Surface-groundwater interactions play an important role in microbial community compositions of river bank filtrates. Surface water contaminations deriving from environmental influences are attenuated by biogeochemical processes in the hyporheic zone, which are essential for providing clean and high-quality drinking water in abstraction wells. Characterizing the flow regime of surface water into the groundwater body can provide substantial information on water quality, but complex hydraulic dynamics make predictions difficult. Thus, a bottom up approach using microbial community shifting patterns as an overall outcome of dynamic water characteristics could provide more detailed information on the influences that affect groundwater quality. The combination of high-throughput sequencing data together with flow cytometric measurements of total cell counts reveals absolute abundances among taxa, thus enhancing interpretation of bacterial dynamics. 16S rRNA high-throughput sequencing of 55 samples among six wells in a well field in Austria that is influenced by river bank filtrate within a time period of 3 months has revealed both, clear differences as well as strong similarity in microbiome compositions between wells and dates. A significant community shift from April to May occurred in four of six wells, suggesting that surface water flow regimes do affect these wells stronger than others. Triplicate sampling and subsequent sequencing of wells at different dates proved the method to be reproducible. Flow cytometric measurements of total cells indicate microbial shifts due to increased cell counts and emphasize the rise of allochthonous microorganisms. Typical freshwater bacterial lineages (Verrucomicrobia, Bacteroidetes, Actinobacteria, Cyanobacteria, Armatimonadetes) were identified as most increasing phyla during community shifts. The changes are most likely a result of increased water abstraction in the wells together with constant river water levels rather than rain events. The results provide important knowledge for future implementations of well utilization in dependency of the nearby Danube River water levels and can help drawing conclusions about the influence of surface water in the groundwater such that hygienically save and clean drinking water with a stable microbial community can be provided.

It is widely accepted that partial nitrification by ANAMMOX has the potential to become one of the key processes in wastewater treatment. However, large greenhouse gas emissions have been panobserved in many cases. A novel mesh separated reactor, developed to allow continuous operation of deammonification at smaller scale without external biomass selection, was compared to a conventional single-chamber deammonification sequencing batch reactor (SBR), where both were equally-sized pilot-scale reactors. The mesh reactor consisted of an aerated and an anoxic zone separated by a mesh. The resulting differences in the structure of the microbial community were detected by next-generation sequencing. When both systems were operated in a sequencing batch mode, both systems had comparable nitrous oxide emission factors in the range of 4% to 5% of the influent nitrogen load. A significant decrease was observed after switching from sequencing batch mode to continuous operation.

The last decades have seen extensive scientific and technological improvements in many fields of microbiology and molecular biology. Correspondingly, flow cytometry—a rapid, precise and straightforward method for cultivation-independent detection of cells in liquids—has been a major topic in aquatic microbiology and drinking water analysis. Flow cytometry provides information at the single-cell level, including total cell counts, size measurements, nucleic acid content and bacterial viability and activity. While regulatory requirements for water testing rely on cultivation-based methods, flow cytometry can be considered a powerful tool to complement standard procedures.This article provides insights into the methodology and applicability of flow cytometry in the field of microbiological drinking water analysis and presents an overview on several case studies that cover a broad range of different objectives. The later are comprised of a study on flow cytometric characterization of Austrian drinking water resources, of an example for advanced data analysis methods of flow cytometric data, of a study on monitoring microbial regrowth within the distribution network, of an exemplary case of the application of online flow cytometry for high-frequency monitoring and of an introduction to the combination of flow cytometry and sequencing information.Finally, it is argued that due to the high microbiological variability of different water resources, unusual changes of flow cytometric parameters, rather than specific limits, could act as an indicator for further investigation. In this way flow cytometry can provide a good basis for risk assessments in water safety plans. The application of flow cytometry still remains utility-specific and a huge need for standardization of data analysis and interpretation exists in order to achieve a better cooperation of water utilities.

Zusammenfassung Trinkwassergewinnung mittels Uferfiltration gewinnt weltweit und auch in Österreich zunehmend an Bedeutung. Entlang der Donau existieren verschiedene Uferfiltratstandorte, deren Brunnen zu verschiedenen saisonalen Zeitpunkten 2016 und 2017 mittels High-Throughput-Sequencing (Ermittlung der mikrobiellen Zusammensetzung bzw. des Mikrobioms) und mittels Durchflusszytometrie (Gesamtzellzahl) untersucht wurden. Dabei konnten räumliche Unterschiede zwischen den Brunnenfeldern, saisonale Änderungen sowie insbesondere Einflüsse durch Hochwasserereignisse festgestellt werden. Die Erweiterung der Datenbasis durch die Hinzunahme von Sequenzierungsdaten einer Donau-Studie zeigt interessante Möglichkeiten, vorhandenes Wissen mit bioinformatischen Mitteln einzubinden und neue Erkenntnisse zu generieren.