Quantifying bacterial efflux within subcellular domains of .

Molecular efflux is a mechanism through which bacteria actively expel undesirable substances. This is a crucial line of defense against toxic chemicals in harsh environments. Understanding how efflux works is critical for designing antimicrobial strategies.

Chemical Method for Recovery and Regeneration of Graphene Oxide.

Graphene oxide (GO) has been developed as a very effective medium for filtration and removal of microbial contaminants in fuel. GO is capable of filtering out microorganisms without needing micrometer and submicrometer pores for filtration. Our previous studies showed that microorganisms are attracted by GO and bind irreversibly to GO without promoting bacterial growth.

Electrochemical biosensor for rapid detection of fungal contamination in fuel systems.

There is an increased demand for real-time monitoring of biological and biochemical processes. While most sensor research focuses on physiological conditions, less has been done towards developing real-time biosensors that can operate in and survive exposure to extreme environments and harsh chemicals such as fuel. One interesting application is monitoring microbial load in fuel tanks to prevent both fuel spoilage and biocorrosion.

Metagenome-Assembled Genomes of 12 Bacterial Species from Biofouled Plastic Fabrics Harbor Multiple Genes for Degradation of Hydrocarbons.

We report the metagenome-assembled genomes (MAGs) of 12 different bacterial species recovered from environmental microbiomes associated with biofouled plastic fabrics. The MAGs have estimated sizes of 2.53 to 7.

Black Yeast Genomes Assembled from Plastic Fabric Metagenomes Reveal an Abundance of Hydrocarbon Degradation Genes.

We report the assembly and annotation of 10 different black yeast genomes from microbiome metagenomic data derived from biofouled plastic fabrics. The draft genomes are estimated to be 9 to 33.2 Mb, with 357 to 5,108 contigs and G+C contents of 43.

GC-MS hydrocarbon degradation profile data of SI8, a bacterium capable of degrading aromatics at low temperatures.

The ability of the psychrotrophic bacterium SI8 to grow and degrade aromatic hydrocarbons efficiently at low temperature is shown in this study. The robust growth of SI8 was demonstrated in jet fuel and an aromatic blend. The bacterium showed 2.

Shotgun metagenomic data of microbiomes on plastic fabrics exposed to harsh tropical environments.

The development of more affordable high-throughput DNA sequencing technologies and powerful bioinformatics is making of shotgun metagenomics a common tool for effective characterization of microbiomes and robust functional genomics. A shotgun metagenomic approach was applied in the characterization of microbial communities associated with plasticized fabric materials exposed to a harsh tropical environment for 14 months. High-throughput sequencing of TruSeq paired-end libraries was conducted using a whole-genome shotgun (WGS) approach on an Illumina HiSeq2000 platform generating 100 bp reads.

Impact of Self-Assembled Monolayer Design and Electrochemical Factors on Impedance-Based Biosensing.

Real-time sensing of proteins, especially in wearable devices, remains a substantial challenge due to the need to convert a binding event into a measurable signal that is compatible with the chosen analytical instrumentation. Impedance spectroscopy enables real-time detection via either measuring electrostatic interactions or electron transfer reactions while simultaneously being amenable to miniaturization for integration into wearable form-factors. To create a more robust methodology for optimizing impedance-based sensors, additional fundamental studies exploring components influencing the design and implementation of these sensors are needed.

Draft Genome Sequence of sp. Isolate LEC01, a Fungus Capable of Hydrocarbon Degradation.

sp. isolate LEC01 is adapted to grow in the presence of jet fuel, employing genes involved in the degradation of alkanes and aromatic hydrocarbons. The draft genome is estimated at 31,407,988 bp and has 9,737 proteins, 50.

Draft Genome Sequence of Achromobacter spanius Strain 6, a Soil Bacterium Isolated from a Hydrocarbon-Degrading Microcosm.

Achromobacter spanius strain 6 is a Gram-negative soil bacterium isolated from a hydrocarbon-degrading microcosm. The draft genome sequence of A. spanius strain 6 is 6.

Draft Genome Sequence of Byssochlamys sp. Isolate BYSS01, a Filamentous Fungus Adapted to the Fuel Environment.

sp. isolate BYSS01 (anamorph, sp.), which was isolated from jet fuel, is highly adapted to grow in hydrocarbons, having predicted genes involved in degradation of -alkanes, branched alkanes, and aromatic compounds.

Draft Genome Sequence of , a Fungus Adapted to the Fuel Environment.

isolate FUS01 is highly adapted to grow in jet fuel with predicted genes involved in hydrocarbon catabolism and carbon assimilation. The draft genome size is estimated at 49 Mb containing 18,578 proteins with high similarity to that of isolate B14.

