Monitoring of bacterial communities during low temperature thermal treatment of activated sludge combining DNA phylochip and respirometry techniques

Investigation of lysing excess sludge slurry using hydrolase secreting thermophilic bacterial communities

Sludge reduction is a critical challenge in biological wastewater treatment. Combining excess sludge slurry lysis technology with traditional activated sludge processes is a promising approach for in-situ sludge reduction. Here, a strategy for excess sludge slurry lysis based on thermophilic bacterial communities (LTBC) was proposed. This investigation focused on the process of excess sludge slurry lysis dominated by thermophilic bacterial communities domesticated at different temperatures (55-75 °C). The evolution of sludge lysate was analyzed, and the mechanism of excess sludge slurry lysis under the action of thermophilic bacterial communities was elucidated through amplicon sequencing analysis. The results demonstrated that the aerobic thermophilic bacterial communities adapted to 75 °C exhibit the highest efficiency in sludge slurry lysis. During LTBC process, the removal efficiency of volatile suspended solids reached 53.9 ± 1.8% within 2 h, and 97.0 ± 1.0% of the protein and 96.0 ± 1.0% of the polysaccharide in the extracellular polymers was solubilized, and bacterial cell walls in sludge were disrupted. Fourier transform infrared spectroscopy and excitation-emission matrix spectroscopy of the sludge lysate demonstrated that the LTBC process was accompanied by humification process. The accumulation of humic acid primarily occurred at 55 °C and 65 °C, while fulvic acid occurred at 75 °C. The thermophilic bacterial communities adapted to 75 °C were dominated by Thermus and Thermaerobacter. Phylogenetic studies showed that the LTBC hydrolase system comprises enzymes related to protein hydrolysis, carbohydrate hydrolysis, and peptidoglycan hydrolysis, including metalopeptidase MepB, neutral α-glucosidase C, N-acetyl Muramyl-L-alanine amidase, and others enzymes. These results provide a theoretical basis for the application of LTBC technology in the reduction of sludge which generated in traditional waste water activated sludge processes.

Combination of sequencing batch reactor activated sludge process with sludge lysis using thermophilic bacterial community for minimizing excess sludge

Sludge reduction is a major challenge in biological wastewater treatment. Hydrolytic enzymes secreted by thermophilic bacteria can lyse sludge and thus achieve sludge reduction, and the indigenous thermophilic community in sludge can lyse sludge more effectively. In this study, the feasibility of combining a sludge lysis reactor based on thermophilic bacteria community (LTBC reactor, 75 °C) with a conventional sequencing batch activated sludge reactor (SBR) for sludge reduction (i.e., LTBC-SBR process) was systematically investigated first time. The effect of lysed sludge returning to the biochemical tank on pollutant removal efficiency, sludge flocculation, sludge settling, and microbial community and function of the LTBC-SBR process was studied. In the LTBC1-SBR process, a sludge growth rate of 0.71 g TSS/day was observed when the lysed sludge reflux ratio (LRR) was 1, and the sludge generation was reduced by 81.5% compared to the conventional SBR reactor. In the LTBC1-SBR process, the removal efficiencies of chemical oxygen demand and total nitrogen were 94.0% and 80.5%, respectively. There was no significant difference in the sludge volume index from the SBR to the LTBC1-SBR stage, however, the effluent suspended solids concentration increased from 35.2 ± 2.1 mg/L to 80.1 ± 5.3 mg/L. This was attributed to the reflux of sludge lysate. In addition, the changes in extracellular polymers content and composition resulted in poor sludge flocculation performance. Heterotrophic bacteria associated with Actinobacteria and Patescibacteria enriched in LTBC1-SBR with relative abundance of 28.51 ± 1.25% and 20.01 ± 1.21%, respectively, which decomposed the macromolecules in the refluxed lysed sludge and contributed to the sludge reduction. Furthermore, due to the inhibition of nitrite-oxidizing bacteria, the nitrite concentration in the effluent of the LTBC1-SBR system reached 4.7 ± 1.1 mg/L, and part of the denitrification process was achieved by short-cut nitrification and simultaneous denitrification. These results indicate that in-situ sludge reduction technology based on lyse sludge lysing by thermophilic community has considerable potential to be widely used in wastewater treatment.

