Denitrifying and methanogenic bacteria in the biofilm of a fixed-film reactor operated with methanol/nitrate demonstrated by immunofluorescence and microscopy

Simultaneous carbon and nitrogen removal from anaerobic effluent of the cassava ethanol industry

This study investigated the simultaneous carbon and nitrogen removal from anaerobic effluent of cassava stillage using a lab-scale integrated system consisting of an upflow anaerobic sludge blanket (UASB) reactor and an activated sludge (AS) process. Simultaneous denitrification and methanogenesis (SDM) was observed in the UASB with nitrate recirculation. Compared with the blank reactor without recirculation, the overall chemical oxygen demand (COD) removal efficiencies in the combined system with nitrate recirculation were similar (80-90%), while the TN removal efficiencies were significantly improved from 4.7% to 71.0%. Additionally, the anaerobic COD removal efficiencies increased from 21% to 40% as the recirculation ratio decreased from 3 to 1. Although the influent nitrate concentrations fluctuated (60-140 mg N/L), the nitrate removal efficiencies could be maintained at about 97% under different recirculation conditions. With the decreasing recirculation ratio from 3 to 1, the CH₄ content in biogas improved from 2% to 40% while the N₂ content reduced from 95.8% to 50.6%. The 16S rDNA sequencing results indicated that bacteria diversity in anaerobic SDM granular sludge was much higher than archaea. The effect of recirculation ratios on the bacterial and archaeal communities in SDM granular sludge could be further confirmed by the relative abundance of denitrifying bacteria.

Molecular ecology of anaerobic reactor systems

Anaerobic reactor systems are essential for the treatment of solid and liquid wastes and constitute a core facility in many waste treatment plants. Although much is known about the basic metabolism in different types of anaerobic reactors, little is known about the microbes responsible for these processes. Only a few percent of Bacteria and Archaea have so far been isolated, and almost nothing is known about the dynamics and interactions between these and other microorganisms. This lack of knowledge is most clearly exemplified by the sometimes unpredictable and unexplainable failures and malfunctions of anaerobic digesters occasionally experienced, leading to sub-optimal methane production and wastewater treatment. Using a variety of molecular techniques, we are able to determine which microorganisms are active, where they are active, and when they are active, but we still need to determine why and what they are doing. As genetic manipulations of anaerobes have been shown in only a few species permitting in-situ gene expression studies, the only way to elucidate the function of different microbes is to correlate the metabolic capabilities of isolated microbes in pure culture to the abundance of each microbe in anaerobic reactor systems by rRNA probing. This chapter focuses on various molecular techniques employed and problems encountered when elucidating the microbial ecology of anaerobic reactor systems. Methods such as quantitative dot blot/fluorescence in-situ probing using various specific nucleic acid probes are discussed and exemplified by studies of anaerobic granular sludge, biofilm and digester systems.

Molecular biology of stress genes in methanogens: potential for bioreactor technology

Many agents of physical, chemical, or biological nature, have the potential for causing cell stress. These agents are called stressors and their effects on cells are due to protein denaturation. Cells, microbes, for instance, perform their physiological functions and survive stress only if they have their proteins in the necessary concentrations and shapes. To be functional a protein shape must conform to a specific three-dimensional arrangement, named the native configuration. When a stressor (e.g., temperature elevation or heat shock, decrease in pH, hypersalinity, heavy metals) hits a microbe, it causes proteins to lose their native configuration, which is to say that stressors cause protein denaturation. The cell mounts an anti-stress response: house-keeping genes are down-regulated and stress genes are activated. Among the latter are the genes that produce the Hsp70(DnaK), Hsp60, and small heat protein (sHsp) families of stress proteins. Hsp70(DnaK) is part of the molecular chaperone machine together with Hsp40(DnaJ) and GrpE, and Hsp60 is a component of the chaperonin complex. Both the chaperone machine and the chaperonins play a crucial role in assisting microbial proteins to reach their native, functional configuration and to regain it when it is partially lost due to stress. Proteins that are denatured beyond repair are degraded by proteases so they do not accumulate and become a burden to the cell. All Archaea studied to date possess chaperonins but only some methanogens have the chaperone machine. A recent genome survey indicates that Archaea do not harbor well conserved equivalents of the co-chaperones trigger factor, Hip, Hop, BAG-1, and NAC, although the data suggest that Archaea have proteins related to Hop and to the NAC alpha subunit whose functions remain to be elucidated. Other anti-stress means involve osmolytes, ion traffic, and formation of multicellular structures. All cellular anti-stress mechanisms depend on genes whose products are directly involved in counteracting the effects of stressors, or are regulators. The latter proteins monitor and modulate gene activity. Biomethanation depends on the concerted action of at least three groups of microbes, the methanogens being one of them. Their anti-stress mechanisms are briefly discussed in this Chapter from the standpoint of their role in biomethanation with emphasis on their potential for optimizing bioreactor performance. Bioreactors usually contain stressors that come with the influent, or are produced during the digestion process. If the stressors reach levels above those that can be dealt with by the anti-stress mechanisms of the microbes in the bioreactor, the microbes will die or at least cease to function. The bioreactor will malfunction and crash. Manipulation of genes involved in the anti-stress response, particularly those pertinent to the synthesis and regulation of the Hsp70(DnaK) and Hsp60 molecular machines, is a promising avenue for improving the capacity of microbes to withstand stress, and thus to continue biomethanation even when the bioreactor is loaded with harsh waste. The engineering of methanogenic consortia with stress-resistant microbes, made on demand for efficient bioprocessing of stressor-containing effluents and wastes, is a tangible possibility for the near future. This promising biotechnological development will soon become a reality due to the advances in the study of the stress response and anti-stress mechanisms at the molecular and genetic levels.

Monitoring the denitrifying Hyphomicrobium DNA/DNA hybridization group HG 27 in activated sludge and lake water using MPN cultivation and subsequent screening with the gene probe Hvu-1

Gene probe Hvu-1 is specific for the Hyphomicrobium DNA/DNA-hybridization group HG 27. This group is one of the dominant populations of denitrifying hyphomicrobia in the activated sludge of the sewage treatment plant Plön. The wastewater treatment process of this treatment plant can be characterized as a combination of simultaneous and intermittent nitrification and denitrification. Using this specific probe Hvu-1 (combined with the most-probable-number method and colony hybridization) the abundance of this denitrifying Hyphomicrobium population in activated sludge and in the adjacent receiving Lake Kleiner Plöner See was investigated as a subfraction of total facultatively anaerobic hyphomicrobia. A 15-month monitoring of the activated sludge and of the lake water was conducted to determine temporal variations of the occurrence of this specific population. During the sampling period total facultatively anaerobic hyphomicrobia remained very constant over a year (9 x 10(4) to 6 x 10(5) ml-1). The population of the denitrifying Hyphomicrobium DNA/DNA-hybridization group HG 27 amounted to approximately 30% of the total facultatively anaerobic hyphomicrobia found in the activated sludge. Significant correlations to environmental background parameters or seasonal variations of this population were not found. Furthermore, this specific denitrifying Hyphomicrobium population has no importance for the lake ecosystem.