Sasha Jenkins

Microbial community dynamics in mesophilic anaerobic co-digestion of mixed waste

This paper identifies key components of the microbial community involved in the mesophilic anaerobic co-digestion (AD) of mixed waste at Rayong Biogas Plant, Thailand. The AD process is separated into three stages: front end treatment (FET); feed holding tank and the main anaerobic digester. The study examines how the microbial community structure was affected by the different stages and found that seeding the waste at the beginning of the process (FET) resulted in community stability. Also, co-digestion of mixed waste supported different bacterial and methanogenic pathways. Typically, acetoclastic methanogenesis was the major pathway catalysed by Methanosaeta but hydrogenotrophs were also supported. Finally, the three-stage AD process means that hydrolysis and acidogenesis is initiated prior to entering the main digester which helps improve the bioconversion efficiency. This paper demonstrates that both resource availability (different waste streams) and environmental factors are key drivers of microbial community dynamics in mesophilic, anaerobic co-digestion.

Computer-assisted instruction versus traditional lecture for medical student teaching of dermatology morphology: A randomized control trial

BACKGROUND The effectiveness of computer-assisted instruction is unproven. OBJECTIVE To evaluate the effectiveness of an online computerized dermatology module compared to traditional lecture-based teaching to medical students. METHODS Medical students were randomized to two groups. Group 1 of 37 students had access to a computer-based dermatology tutorial. Group 2 of 36 students attended a lecture on skin morphology, identical to the tutorial, given by a dermatology faculty member. The main outcome was the total number of correct answers on a multiple-choice morphologic terminology final examination. The mean number of questions answered correctly was 16.14 and 14.89 for group 1 and group 2, respectively. RESULTS Unpaired statistical t tests showed the difference in mean scores between the two groups to be 1.25 (95% confidence interval: -0.70 to 3.20, p value = .20). LIMITATIONS The study was small, with a small amount of material, and was brief in duration. CONCLUSIONS Within the limits of our study, computer-assisted instruction is at least as effective as traditional lecture teaching of dermatology morphology to medical students.

Six-minute walk test: observed adverse events and oxygen desaturation in a large cohort of patients with chronic lung disease

Background:  The 6‐min walk test (6MWT) is widely used to assess patients with chronic lung disease (CLD). Anecdotal reports and studies in small numbers of patients with CLD suggest that complications associated with the 6MWT are rare. This study reports the incidence of observed adverse events during the 6MWT in patients referred to an outpatient pulmonary rehabilitation service.

Microbial phylogenetic and functional responses within acidified wastewater communities exhibiting enhanced phosphate uptake

Acid stimulated accumulation of insoluble phosphorus within microbial cells is highly beneficial to wastewater treatment but remains largely unexplored. Using single cell analyses and next generation sequencing, the response of active polyphosphate accumulating microbial communities under conditions of enhanced phosphorus uptake under both acidic and aerobic conditions was characterised. Phosphorus accumulation activities were highest under acidic conditions (pH 5.5>8.5), where a significant positive effect on bioaccumulation was observed at pH 5.5 when compared to pH 8.5. In contrast to the Betaproteobacteria and Actinobacteria dominated enhanced biological phosphorus removal process, the functionally active polyP accumulators at pH 5.5 belonged to the Gammaproteobacteria, with key accumulators identified as members of the families Aeromonadaceae and Enterobacteriaceae. This study demonstrated a significant enrichment of key polyphosphate kinase and exopolyphosphatase genes within the community metagenome after acidification, concomitant with an increase in P accumulation kinetics.

Application of compost and clay under water-stressed conditions influences functional diversity of rhizosphere bacteria

Applications of compost and clay to ameliorate soil constraints such as water stress are potential management strategies for sandy agricultural soils. Water repellent sandy soils in rain-fed agricultural systems limit production and have negative environmental effects associated with leaching and soil erosion. The aim was to determine whether compost and clay amendments in a sandy agricultural soil influenced the rhizosphere microbiome of Trifolium subterraneum under differing water regimes. Soil was amended with compost (2% w/w), clay (5% w/w) and a combination of both, in a glasshouse experiment with well-watered and water-stressed (70 and 35% field capacity) treatments. Ion Torrent 16S rRNA sequencing and Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt) analysis of functional gene prediction were used to characterise the rhizosphere bacterial community and its functional component involved in nitrogen (N) cycling and soil carbon (C) degradation. Compost soil treatments increased the relative abundance of copiotrophic bacteria, decreased labile C and increased the abundance of recalcitrant C degrading genes. Predicted N cycling genes increased with the addition of clay (N2 fixation, nitrification, denitrification) and compost + clay (N2 fixation, denitrification) and decreased with compost (for denitrification) amendment. Water stress did not alter the relative abundance of phylum level taxa in the presence of compost, although copiotrophic Actinobacteria increased in relative abundance with addition of clay and with compost + clay. A significant role of compost and clay under water stress in influencing the composition of rhizosphere bacteria and their implications for N cycling and C degradation was demonstrated.

