: A database linking contaminant biotransformation rules to enzyme classes in support of functional association mining