Response of high-, mid- and low-abundant taxa and potential pathogens to eight disinfection methods and their interactions in domestic hot water system

Eight disinfection methods were applied to control biofilm contamination in domestic hot water system. The inactivation efficiency, responses of high- (≥1%), mid- (0.1% ~ 1%) and low-abundant taxa (≤0.1%) to disinfection, and interactions within and across three sub-communities were investigated. Ultraviolet was the most effective disinfection method for total bacteria and Escherichia coli, and chlorine dioxide had the highest inactivation efficiency on heterotrophic bacteria, while silver ions exhibited poor performance on all of them. At the phylum level, the responses of microorganisms to eight disinfection methods were different, but Proteobacteria and Firmicutes dominated in most samples. Eight disinfection methods had a greater impact on the proportion of high- and mid-abundant taxa than that of low-abundant taxa, and led to dissimilar transformations of genera among high-, mid- and low-abundant taxa in each sample. High-, mid- and low-abundant taxa of different samples showed similar structures and were roughly clustered into three Groups. Moreover, high-abundant taxa had more complex internal interactions than mid- and low-abundant taxa, and mainly presented co-occurrence patterns. The associations between high- and low-abundant taxa were close, and some low-abundant genera were identified as hub bacteria, such as Paracoccus, Thioalkalispira and Flavitalea. Furthermore, a total of 23 potential pathogens were detected in this study, and they mainly showed positive interactions, with Mycobacteria and Streptococcus as keystone genera. These results highlight the dissimilar responses of high-, mid- and low-abundant taxa to disinfection, and the critical role of some low-abundant genera in the microbial network, as well as the co-occurrence patterns among potential pathogens.

Standard methods for the assessment of structural and functional diversity of soil organisms: A review

The lack of standardized methods to study soil organisms prevents comparisons across data sets and the development of new global and regional experiments and assessments. Moreover, standardized methods are needed to evaluate the impact of anthropogenic stressors, such as chemicals, on soil organism communities in the regulatory context. The goal of this contribution is to summarize current methodological approaches to measure structural and functional diversity of soil organisms, and to identify gaps and methodological improvements so as to cross data sets generated worldwide. This is urgently needed because several currently ongoing regional and global soil biodiversity studies are not coordinated with one another in terms of methodology, including database development. Therefore, we evaluated the standard methods to sample, identify, determine, and assess soil organisms currently applied or proposed, using well-accepted criteria such as ecological relevance; practicability of usage in terms of resources, time, and costs; and the level of standardization. Methods addressing both the structure and the functions of soil organisms (populations or communities) are included, with a special focus on new molecular methods based on nucleic acid extraction and further analyses by polymerase chain reaction (PCR)-based approaches for microorganisms and invertebrates. We particularly highlight the activities of the Technical Committee (TC) 190 of the International Organization for Standardization (ISO) because ISO guidelines are legally accredited by many national or international authorities when they put conservation laws and regulations into practice. Finally, we propose detailed recommendations regarding gaps in the available set of standards, in order to identify a list of new methods to be standardized. We propose to organize this whole process under the Global Soil Biodiversity Initiative (GSBI) in order to ensure a truly global approach for the assessment of soil biodiversity. Integr Environ Assess Manag 2018;14:463-479. © 2018 SETAC.

Assessing water quality by ratio of the number of dominant bacterium species between surface/subsurface sediments in Haihe River Basin

Sedimentary microorganisms can be used as a sensitive indicator of integrated aquatic environment quality assessment and indicate long-term water quality or toxicity. According to the Chinese National Standards of GB 3838-2002 and GB 18918-2002, the comprehensive water quality in Haihe River Basin has been described. Results showed that the comprehensive water quality in 6 sites, 4 sites, and 20 sites were good, bad, and medium. Furthermore, 162 dominant bacterial species were identified in surface and subsurface sediments in the 30 sampling sites. As revealed by two initial models constructed by logistic regression, the comprehensive water quality exhibited a pattern from good to bad as the ratio of the number of dominant bacterial species in surface sediments to that in subsurface sediments increased from 1 to 2.1. This finding possibly bridged a traditional gap between aquatic microbe indicators and water quality assessment or monitoring techniques.

