Anaerobic Digestion of Renewable Biomass: Thermophilic Temperature Governs Methanogen Population Dynamics

Beet silage and beet juice were digested continuously as representative energy crops in a thermophilic biogas fermentor for more than 7 years. Fluorescence microscopy of 15 samples covering a period of 650 days revealed that a decrease in temperature from 60°C to 55°C converted a morphologically uniform archaeal population (rods) into a population of methanogens exhibiting different cellular morphologies (rods and coccoid cells). A subsequent temperature increase back to 60°C reestablished the uniform morphology of methanogens observed in the previous 60°C period. In order to verify these observations, representative samples were investigated by amplified rRNA gene restriction analysis (ARDRA) and fluorescence in situ hybridization (FISH). Both methods confirmed the temperature-dependent population shift observed by fluorescence microscopy. Moreover, all samples investigated demonstrated that hydrogenotrophic Methanobacteriales dominated in the fermentor, as 29 of 34 identified operational taxonomic units (OTUs) were assigned to this order. This apparent discrimination of acetoclastic methanogens contradicts common models for anaerobic digestion processes, such as anaerobic digestion model 1 (ADM1), which describes the acetotrophic Euryarchaeota as predominant organisms.The replacement of fossil fuels by renewable energy sources such as agricultural crops is gaining momentum internationally as a means to decrease emissions from conventional fuel sources impacting global warming (39). Thereby, biogasification using energy crops is the only fuel-producing process with a closed CO₂ and nutrient cycle (8). The production of biogas from plant waste or other organic materials is a feasible strategy in view of both ecology and economy (63). Fodder beet was chosen as the renewable biomass source for a thermophilic biogas fermentor because the European Union decreased the regulatory price for sugar beets in 2006, and therefore many farmers are looking for an alternative use. Furthermore, fodder beet was considered an attractive renewable energy crop due to its high methane yield per hectare (67), as well as the ideal ensiling conditions enabling the storage of beet silage for many years. Furthermore, the sugar beet was only recently identified as one of the most sustainable energy crops with regard to its water footprint when used for biofuel production (22).A long-term experiment was started on 4 July 2001 (see reference 48 for startup details), and the same biogas fermentors are still running stable due to the use of fuzzy logic control (16, 48). During the conversion of biomass to methane, four different microbial processes can be distinguished: hydrolysis, acidogenesis, acetogenesis, and methanogenesis (17, 69). Population changes might therefore impact the entire community by triggering an imbalance that is reflected in the bioreactor performance via accumulation of intermediates such as volatile fatty acids (mainly C₂ and C₃), via pH changes, or via reduced efficiency (52). This work focused on the methanogens which directly reduce CO₂ to CH₄ or use acetate or methylated C₁ compounds as the main substrate to yield methane (35). However, about 65 to 70% of methane produced by methanogens is assumed to originate from acetate (4, 5), and the so-called acetoclastic Euryarchaeota are also dominant in many biogas fermentors used for anaerobic wastewater treatment and sewage sludge digestion (17, 24, 30, 53).Our results seem to contradict these assumptions, as they clearly demonstrate that hydrogenotrophic methanogens can dominate during a thermophilic fermentation process with renewable biomass (16, 49-51). It appears that temperature has a decisive influence on the type of archaeal morphotypes present, as rod-like methanogens dominated at 60°C periods, whereas different morphotypes of methanogens appeared when 55°C conditions were enabled. However, studies elucidating the population dynamics of both acetotrophic and hydrogenotrophic methanogens during the anaerobic digestion of particulate solid biomass for biogas production are rather scarce. These population processes remain somewhat of a “black box” (12) due to the lack of data concerning the microbial consortia involved therein. Molecular biological techniques such as those targeting the 16S rRNA gene represent a valuable addition to culture-based techniques for studying the biodiversity and structure of complex microbial communities. By targeting methanogens, this study aimed to improve our insight into the poorly understood population dynamics of anaerobic digestion processes and how they are linked to operating conditions such as temperature.