Draft Genome Sequence of Strain 19, an Isolate Capable of Efficient Degradation of Aromatic Hydrocarbons.

strain 19 is a Gram-negative bacterium capable of degrading aromatic hydrocarbons. The draft genome of 19 is estimated to be 5.1 Mb, containing 4,652 protein-coding genes and a G+C content of 63.

A comprehensive multi-omics approach uncovers adaptations for growth and survival of Pseudomonas aeruginosa on n-alkanes.

Background: Examination of complex biological systems has long been achieved through methodical investigation of the system's individual components. While informative, this strategy often leads to inappropriate conclusions about the system as a whole. With the advent of high-throughput "omic" technologies, however, researchers can now simultaneously analyze an entire system at the level of molecule (DNA, RNA, protein, metabolite) and process (transcription, translation, enzyme catalysis).

Transcriptomic Analyses Elucidate Adaptive Differences of Closely Related Strains of Pseudomonas aeruginosa in Fuel.

can utilize hydrocarbons, but different strains have various degrees of adaptation despite their highly conserved genome. ATCC 33988 is highly adapted to hydrocarbons, while strain PAO1, a human pathogen, is less adapted and degrades jet fuel at a lower rate than does ATCC 33988. We investigated fuel-specific transcriptomic differences between these strains in order to ascertain the underlying mechanisms utilized by the adapted strain to proliferate in fuel.

Draft Genome Sequence of Nocardioides luteus Strain BAFB, an Alkane-Degrading Bacterium Isolated from JP-7-Polluted Soil.

Nocardioides luteus strain BAFB is a Gram-positive bacterium that efficiently degrades C to C alkanes aerobically. The draft genome of N. luteus BAFB is 5.

Draft Genome Sequence of Gordonia sihwensis Strain 9, a Branched Alkane-Degrading Bacterium.

Gordonia sihwensis strain 9 is a Gram-positive bacterium capable of efficient aerobic degradation of branched and normal alkanes. The draft genome of G. sihwensis S9 is 4.

Draft Genome Sequence of Pseudomonas frederiksbergensis SI8, a Psychrotrophic Aromatic-Degrading Bacterium.

Pseudomonas frederiksbergensis strain SI8 is a psychrotrophic bacterium capable of efficient aerobic degradation of aromatic hydrocarbons. The draft genome of P. frederiksbergensis SI8 is 6.

Draft Genome Sequence of Rhodovulum sp. Strain NI22, a Naphthalene-Degrading Marine Bacterium.

Rhodovulum sp. strain NI22 is a hydrocarbon-degrading member of the genus Rhodovulum. The draft genome of Rhodovulum sp.

Draft Genome Sequence of Pseudomonas aeruginosa ATCC 33988, a Bacterium Highly Adapted to Fuel-Polluted Environments.

Pseudomonas aeruginosa ATCC 33988 is highly adapted to grow in jet and diesel fuel, with a defined regulation of adaptive genes and metabolization of n-alkanes. The draft genome of strain ATCC 33988 is 6.4 Mb in size, with 5,975 coding sequences and 66.

Fate of malathion and a phosphonic acid in activated sludge with varying solids retention times.

This study examined the ability of activated sludge (AS) to sorb and biodegrade ethylmethylphosphonic acid (EMPA) and malathion, a degradation product and surrogate, respectively, for an organophosphate chemical warfare agent. Sorption equilibrium isotherm experiments indicate that sorption of EMPA and malathion to AS is negligible. EMPA at a concentration of 1 mg L(-1) degraded by approximately 30% with apparent first-order kinetics, possibly via co-metabolism from nitrification.

Transcriptional profiling suggests that multiple metabolic adaptations are required for effective proliferation of Pseudomonas aeruginosa in jet fuel.

Fuel is a harsh environment for microbial growth. However, some bacteria can grow well due to their adaptive mechanisms. Our goal was to characterize the adaptations required for Pseudomonas aeruginosa proliferation in fuel.

Graphene oxide: a nonspecific enhancer of cellular growth.

There have been multiple conflicting reports about the biocompatibility and antimicrobial activity of graphene oxide. To address this, we conducted a study to characterize the antimicrobial properties of graphene oxide (GO) and its biocompatibility with mammalian cells. When GO was added to a bacterial culture at 25 μg/mL, the results showed that bacteria grew faster and to a higher optical density than cultures without GO.

Characterization of mercury bioremediation by transgenic bacteria expressing metallothionein and polyphosphate kinase.

Background: The use of transgenic bacteria has been proposed as a suitable alternative for mercury remediation. Ideally, mercury would be sequestered by metal-scavenging agents inside transgenic bacteria for subsequent retrieval. So far, this approach has produced limited protection and accumulation.