Menachem Y. Sklarz

Mathematical model for analysis of recirculating vertical flow constructed wetlands.

The recirculating vertical flow constructed wetland (RVFCW) was developed for the treatment of domestic wastewater (DWW). In this system, DWW is applied to a vertical flow bed through which it trickles into a reservoir located beneath the bed. It is then recirculated back to the root zone of the bed. In this study, a compartmental model was developed to simulate the RVFCW. The model, which addresses transport and removal kinetics of total suspended solids, 5-day biological oxygen demand and nitrogen, was fitted to kinetical results obtained from pilot field setups and a local sensitivity analysis was performed on the model parameters and operational conditions. This analysis showed that after 5h of treatment water quality is affected more by stochastic events than by the model parameter values, emphasizing the stability of the RVFCW system to large variations in operational conditions. Effluent quality after 1h of treatment, when the sensitivity analysis showed the parameter impacts to be largest, was compared to model predictions. The removal rate was found to be dependent on the recirculation rate. The predictions correlated well with experimental observations, leading to the conclusion that the proposed model is a satisfactory tool for studying RVFCWs.

Evaluating amplified rDNA restriction analysis assay for identification of bacterial communities

Amplified ribosomal DNA restriction analysis (ARDRA) and restriction fragment length polymorphism were originally used for strain typing and for screening clone libraries to identify phylogenetic clusters within a microbial community. Here we used ARDRA as a model to examine the capacity of restriction-based techniques for clone identification, and the possibility of deriving phylogenetic information from ARDRA-based dendrograms. ARDRA was performed in silico on 48,759 sequences from the Ribosomal Database Project, and it was found that the fragmentation profiles were not necessarily unique for each sequence in the database, resulting in different species sharing fragmentation profiles. Although ARDRA-based clusters separated clones into different genera, these phylogenetic clusters did not overlap with trees constructed according to sequence alignment, calling into question the intra-genus ARDRA-based phylogeny. It is thus suggested that the prediction power of ARDRA clusters in identifying clone phylogeny be regarded with caution.

Reliability of on-site greywater treatment systems in Mediterranean and arid environments – a case study

On-site greywater (GW) treatment and reuse is gaining popularity. However, a main point of concern is that inadequate treatment of such water may lead to negative environmental and health effects. Maintenance of single-family home GW systems is usually performed by home owners with limited professional support. Therefore, unless GW systems are reliable, environmental and public health might be compromised. This study is aimed at investigating the reliability of on-site recirculated vertical flow constructed wetlands (RVFCW) in 20 single-family homes. In order to ensure reliability, the failure-tree approach was adopted during the design and construction of the systems. The performance of the systems was monitored for 1.5 years, by evaluating treated GW flow and quality, and by recording all malfunctions and maintenance work. Only 39 failures occurred during this period, of which four caused irrigation with impaired quality GW, while the rest led to no irrigation. The mean time between failures (MTBF) was 305 days; two out of the 20 systems suffered from seven malfunctions (each), while nine systems did not fail at all. Thus, it can be postulated that if on-site GW treatment systems are designed with the right controls, and if scheduled (basic and relatively infrequent) maintenance is performed, GW reuse can be safe to the environment and human health.

Small scale recirculating vertical flow constructed wetland (RVFCW) for the treatment and reuse of wastewater

The quantity of freshwater available worldwide is declining, revealing a pressing need for its more efficient use. Moreover, in many developing countries and lightly populated areas, raw wastewater is discarded into the environment posing serious ecological and health problems. Unfortunately, this situation will persist unless low-cost, effective and simple technologies are brought in. The aim of this study is to present such a treatment method, a novel setup which is termed recirculating vertical flow constructed wetland (RVFCW). The RVFCW is composed of two components: (i) a three-layer bed consisting of planted organic soil over an upper layer of filtering media (i.e. tuff or beads) and a lower layer of limestone pebbles, and (ii) a reservoir located beneath the bed. Wastewater flows directly into the plant root zone and trickles down through the three-layer bed into the reservoir, allowing passive aeration. From the reservoir the water is recirculated back to the bed, several times, until the desired purification is achieved. The results obtained show that the RVFCW is an effective and convenient strategy to treat (domestic, grey and agro) wastewater for re-use in irrigation. The system performance is expected to be further improved once current optimization experiments and mathematical modeling studies are concluded.

Environmental impact of irrigation with greywater treated by recirculating vertical flow constructed wetlands in two climatic regions.