Effects of ultrasonic-assisted thermophilic bacteria pretreatment on hydrolysis, acidification, and microbial communities in waste-activated sludge fermentation process

A novel pretreatment method combining ultrasonic with thermophilic bacteria (Geobacillus sp. G1) was employed to pretreat waste-activated sludge (WAS) for enhancing the WAS hydrolysis and subsequent volatile fatty acids (VFAs) production. The soluble protein and carbohydrate were mostly released from intracellular ultrasonic-assisted Geobacillus sp. G1 pretreatment, and accumulated to 917 ± 70 and 772 ± 89 mg COD/L, respectively, which were 2.53- and 2.62-fold higher than that obtained in control test. Excitation emission matrix (EEM) fluorescence spectroscopy revealed the highest fluorescence intensity (FI) of protein-like substances, indicating the synergistic effect of ultrasonic and Geobacillus sp. G1 pretreatments on WAS hydrolysis. The maximum VFAs accumulation was 4437 ± 15 mg COD/L obtained in ultrasonic-assisted Geobacillus sp. G1 pretreatment test. High-throughput pyrosequencing analysis investigated that the microbial communities were substantial determined by the pretreatment used. The hydrolysis enhancement was caused by an increase in extracellular enzymes, which was produced by one of dominant species Caloramator sp. The positive effect was well explained to the enhancement of WAS hydrolysis and final VFAs accumulation.

Freezing/thawing pretreatment coupled with biological process of thermophilic Geobacillus sp. G1: Acceleration on waste activated sludge hydrolysis and acidification

A novel pretreatment method combining freezing/thawing with Geobacillus sp. G1 was employed to pretreat waste activated sludge (WAS) for enhancing the WAS hydrolysis and subsequent short-chain fatty acids (SCFAs) production. Results showed that freezing/thawing combined with Geobacillus sp. G1 pretreatment achieved the maximal concentrations of soluble protein from 40±6mg COD/L (non-pretreated) to 1226±24mg COD/L (pretreated), and accumulated SCFAs concentration increased from 248±81mg COD/L to 3032±53mg COD/L. Excitation emission matrix (EEM) fluorescence spectroscopy revealed the highest fluorescence intensity (FI) of protein-like substances, which was the dominant fluorescent organic matters, indicating the synergistic effect of freezing/thawing and Geobacillus sp. G1 pretreatment on organics hydrolysis. High-throughput pyrosequencing analysis investigated that the abundance of bacteria responsible for WAS hydrolysis (such as Clostridium and Caloramator) and SCFAs production (such as Parabacteroides and Bacterodies) was greatly enhanced due to the novel pretreatment method used.

Effect of S-TE (solubilization by thermophilic enzyme) digestion conditions on hydrogen production from waste sludge

S-TE (solubilization by thermophilic enzyme) digestion was always used for waste sludge solubilization and reduction with the theory of lysis enzyme secreted by thermophilic bacteria. The effects of pretreated times, pH and sludge concentrations on S-TE digestion were investigated to determine the optimum S-TE conditions on hydrogen fermentation from waste sludge. The experimental results showed that the protein, carbohydrate and SCOD (soluble chemical oxygen demand) were released after S-TE pretreatment, and the optimal conditions on sludge solubilization were 12-16 h, pH 7-9 and 4.31 g/L TSS, respectively. The optimal S-TE conditions on hydrogen yields were 8h, pH 6 and 6.83 g/L TSS (total suspended solid), and the maximum hydrogen yields were 30.80 ml/g VSS (volatile suspended solid), 33.75 ml/g VSS and 42.90 ml H2/g VSS, respectively. It was concluded that the optimal S-TE digestion conditions on sludge solubilization were different from that on hydrogen production.

