Exploring freshwater stream bacterial communities as indicators of land use intensity.

BACKGROUND: Stream ecosystems comprise complex interactions among biological communities and their physicochemical surroundings, contributing to their overall ecological health. Despite this, many monitoring programs ignore changes in the bacterial communities that are the base of food webs in streams, often focusing on stream physicochemical assessments or macroinvertebrate community diversity instead. We used 16S rRNA gene sequencing to assess bacterial community compositions within 600 New Zealand stream biofilm samples from 204 sites within a 6-week period (February-March 2010). Sites were either dominated by indigenous forests, exotic plantation forests, horticulture, or pastoral grasslands in the upstream catchment. We sought to predict each site's catchment land use and environmental conditions based on the composition of the stream bacterial communities. RESULTS: Random forest modelling allowed us to use bacterial community composition to predict upstream catchment land use with 65% accuracy; urban sites were correctly assigned 90% of the time. Despite the variation inherent when sampling across a ~ 1000-km distance, bacterial community data could correctly differentiate undisturbed sites, grouped by their dominant environmental properties, with 75% accuracy. The positive correlations between actual values and those predicted by the models built using the stream biofilm bacterial data ranged from weak (average log N concentration in the stream water, R2 = 0.02) to strong (annual mean air temperature, R2 = 0.69). CONCLUSIONS: Freshwater bacterial community data provide useful insights into land use impacts on stream ecosystems; they may be used as an additional measure to screen stream catchment attributes.

Surface-modified activated carbon for N-nitrosodimethylamine removal in the continuous flow biological activated carbon columns.

The carcinogenic nitrogenous disinfection by-product, N-nitrosodimethylamine (NDMA), is challenging to adsorb due to its high polarity and solubility. Our previous research demonstrated that the adsorptive removal of NDMA can be improved using surface-modified activated carbon (AC800). The current study evaluated the efficacy of AC800 in removing NDMA in a continuous-flow column over 75 days, using both granular activated carbon (GAC) and biologically activated carbon (BAC) columns. The AC800 GAC column demonstrated extended breakthrough and exhaustion times of 10 days and 22 days, respectively, compared to the conventional GAC column at 4 days and 10.5 days. The surface modification effect persisted for 25 days before the removal trends became indistinguishable. The AC800 BAC column outperformed the conventional BAC column with a longer breakthrough time of 11.3 days compared to 7.4 days. BAC columns consistently showed greater NDMA removal, emphasizing the role of biodegradation in NDMA removal on carbon. The higher NDMA removal in the inoculated columns was attributed to increased microbial diversity and the dominance of six specific genera, Methylobacterium, Phyllobacterium, Curvibacter, Acidovorax, Variovorax, and Rhodoferax. This study provides new insights into using modified activated carbon as GAC and BAC media in a real-world continuous-flow setup.

Time after time: detecting annual patterns in stream bacterial biofilm communities.

To quantify the major environmental drivers of stream bacterial population dynamics, we modelled temporal differences in stream bacterial communities to quantify community shifts, including those relating to cyclical seasonal variation and more sporadic bloom events. We applied Illumina MiSeq 16S rRNA bacterial gene sequencing of 892 stream biofilm samples, collected monthly for 36-months from six streams. The streams were located a maximum of 118 km apart and drained three different catchment types (forest, urban and rural land uses). We identified repeatable seasonal patterns among bacterial taxa, allowing their separation into three ecological groupings, those following linear, bloom/trough and repeated, seasonal trends. Various physicochemical parameters (light, water and air temperature, pH, dissolved oxygen, nutrients) were linked to temporal community changes. Our models indicate that bloom events and seasonal episodes modify biofilm bacterial populations, suggesting that distinct microbial taxa thrive during these events including non-cyanobacterial community members. These models could aid in determining how temporal environmental changes affect community assembly and guide the selection of appropriate statistical models to capture future community responses to environmental change.

Applicability, safety, and biological activity of regulatory T cell therapy in liver transplantation.

