Application of gene-shuffling for the rapid generation of novel [FeFe]-hydrogenase libraries.

A gene-shuffling technique was identified, optimized and used to generate diverse libraries of recombinant [FeFe]-hydrogenases. Six native [FeFe]-hydrogenase genes from species of Clostridia were first cloned and separately expressed in Escherichia coli concomitantly with the assembly proteins required for [FeFe]-hydrogenase maturation. All enzymes, with the exception of C. thermocellum HydA, exhibited significant activity when expressed. Single-stranded DNA fragments from genes encoding the two most active [FeFe]-hydrogenases were used to optimize a gene-shuffling protocol and generate recombinant enzyme libraries. Random sampling demonstrates that several shuffled products are active. This represents the first successful application of gene-shuffling using hydrogenases. Moreover, we demonstrate that a single set of [FeFe]-hydrogenase maturation proteins is sufficient for the heterologous assembly of the bioinorganic active site of several native and shuffled [FeFe]-hydrogenases.

Microbial community activities during establishment, performance, and decline of bench-scale passive treatment systems for mine drainage.

Permeable reactive barrier (PRB) technology, in which sulfate-reducing bacteria (SRB) facilitate precipitation of metal sulfides, is a promising approach for remediation of sulfate- and metal-laden mine drainage. While PRBs are easily established, they often decline for reasons not well understood. SRB depend on or compete with multiple dynamic microbial populations within a PRB; as a result, performance depends on the changing PRB chemical composition and on succession and competition within the microbial community. To investigate these interactions, we constructed and monitored eight bench-scale PRBs to define periods of establishment, performance, and decline. We then conducted short-term batch studies, using substrate-supplemented column materials, on Days 0 (pre-establishment), 27 (establishment), 41 (performance), and 99 (decline) to reveal potential activities of cellulolytic bacteria, fermenters + anaerobic respirers, SRB, and methanogens. PRBs showed active sulfate reduction, with sulfate removal rates (SRR) of approximately 1-3 mol/m3/d, as well as effective removal of Zn2+. Potential activities of fermentative + anaerobic respiratory bacteria were initially high but diminished greatly during establishment and dropped further during performance and decline. In contrast, potential SRB activity rose during establishment, peaked during performance, and diminished as performance declined. Potential methanogen activity was low; in addition, SRB-methanogen substrate competition was shown not to limit SRB activity. Cellulolytic bacteria showed no substrate limitation at any time. However, fermenters experienced substrate limitation by Day 0, SRB by Day 27, and methanogens by Day 41, showing the dependence of each group on upstream populations to provide substrates. All potential activities, except methanogenesis, were ultimately limited by cellulose hydrolysis; in addition, all potential activities except methanogenesis declined substantially by Day 99, showing that long-term substrate deprivation strongly diminished the intrinsic capacity of the PRB community to perform.

Natural organic matter affects arsenic speciation and sorption onto hematite.

Arsenic mobility in natural environments is controlled primarily by sorption onto metal oxide surfaces, and the extent of this sorption may be influenced strongly by the presence of other dissolved substances that interact with surfaces or with arsenic itself. Natural organic matter (NOM), a prevalent constituent of natural waters, is highly reactive toward both metals and surfaces and is thus a clear candidate to influence arsenic mobility. The objectives of this study were therefore to reveal the influences of diverse NOM samples on the sorption of arsenic onto hematite, a model metal oxide, as well as to reveal influences of arsenic on the sorption of NOM, using conditions and concentrations relevant to natural freshwater environments. Of the six NOM samples tested, four formed aqueous complexes with arsenate and arsenite. The extent of complexation varied with the NOM origin and, in particular, increased with the cationic metal (primarily Fe) content of the NOM sample. In addition, every NOM sample showed active redox behavior toward arsenic species, indicating that NOM may greatly influence redox as well as complexation speciation of arsenic in freshwater environments. When NOM and As were incubated together with hematite, NOM dramatically delayed the attainment of sorption equilibrium and diminished the extent of sorption of both arsenate and arsenite. Consistent with this result, when NOM and As were introduced sequentially, all NOM samples displaced sorbed arsenate and arsenite from hematite surfaces, and arsenic species similarly displaced sorbed NOM from hematite in significant quantities. Competition between NOM and As for sorption thus appears to be a potentially important process in natural waters, suggesting that NOM may play a greater role in arsenic mobility than previously recognized. In addition, in all sorption experiments, arsenite was consistently desorbed or prevented from sorbing to a greater extent than arsenate, indicating that interactions with NOM may also partially explain the generally greater mobility of arsenite in natural environments.