Taxonomic and functional variations in the microbial community during the upgrade process of a full-scale landfill leachate treatment plant – from conventional to partial nitrification-denitrification

• Upgrade process was investigated in a full-scale landfill leachate treatment plant. • The optimization of DO can technically achieve the shift from CND to PND process. • Nitrosomonas was mainly responsible for ammonium oxidation in PND system. • An obviously enrichment of Thauera was found in the PND process. • Enhanced metabolic potentials on organics was found during the process update. Because of the low access to biodegradable organic substances used for denitrification, the partial nitrification-denitrification process has been considered as a low-cost, sustainable alternative for landfill leachate treatment. In this study, the process upgrade from conventional to partial nitrification-denitrification was comprehensively investigated in a full-scale landfill leachate treatment plant (LLTP). The partial nitrification-denitrification system was successfully achieved through the optimizing dissolved oxygen and the external carbon source, with effluent nitrogen concentrations lower than 150 mg/L. Moreover, the upgrading process facilitated the enrichment of Nitrosomonas (abundance increased from 0.4% to 3.3%), which was also evidenced by increased abundance of amoA/B/C genes carried by Nitrosomonas. Although Nitrospira (accounting for 0.1%–0.6%) was found to stably exist in the reactor tank, considerable nitrite accumulation occurred in the reactor (reaching 98.8 mg/L), indicating high-efficiency of the partial nitrification process. Moreover, the abundance of Thauera, the dominant denitrifying bacteria responsible for nitrite reduction, gradually increased from 0.60% to 5.52% during the upgrade process. This process caused great changes in the microbial community, inducing continuous succession of heterotrophic bacteria accompanied by enhanced metabolic potentials toward organic substances. The results obtained in this study advanced our understanding of the operation of a partial nitrification-denitrification system and provided a technical case for the upgrade of currently existing full-scale LLTPs.     

Molecular approaches for the detection and monitoring of microbial communities in bioaerosols: A review

Bioaerosols significantly affect atmospheric processes while they undergo long-range vertical and horizontal transport and influence atmospheric chemistry and physics and climate change. Accumulating evidence suggests that exposure to bioaerosols may cause adverse health effects, including severe disease. Studies of bioaerosols have primarily focused on their chemical composition and largely neglected their biological composition and the negative effects of biological composition on ecosystems and human health. Here, current molecular methods for the identification, quantification, and distribution of bioaerosol agents are reviewed. Modern developments in environmental microbiology technology would be favorable in elucidation of microbial temporal and spatial distribution in the atmosphere at high resolution. In addition, these provide additional supports for growing evidence that microbial diversity or composition in the bioaerosol is an indispensable environmental aspect linking with public health.     

Culturomics and metagenomics: In understanding of environmental resistome

State of the art of culturomics and metagenomics to study resistome was presented. The combination of culturomics and metagenomics approaches was proposed. The research directions of antibiotic resistance study has been suggested. Pharmaceutical residues, mainly antibiotics, have been called “emerging contaminants” in the environment because of their increasing frequency of detection in aquatic and terrestrial systems and their sublethal ecological effects. Most of them are undiscovered. Both human and veterinary pharmaceuticals, including antibiotics, are introduced into the environment via many different routes, including discharges from municipal wastewater treatment plants and land application of animal manure and biosolids to fertilize croplands. To gain a comprehensive understanding of the widespread problem of antibiotic resistance, modern and scientific approaches have been developed to gain knowledge of the entire antibiotic-resistant microbiota of various ecosystems, which is called the resistome. In this review, two omics methods, i.e. culturomics, a new approach, and metagenomics, used to study antibiotic resistance in environmental samples, are described. Moreover, we discuss how both omics methods have become core scientific tools to characterize microbiomes or resistomes, study natural communities and discover new microbes and new antibiotic resistance genes from environments. The combination of the method for get better outcome of both culturomics and metagenomics will significantly advance our understanding of the role of microbes and their specific properties in the environment.     

Distribution of antibiotic resistance genes and their association with bacteria and viruses in decentralized sewage treatment facilities

• Distribution of ARGs in decentralized sewage facilities were investigated. • Bacitracin-ARGs were most predominant ARGs in rural wastewater. • ARGs were identified in bacterial and viral community. • ARGs of rpoB, drfE, gyrA and parC were both correlated with bacteria and phages. • More attention should be paid to the risk of spreading ARG by phages. The distribution of antibiotic resistance genes (ARGs) has been intensively studied in large-scale wastewater treatment plants and livestock sources. However, small-scale decentralized sewage treatment facilities must also be explored due to their possible direct exposure to residents. In this study, six wastewater treatment facilities in developed rural areas in eastern China were investigated to understand their risks of spreading ARGs. Using metagenomics and network analysis tools, ARGs and bacterial and viral communities were identified in the influent (INF) and effluent (EFF) samples. The dominant ARGs belonged to the bacitracin class, which are different from most of municipal wastewater treatment plants (WWTPs). The dominant hosts of ARGs are Acidovorax in bacterial communities and Prymnesiovirus in viral communities. Furthermore, a positive relationship was found between ARGs and phages. The ARGs significantly correlated with phages were all hosted by specific genera of bacteria, indicating that phages had contributed to the ARG’s proliferation in sewage treatment facilities. Paying significant concern on the possible enhanced risks caused by bacteria, viruses and their related ARGs in decentralized sewage treatment facilities is necessary.     

Discovery of novel halogenase genes using sequence-driven metagenomics approach北大核心CSCD

It is of great significance to ability to obtain new natural products with diverse activities through the study of soil microorganisms. However, less than 1% of the total soil microorganisms can be cultured under laboratory conditions, thus limiting the discovery of new compounds. Metagenomics, by which the genomic DNA of soil microorganisms can be extracted and expressed in heterologous hosts, provides a new approach for the functional study of soil microorganisms. Natural halides have good bioactivities, including antibacterial and antitumor activities. Halogenases play an important role in biosynthesis, and introducing bioactivities of halogenated compounds. To investigate the potential of halogenated compounds production from soil microorganisms, a soil metagenomic library was screened by PCR for clones harboring reduced flavin adenine dinucleotide (FADH2) - dependent halogenase genes. Sixty-five positive clones were identified from the library, and the amino acid sequences of halogenase genes within the positive clones were analyzed. Phylogenetic analyses revealed that more than 85% of these genes were separated from known halogenases to form new clades in the phylogenetic tree; moreover the soilderived halogenases showed high diversity. By further biosynthetic gene analysis of the positive clones, a new type I polyketide biosynthetic gene sequence was identified, which is probably related to the biosynthesis of the halogenated type I polyketide. In conclusion, novel and diverse halogenase genes were identified on sixty-five metagenomic clones using a sequence-driven metagenomic approach, laying a foundation for the further discovery of novel natural halides biosynthetic gene clusters and halides. © 2018 Science Press. All rights reserved.