Regulatory T cells (Tregs) are a lymphocyte subset with intrinsic immunosuppressive properties that can be expanded in large numbers ex vivo and have been shown to prevent allograft rejection and promote tolerance in animal models. To investigate the safety, applicability, and biological activity of autologous Treg adoptive transfer in humans, we conducted an open-label, dose-escalation, Phase I clinical trial in liver transplantation. Patients were enrolled while awaiting liver transplantation or 6-12 months posttransplant. Circulating Tregs were isolated from blood or leukapheresis, expanded under good manufacturing practices (GMP) conditions, and administered intravenously at either 0.5-1 million Tregs/kg or 3-4.5 million Tregs/kg. The primary endpoint was the rate of dose- limiting toxicities occurring within 4 weeks of infusion. The applicability of the clinical protocol was poor unless patient recruitment was deferred until 6-12 months posttransplant. Thus, only 3 of the 17 patients who consented while awaiting liver transplantation were dosed. In contrast, all six patients who consented 6-12 months posttransplant received the cell infusion. Treg transfer was safe, transiently increased the pool of circulating Tregs and reduced anti-donor T cell responses. Our study opens the door to employing Treg immunotherapy to facilitate the reduction or complete discontinuation of immunosuppression following liver transplantation.

Bacterial communities associated with tail fan necrosis in spiny lobster, Jasus edwardsii.

Spiny lobsters are among the most valuable seafood products, but their commercial value is greatly diminished by tail fan necrosis (TFN), an unsightly blackening and erosion of the posterior margins on the abdomen. The condition results from bacterial incursion following physical damage to the cuticle. In this current study, the bacterial communities on the cuticle of tail fans of wild spiny lobsters with and without TFN were examined using 16S rDNA Illumina sequencing to identify whether there is a group of bacteria associated with TFN. The bacterial communities in the affected cuticle had significantly less richness, diversity and evenness, but greater variability between samples than those in unaffected cuticle. There were 21 phylotypes closely associated with TFN, of which, those belonging to Aquimarina, Flavobacterium, Neptunomonas, Streptomyces, Flavobacteriaceae and Thiohalorhabdales were most important. The affected cuticle samples were clustered into two microbial colonization states, each characterized by distinct phylotypes that are closely associated with TFN, suggesting different phylotypes were associated with different microbial colonization states of TFN. These bacteria appear to develop their association through opportunistic pathways created by the provision of changes in the bacterial habitat associated with injury to the cuticle or compromised immunity subsequent to the injury.

Pathology of tail fan necrosis in the spiny lobster, Jasus edwardsii.

Tail fan necrosis (TFN) is the bacterial infection of the tail fan of spiny lobsters which leads to melanosis and erosion of the tail fan tissues. The condition is commonly found among spiny lobsters in aquaculture and commercial fisheries, and greatly reduces their commercial value. This study describes the pathology of TFN by examining the tail fans (telson, uropods) and internal organs (mid-gut, hepatopancreas, heart and gill) of 29 affected wild spiny lobsters (Jasus edwardsii) and 14 unaffected in New Zealand. Initial signs of TFN were observed around the margins of lacerations to the tail fan, with more extensive signs extending from these presumptive sites of initiation. The establishment of the condition at points of injury is consistent with the penetration of TFN through the cuticle and tissue layers of the affected tail fans, which is rarely seen in other forms of shell disease. Entry into these tissues was characterised initially by caseous necrosis and haemocyte accumulation, followed by the spread of these responses together with melanisation. Additional pathological changes to the tail fans included pseudomembrane formation, detachment of epidermis or cuticle, clotted haemolymph and fibrosis. Among internal organs, pathological changes were found in a total of two mid-gut, four heart and two gill samples from eight lobsters with TFN, while no suspected changes were found in the organs of lobsters without TFN. The causes of internal organ pathology associated with TFN in spiny lobsters warrants more detailed research.

Immune status of the spiny lobster Jasus edwardsii with tail fan necrosis.