Reuse of greywater (GW) has raised environmental and public health concerns. Specifically, these concerns relate to onsite treatment operated by non-professionals; systems must therefore be reliable, simple to use and also economically feasible if they are to be widely used. The aims of this study were to: (a) investigate GW treatment efficiency using 20 full-scale recirculating vertical flow constructed wetlands (RVFCWs) operated in households in arid and Mediterranean regions; and (b) study the long-term effects of irrigation with treated GW on soil properties. RVFCW systems were installed and monitored routinely over 3 years. Raw, treated and disinfected treated GW samples were analyzed for various physicochemical and microbial parameters. Native soil plots and nearby freshwater (FW) and treated GW irrigated soil plots were sampled twice a year - at the end of the winter and at the end of the summer. Soil samples were analyzed for various physicochemical and microbial parameters. Overall, the RVFCW proved to be a robust and reliable GW treatment system. The treated GW quality met strict Israeli regulations for urban irrigation. Results also suggest that irrigation with sufficiently treated GW has no adverse effects on soil properties. Yet, continued monitoring to follow longer term trends is recommended.

Effect of treated domestic wastewater on soil physicochemical and microbiological properties.

A main concern with reuse of treated domestic wastewater (DWW) in irrigation is its possible effect on the soil. Few studies have focused on DWW treated in on-site settings, which generally use low-tech systems that can be constructed and serviced locally. One such system is the recirculating vertical flow constructed wetland (RVFCW). The aim of this study was to assess short- to midterm effects of irrigation with DWW treated in the RVFCW. Four groups of plastic barrels, filled with a sandy loam soil, were irrigated for 36 mo with fresh water (FW), FW with added fertilizer, raw DWW, or DWW treated in the RVFCW followed by ultraviolet disinfection. Principal component analysis revealed that the soil irrigated with treated DWW had physicochemical properties similar to those irrigated with FW amended with fertilizer. Levels of surfactants in soil irrigated with treated DWW were identical to those expected from standard irrigation practices, abating concerns for possible changes in soil hydraulic properties. was not detected in the soil irrigated with treated DWW, demonstrating the importance of disinfection of treated effluents before reuse in irrigation. Furthermore, irrigation with treated DWW did not alter the bacterial community structure according to terminal restriction fragment analysis. This 3-yr study suggests that the practice of irrigation with RVFCW effluents is safe. Continuation of the experiment is required to determine whether longer-term irrigation might show a different pattern.

NeatSeq-Flow: A Lightweight High Throughput Sequencing Workflow Platform for Non-Programmers and Programmers alike

Nowadays, it has become almost a necessity for many biologists to execute bioinformatics workflows (WFs) as part of their research. However, most WF-management software packages require for their operation at least some programming expertise. Here we describe NeatSeq-Flow, a platform that enables users with no programming knowledge to design and execute complex high throughput sequencing WFs. This is achieved by using a compendium of pre-built modules as well as a generic module, both do not require programming expertise. Nonetheless, NeatSeq-Flow retains the flexibility to generate sophisticated WF modules using templates and only basic Python programming abilities. NeatSeq-Flow is designed to enable easy sharing of WFs and modules by conceptually separating modules, WF design, sample information and execution. Moreover, NeatSeq-Flow works hand in hand with CONDA environments for easy installation of the WF’s analysis programs in one go. NeatSeq-Flow enables efficient WF execution on computer clusters by parallelizing on both samples and WF steps. NeatSeq-Flow operates by shell-script generation; thus it allows full transparency of the WF process. NeatSeq-Flow offers real-time WF execution monitoring, detailed documentation and self-sustaining WF backups for reproducibility. All of these features make NeatSeq-Flow an easy-to-use WF platform while not compromising for flexibility, reproducibility, transparency and efficiency. Availability http://neatseq-flow.readthedocs.io/en/latest/ Contact sklarz@bgu.ac.ilBioinformatics workflows (WFs) in general, and those involving High Throughput Sequencing data in particular, typically involve executing a sequence of programs on raw sequence files from as many as thousands of samples. Management of these WFs is laborious and error-prone. We have developed NeatSeq-Flow, a python package that manages WF creation for execution on computer clusters. NeatSeq-Flow creates shell scripts as well as a directory structure for storing analysis results, error messages, and execution logs. The user maintains full control over the execution of the WF, while the computer cluster enforces sequential execution and parallelization. NeatSeq-Flow also supplies tools for version tracking, documentation and execution logging.

Perennials but not slope aspect affect the diversity of soil bacterial communities in the northern Negev Desert, Israel

Underneath the canopy of perennials in arid regions, moderate soil temperature and evaporation, as well as plant litter create islands of higher fertility in the low-productivity landscape, known as ‘resource islands’. The sparse distribution of these resource islands is mirrored by soil microbial communities, which mediate a large number of biogeochemical transformations underneath the plants. We explored the link between the bacterial community composition and two prevalent desert shrubs, Zygophyllum dumosum and Artemisia herba-alba, on northern- and southern-facing slopes in the northern highlands of the Negev Desert (Israel), at the end of a drought winter mild rainy season. We sequenced the bacterial community and analysed the physicochemical properties of the soil under the shrub canopies and from barren soil in replicate slopes. The soil bacterial diversity was independent of slope aspect, but differed according to shrub presence or type. Links between soil bacterial community composition and their associated desert shrubs were found, enabling us to link bacterial diversity with shrub type or barren soils. Our results suggest that plants and their associated bacterial communities are connected to survival and persistence under the harsh desert conditions.