Comparing the effects of three pre-treatment disintegration techniques on aerobic sludge digestion: biodegradability enhancement and microbial community monitoring by PCR-DGGE

The objectives of this work were to compare and investigate the effect of three activated sludge disintegration processes before aerobic sludge digestion on 1) aerobic biodegradability enhancement and 2) microbial community evolution using the polymerase chain reaction-denaturant gel gradient electrophoresis (PCR-DGGE) technique. The comparison of three disintegration processes: thermal treatment (95 degrees C, 2h), sonication (100,000 kJ/kgTS) and ozonation (0.108 g O3/gTS) showed that the disintegration processes acted differently according to the composition of the soluble phase and to the DNA damage. Thermal treatment led to significant protein solubilization and to DNA modification. Sonication and ozonation resulted in similar soluble phase compositions and did not lead to any DNA modifications. During activated sludge aerobic digestion, intrinsic biodegradability enhancement was observed for thermal and ozone activated sludge pre-treatments. The analysis of the DGGE patterns at the end of aerobic digestion showed that population diversity was affected by both the aerobic digestion and the pre-treatment. The dissimilarity percentages measured at the end of aerobic digestion in the control sample and in the treated sludge were equal to 22, 25 and 20% for thermal treatment, sonication and ozonation respectively. This study indicated that PCR-DGGE could be a useful tool for the comparison of disintegration processes before and after aerobic digestion.

Effects of solids retention time on methanogenesis in anaerobic digestion of thickened mixed sludge

When a bench-scale digester fed thickened mixed sludge was operated over an SRT range of 4-20 days, removal efficiencies for total chemical oxygen demand and volatile suspended solids declined with decreasing SRT (especially <10 days), but methanogenesis was stable for SRT as low as 5 days. Quantitative PCR analyses showed that methanogens declined steadily for SRT<10 days, with the acetate-cleaving Methanosaetaceae becoming more dominant. Clone-library analyses indicated significant shifts in bacterial population from 20 to 4 day SRT: declining Chloroflexi (28 to 4.5%) and Syntrophomonas (9 to 0%), but increasing Bacteroidetes (12.5 to 20%) and two acetogenic genera belonging to the phyla Firmicutes and Spirochaetales (6.3 to 12%). Thus, the decrease in the apparent hydrolysis constant (khyd-app) with higher SRT and the process limiting size of Methanosaetaceae with the lower SRT are proactive signs for defining rate limitation in anaerobic digestion.

The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide

One of the major factors associated with global change is the ever-increasing concentration of atmospheric CO(2). Although the stimulating effects of elevated CO(2) (eCO(2)) on plant growth and primary productivity have been established, its impacts on the diversity and function of soil microbial communities are poorly understood. In this study, phylogenetic microarrays (PhyloChip) were used to comprehensively survey the richness, composition and structure of soil microbial communities in a grassland experiment subjected to two CO(2) conditions (ambient, 368 p.p.m., versus elevated, 560 p.p.m.) for 10 years. The richness based on the detected number of operational taxonomic units (OTUs) significantly decreased under eCO(2). PhyloChip detected 2269 OTUs derived from 45 phyla (including two from Archaea), 55 classes, 99 orders, 164 families and 190 subfamilies. Also, the signal intensity of five phyla (Crenarchaeota, Chloroflexi, OP10, OP9/JS1, Verrucomicrobia) significantly decreased at eCO(2), and such significant effects of eCO(2) on microbial composition were also observed at the class or lower taxonomic levels for most abundant phyla, such as Proteobacteria, Firmicutes, Actinobacteria, Bacteroidetes and Acidobacteria, suggesting a shift in microbial community composition at eCO(2). Additionally, statistical analyses showed that the overall taxonomic structure of soil microbial communities was altered at eCO(2). Mantel tests indicated that such changes in species richness, composition and structure of soil microbial communities were closely correlated with soil and plant properties. This study provides insights into our understanding of shifts in the richness, composition and structure of soil microbial communities under eCO(2) and environmental factors shaping the microbial community structure.

NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads

Motivation: Datasets from high-throughput sequencing technologies have yielded a vast amount of data about organisms in environmental samples. Yet, it is still a challenge to assess the exact organism content in these samples because the task of taxonomic classification is too computationally complex to annotate all reads in a dataset. An easy-to-use webserver is needed to process these reads. While many methods exist, only a few are publicly available on webservers, and out of those, most do not annotate all reads.

Results: We introduce a webserver that implements the naïve Bayes classifier (NBC) to classify all metagenomic reads to their best taxonomic match. Results indicate that NBC can assign next-generation sequencing reads to their taxonomic classification and can find significant populations of genera that other classifiers may miss.

Availability: Publicly available at: http://nbc.ece.drexel.edu.

Contact:gailr@ece.drexel.edu