Tail fan necrosis (TFN), a disorder commonly found in some populations of commercially fished and cultured lobsters, is thought to be initiated by injuries caused by handling and containment. The unsightly appearance of affected lobster tails significantly lowers their commercial value. Knowledge about TFN is limited. In this study we describe the morphological features of TFN and apply 6 common methods for evaluating the immune status of wild-caught Australasian red spiny lobsters Jasus edwardsii with and without TFN. The disease was more frequent in uropods than in telsons of the tail fan, and more extensive on the ventral versus the dorsal surfaces of the tail fan. Missing appendages (i.e. antenna, pereiopod or pleopod) were significantly more common and greater in number for individual lobsters affected with TFN versus those without, possibly as a result of handling in the fishery or as an indirect effect of the disease. Two immune parameters, total haemocyte count and phenoloxidase activity in the haemocyte lysate supernatant (HLS), were significantly compromised in lobsters with TFN. No differences were found in the other immune parameters, i.e. haemocyte viability, haemolymph bacterial count and the protein content of haemolymph plasma and HLS. The results are consistent with injury sustained during prior capture and handling that initiates TFN in these natural caught lobsters. These results raise some potential concerns about the fitness of lobsters in natural populations that are affected by TFN, and some potential solutions are proposed.

Following Rapoport's Rule: the geographic range and genome size of bacterial taxa decline at warmer latitudes.

We sought to test whether stream bacterial communities conform to Rapoport's Rule, a pattern commonly observed for plants and animals whereby taxa exhibit decreased latitudinal range sizes closer to the equator. Using a DNA sequencing approach, we explored the biogeography of biofilm bacterial communities in 204 streams across a ∼1000 km latitudinal gradient. The range sizes of bacterial taxa were strongly correlated with latitude, decreasing closer to the equator, which coincided with a greater than fivefold increase in bacterial taxonomic richness. The relative richness and range size of bacteria were associated with spatially correlated variation in temperature and rainfall. These patterns were observed despite enormous variability in catchment environmental characteristics. Similar results were obtained when restricting the same analyses to native forest catchments, thereby controlling for spatial biases in land use. We analysed genomic data from ∼500 taxa detected in this study, for which data were available and found that bacterial communities at cooler latitudes also tended to possess greater potential metabolic potential. Collectively, these data provide the first evidence of latitudinal variation in the range size distributions of freshwater bacteria, a trend which may be determined, in part, by a trade-off between bacterial genome size and local variation in climatic conditions.

Emotional intelligence and affective events in nurse education: A narrative review.

OBJECTIVE: To investigate the current state of knowledge about emotional intelligence and affective events that arise during nursing students' clinical placement experiences. DESIGN: Narrative literature review. DATA SOURCES: CINAHL, MEDLINE, PsycINFO, Scopus, Web of Science, ERIC and APAIS-Health databases published in English between 1990 and 2016. REVIEW METHODS: Data extraction from and constant comparative analysis of ten (10) research articles. RESULTS: We found four main themes: (1) emotional intelligence buffers stress; (2) emotional intelligence reduces anxiety associated with end of life care; (3) emotional intelligence promotes effective communication; and (4) emotional intelligence improves nursing performance. CONCLUSIONS: The articles we analysed adopted a variety of emotional intelligence models. Using the Ashkanasy and Daus "three-stream" taxonomy (Stream 1: ability models; 2: self-report; 3: mixed models), we found that Stream 2 self-report measures were the most popular followed by Stream 3 mixed model measures. None of the studies we surveyed used the Stream 1 approach. Findings nonetheless indicated that emotional intelligence was important in maintaining physical and psychological well-being. We concluded that developing emotional intelligence should be a useful adjunct to improve academic and clinical performance and to reduce the risk of emotional distress during clinical placement experiences. We call for more consistency in the use of emotional intelligence tests as a means to create an empirical evidence base in the field of nurse education.

Fifty important research questions in microbial ecology.

Microbial ecology provides insights into the ecological and evolutionary dynamics of microbial communities underpinning every ecosystem on Earth. Microbial communities can now be investigated in unprecedented detail, although there is still a wealth of open questions to be tackled. Here we identify 50 research questions of fundamental importance to the science or application of microbial ecology, with the intention of summarising the field and bringing focus to new research avenues. Questions are categorised into seven themes: host-microbiome interactions; health and infectious diseases; human health and food security; microbial ecology in a changing world; environmental processes; functional diversity; and evolutionary processes. Many questions recognise that microbes provide an extraordinary array of functional diversity that can be harnessed to solve real-world problems. Our limited knowledge of spatial and temporal variation in microbial diversity and function is also reflected, as is the need to integrate micro- and macro-ecological concepts, and knowledge derived from studies with humans and other diverse organisms. Although not exhaustive, the questions presented are intended to stimulate discussion and provide focus for researchers, funders and policy makers, informing the future research agenda in microbial ecology.