Ancient landscapes and the relationship with microbial nitrification

Ammonia oxidizing archaea (AOA) and bacteria (AOB) drive nitrification and their population dynamics impact directly on the global nitrogen cycle. AOA predominate in the majority of soils but an increasing number of studies have found that nitrification is largely attributed to AOB. The reasons for this remain poorly understood. Here, amoA gene abundance was used to study the distribution of AOA and AOB in agricultural soils on different parent materials and in contrasting geologic landscapes across Australia (n = 135 sites). AOA and AOB abundances separated according to the geologic age of the parent rock with AOB higher in the more weathered, semi-arid soils of Western Australia. AOA dominated the younger, higher pH soils of Eastern Australia, independent of any effect of land management and fertilization. This differentiation reflects the age of the underlying parent material and has implications for our understanding of global patterns of nitrification and soil microbial diversity. Western Australian soils are derived from weathered archaean laterite and are acidic and copper deficient. Copper is a co-factor in the oxidation of ammonia by AOA but not AOB. Thus, copper deficiency could explain the unexpectedly low populations of AOA in Western Australian soils.

Arbuscular Mycorrhizal Diversity and Function in Grassland Ecosystems

Grasslands are widely distributed throughout the world, maintained with no or low input of fertiliser without tillage, and are used for grazing and fodder harvesting. Arbuscular mycorrhizal (AM) fungi colonise the majority of grassland plant species with little evidence of host specificity. AM fungi play significant roles in nutrient cycling in grasslands. However, grasslands are diverse ecosystems so it is difficult to generalise the contribution of mycorrhizas to these plant communities. Nevertheless, plant diversity has been shown to have a positive relationship with AM fungal diversity and community structure. AM fungi have potential to contribute in a significant way to the maintenance and restoration of grasslands through their roles in influencing the plant community structure, nutrient cycling and soil structure. The structure and function of AM fungal communities in grasslands can be altered by management practices, such as grazing pressure, and this will influence their contribution to soil processes.

Amending Poultry Broiler Litter to Prevent the Development of Stable Fly, Stomoxys calcitrans (Diptera: Muscidae) and Other Nuisance Flies

Spent poultry litter use as a fertilizer in horticulture supports stable fly Stomoxys calcitrans (L.) (Diptera: Muscidae) development. Stable fly continues to have an economic impact on livestock production and rural lifestyle in south-western Australia. The use of raw poultry manure is banned in 12 Shires surrounding Perth. The loss of market options for West Australian broiler growers has caused economic hardship. Hence, this study examined a range of chemical and biological amendments to spent poultry broiler litter in preventing stable fly and nuisance fly development. These included alkalizers (i.e., lime sand, quicklime, soda ash, and shell grit), acidifiers (aluminum sulfate, sodium bisulfate), gypsum, zeolite, spongolite, calcium cyanamide, and two fungal agents. The treated litters were placed under irrigation in horticulture with amendments added prior to them being exposed in the field as replicate 1-liter pads. In total, 19,559 stable flies developed from the spent litters exposed over five field experiments (88.7% of all flies recovered). House flies (Musca domestica L. (Diptera: Muscidae); 2,067 or 9.4%), false stable flies (Muscina stabulans Fallén (Diptera: Muscidae); 414 or 1.9%), and two sarcophagids (flesh fly) also developed from the litter. Borax completely prevented any fly development from the litter. Calcium cyanamide (1-2.5% v/v) and sodium bisulfate (10%) reduced stable fly numbers by as much as 99-100% when added to litter. Alkalizers, zeolite, spongolite, and entomopathogenic fungi had no significant impact on stable fly development. The addition of either calcium cyanamide or sodium bisulfate to raw litter can boost the fertilizer value of the litter while preventing stable fly development.