Identifying congruence in stream assemblage thresholds in response to nutrient and sediment gradients for limit setting.

The setting of numeric instream objectives (effects-based criteria) and catchment limits for major agricultural stressors, such as nutrients and fine sediment, is a promising policy instrument to prevent or reduce degradation of stream ecosystem health. We explored the suitability of assemblage thresholds, defined as a point at which a small increase in a stressor will result in a disproportionally large change in assemblage structure relative to other points across the stressor gradient, to inform instream nutrient and sediment objectives. Identification and comparison of thresholds for macroinvertebrate, periphyton, and bacterial assemblages aimed at making the setting of objectives more robust and may further provide a better understanding of the underlying mechanisms of nutrient and fine sediment effects. Gradient forest, a novel approach to assemblage threshold identification based on regression-tree-based random forest models for individual taxa, allowed inclusion of multiple predictors to strengthen the evidence of cause and effect between stressors and multispecies responses. The most prominent macroinvertebrate and periphyton assemblage threshold across the nitrogen (N) gradient was located at very low levels and mainly attributed to declines of multiple taxa. This provided strong evidence for stream assemblages being significantly affected when N concentrations exceed reference conditions and for effects cascading through the ecosystem. The most prominent macroinvertebrate assemblage threshold across a gradient of suspended fine sediment was also located at very low levels and attributed to declines of multiple taxa. However, this threshold did not correspond with periphyton assemblage thresholds, suggesting that the sensitivity of macroinvertebrate assemblages is unrelated to sediment effects on periphyton assemblages. Overall, the spectrum of N concentrations and fine sediment levels within which these stream assemblages changed most dramatically were relatively narrow given the wide gradients tested. We conclude that assemblage thresholds can inform the setting of generic instream nutrient and sediment objectives for stream ecosystem health. For example, the most stringent objective for instream N concentration should be set at values similar to reference concentrations for full protection of sensitive taxa or overall stream biodiversity. To avoid severe degradation of stream biodiversity, the least stringent N objective should stay well below the point where significant turnover subsided.

Aspect has a greater impact on alpine soil bacterial community structure than elevation.

Gradients in environmental conditions, including climate factors and resource availability, occur along mountain inclines, providing a 'natural laboratory' to explore their combined impacts on microbial distributions. Conflicting spatial patterns observed across elevation gradients in soil bacterial community structure suggest that they are driven by various interacting factors at different spatial scales. Here, we investigated the relative impacts of non-resource (e.g. soil temperature, pH) and resource conditions (e.g. soil carbon and nitrogen) on the biogeography of soil bacterial communities across broad (i.e. along a 1500 m mountain elevation gradient) and fine sampling scales (i.e. along sunny and shady aspects of a mountain ridge). Our analysis of 16S rRNA gene data confirmed that when sampling across distances of < 1000 m, bacterial community composition was more closely related to the aspect of a site than its elevation. However, despite large differences in climate and resource-availability factors across elevation- and aspect-related gradients, bacterial community composition and richness were most strongly correlated with soil pH. These findings highlight the need to incorporate knowledge of multiple factors, including site aspect and soil pH for the appropriate use of elevation gradients as a proxy to explore the impacts of climate change on microbial community composition.

Integrity of the Human Faecal Microbiota following Long-Term Sample Storage.

In studies of the human microbiome, faecal samples are frequently used as a non-invasive proxy for the study of the intestinal microbiota. To obtain reliable insights, the need for bacterial DNA of high quality and integrity following appropriate faecal sample collection and preservation steps is paramount. In a study of dietary mineral balance in the context of type 2 diabetes (T2D), faecal samples were collected from healthy and T2D individuals throughout a 13-day residential trial. These samples were freeze-dried, then stored mostly at -20°C from the trial date in 2000/2001 until the current research in 2014. Given the relative antiquity of these samples (~14 years), we sought to evaluate DNA quality and comparability to freshly collected human faecal samples. Following the extraction of bacterial DNA, gel electrophoresis indicated that our DNA extracts were more sheared than extracts made from freshly collected faecal samples, but still of sufficiently high molecular weight to support amplicon-based studies. Likewise, spectrophotometric assessment of extracts revealed that they were of high quality and quantity. A subset of bacterial 16S rRNA gene amplicons were sequenced using Illumina MiSeq and compared against publicly available sequence data representing a similar cohort analysed by the American Gut Project (AGP). Notably, our bacterial community profiles were highly consistent with those from the AGP data. Our results suggest that when faecal specimens are stored appropriately, the microbial profiles are preserved and robust to extended storage periods.

Older Australians: Structural barriers to learning in later life.

BACKGROUND: Learning in older age is associated with benefits including increases in skills, social interactions, self-satisfaction, coping ability, enjoyment, and resilience to age-related changes in the brain. It is also a fundamental component of active ageing and if active ageing objectives are to be met for the growing ageing population, barriers to learning need to be understood and addressed. This study aimed at determining the degree that structural factors deter people aged 55 years and older from engaging in learning activities. METHOD: The data were obtained from survey (n=421) with a purposive sample of Australian Seniors aged 55 to 75+, and open ended follow up interviews (n=40). The survey responses to the 22 barriers to learning questions were ranked and quantified. The issues identified in the interviews shed further light on the survey data. RESULTS: The analyses revealed that factors related to educational institutions as well as infrastructure were commonly cited as barriers to participation in learning. In particular expense of educational programmes (55.1%), long travelling time (45.6%) other transportation difficulties (38.9%), lack of interest in offered programmes ((36.4) and lack of information about courses (31.1%) were seen as barriers. The interviews revealed and confirmed five main barriers; money, offerings of interest/availability, travel/transport, information, computer skills and being employed. CONCLUSION: The findings should provide policy makers, institutions, organizations and government with a list of areas where changes might be made so as to improve older people's opportunities for learning as they proceed through older age.

Ageing and learning as conceptualized by senior adults in two cultures: Hong Kong and Australia.

BACKGROUND: This paper is about a study aimed to understand what successful ageing and later life learning mean to older adults in two cultures: Hong Kong and Australia. OBJECTIVE: It aims to shed light on (1) the meaning of ageing and learning as conceptualized by elders in Hong Kong and Australia; (2) the reasons for participation in later life learning, as well as, barriers for non-participation; (3) their learning interests and instructional preferences; and (4) the correlation between learning and successful ageing, and between learning and other well-being variables, including health, happiness and satisfaction. METHOD: Two large samples of elders from Hong Kong (n=519) and Australia (n=421) participated in the study. A self-developed questionnaire, called the "Learning and Ageing Survey 2013", was used. It included a total of 108 structured questions in three sections. RESULTS: Within group analysis of the data from the two locations indicated that there are more similarities, rather than differences, between elders in Hong Kong and Australia with respect to background characteristics, meanings of ageing and learning, reasons for participation, barriers for nonparticipation, learning interests and instructional preferences. CONCLUSIONS: The fact that there are more commonalities, rather than differences, between the two samples of elders from two different cultures supports the claim that cultures very often overlap and coincide, and need not be seen as polarized, where becoming bi-cultural is possible. It is therefore important for cross-cultural comparative research to identify cultural differences, while at the same time, to recognize the existence of similarities between cultures.

Functional gene composition, diversity and redundancy in microbial stream biofilm communities.

We surveyed the functional gene composition and diversity of microbial biofilm communities in 18 New Zealand streams affected by different types of catchment land use, using a comprehensive functional gene array, GeoChip 3.0. A total of 5,371 nutrient cycling and energy metabolism genes within 65 gene families were detected among all samples (342 to 2,666 genes per stream). Carbon cycling genes were most common, followed by nitrogen cycling genes, with smaller proportions of sulphur, phosphorus cycling and energy metabolism genes. Samples from urban and native forest streams had the most similar functional gene composition, while samples from exotic forest and rural streams exhibited the most variation. There were significant differences between nitrogen and sulphur cycling genes detected in native forest and urban samples compared to exotic forest and rural samples, attributed to contrasting proportions of nitrogen fixation, denitrification, and sulphur reduction genes. Most genes were detected only in one or a few samples, with only a small minority occurring in all samples. Nonetheless, 42 of 65 gene families occurred in every sample and overall proportions of gene families were similar among samples from contrasting streams. This suggests the existence of functional gene redundancy among different stream biofilm communities despite contrasting taxonomic composition.

Inactivation of bacteria and yeast using high-frequency ultrasound treatment.

High-frequency (850 kHz) ultrasound was used to inactivate bacteria and yeast at different growth phases under controlled temperature conditions. Three species of bacteria, Enterobacter aerogenes, Bacillus subtilis and Staphylococcus epidermidis as well as a yeast, Aureobasidium pullulans were considered. The study shows that high-frequency ultrasound is highly efficient in inactivating the bacteria in both their exponential and stationary growth phases, and inactivation rates of more than 99% were achieved. TEM observation suggests that the mechanism of bacteria inactivation is mainly due to acoustic cavitation generated free radicals and H2O2. The rod-shaped bacterium B. subtilis was also found to be sensitive to the mechanical effects of acoustic cavitation. The study showed that the inactivation process continued even after ultrasonic processing cessed due to the presence of H2O2, generated during acoustic cavitation. Compared to bacteria, the yeast A. pullulans was found to be more resistant to high-frequency ultrasound treatment.

Inactivation of Enterobacter aerogenes in reconstituted skim milk by high- and low-frequency ultrasound.

The inactivation of Enterobacter aerogenes in skim milk using low-frequency (20kHz) and high-frequency (850kHz) ultrasonication was investigated. It was found that low-frequency acoustic cavitation resulted in lethal damage to E. aerogenes. The bacteria were more sensitive to ultrasound in water than in reconstituted skim milk having different protein concentrations. However, high-frequency ultrasound was not able to inactivate E. aerogenes in milk even when powers as high as 50W for 60min were used. This study also showed that high-frequency ultrasonication had no influence on the viscosity and particle size of skim milk, whereas low-frequency ultrasonication resulted in the decrease in viscosity and particle size of milk. The decrease in particle size is believed to be due to the breakup of the fat globules, and possibly to the cleavage of the κ-casein present at the surface of the casein micelles. Whey proteins were also found to be slightly affected by low-frequency ultrasound, with the amounts of α-lactalbumin and ß-lactoglobulin slightly decreasing.

Using biofilm as a novel approach to assess stormwater treatment efficacy.

Contaminants associated with stormwater are among the leading causes of water quality impairment in urban streams. Multiple device treatment systems are commonly installed with the aim of reducing contaminant loads within stormwater discharge. However, the in situ performance of such systems remains poorly understood. We investigated the efficacy of an advanced stormwater treatment system by monitoring biofilm associated metals and biofilm bacterial community composition at multiple locations through the treatment system (which included rain gardens, grassy swales, a stormwater filter and a wetland) and in the receiving stream above and below the stormwater discharge. Changes in bacterial community composition were assessed by Automated Ribosomal Intergenic Spacer Analysis (ARISA) and concentrations of biofilm associated metals monitored by Inductively Coupled Plasma-Mass Spectrometry (ICP-MS). Significant differences in bacterial community composition were detected throughout the stormwater network. Bacterial communities gradually changed towards a community more similar to that within the receiving stream and the discharge of treated stormwater had little effect on the composition of bacterial communities in the receiving stream, suggesting the effective conditioning of water quality by the treatment system. Concentrations of some biofilm-associated metals declined following sequential treatment, for example copper (73% reduction), zinc (48% reduction) and lead (46% reduction). In contrast, levels of arsenic, cadmium, chromium and nickel were not reduced by the treatment system. We demonstrate that biofilm bacterial community composition is a sensitive indicator of environmental changes within freshwater ecosystems and an efficient indicator to monitor water quality in enclosed stormwater networks where traditional biological indicators are not available.