The Caenorhabditis elegans HEN1 ortholog, HENN-1, methylates and stabilizes select subclasses of germline small RNAs

Small RNAs regulate diverse biological processes by directing effector proteins called Argonautes to silence complementary mRNAs. Maturation of some classes of small RNAs involves terminal 2'-O-methylation to prevent degradation. This modification is catalyzed by members of the conserved HEN1 RNA methyltransferase family. In animals, Piwi-interacting RNAs (piRNAs) and some endogenous and exogenous small interfering RNAs (siRNAs) are methylated, whereas microRNAs are not. However, the mechanisms that determine animal HEN1 substrate specificity have yet to be fully resolved. In Caenorhabditis elegans, a HEN1 ortholog has not been studied, but there is evidence for methylation of piRNAs and some endogenous siRNAs. Here, we report that the worm HEN1 ortholog, HENN-1 (HEN of Nematode), is required for methylation of C. elegans small RNAs. Our results indicate that piRNAs are universally methylated by HENN-1. In contrast, 26G RNAs, a class of primary endogenous siRNAs, are methylated in female germline and embryo, but not in male germline. Intriguingly, the methylation pattern of 26G RNAs correlates with the expression of distinct male and female germline Argonautes. Moreover, loss of the female germline Argonaute results in loss of 26G RNA methylation altogether. These findings support a model wherein methylation status of a metazoan small RNA is dictated by the Argonaute to which it binds. Loss of henn-1 results in phenotypes that reflect destabilization of substrate small RNAs: dysregulation of target mRNAs, impaired fertility, and enhanced somatic RNAi. Additionally, the henn-1 mutant shows a weakened response to RNAi knockdown of germline genes, suggesting that HENN-1 may also function in canonical RNAi. Together, our results indicate a broad role for HENN-1 in both endogenous and exogenous gene silencing pathways and provide further insight into the mechanisms of HEN1 substrate discrimination and the diversity within the Argonaute family.     

Activation of the progesterone-signaling pathway by methyl-beta-cyclodextrin or steroid in Xenopus laevis oocytes involves release of 45-kDa Galphas

Treatment of Xenopus laevis oocytes with cholesterol-depleting methyl-β-cyclodextrin (MeβCD) stimulates phosphorylation of mitogen-activated protein kinase (MAPK) and oocyte maturation, as reported previously [Sadler, S.E., Jacobs, N.D., 2004. Stimulation of Xenopus laevis oocyte maturation by methyl-β-cyclodextrin. Biol. Reprod. 70, 1685-1692.]. Here we report that treatment of oocytes with MeβCD increased levels of immunodetectable 39-kDa mos protein. The protein synthesis inhibitor, cycloheximide, blocked the appearance of Mos, blocked MeβCD-stimulated phosphorylation of MAPK, and inhibited MeβCD-induced oocyte maturation. These observations suggest that MeβCD activates the progesterone-signaling pathway. Chemical inhibition of steroid synthesis and mechanical removal of follicle cells were used to verify that MeβCD acts at the level of the oocyte and does not require production of steroid by surrounding follicle cells. Cortical Gα_s is contained in low-density membrane; and treatment of oocytes with progesterone or MeβCD reduced immunodetectable levels of Gα_s protein in cortices and increased internal levels of 45-kDa Gα_s in cortical-free extracts. Dose-dependent increases in internal Gα_s after treatment of oocytes with progesterone correlated with the steroid-induced maturation response, and the increase in internal Gα_s after hormone treatment was comparable to the decrease in cortical Gα_s. These results are consistent with a model in which release of Gα_s from the plasma membrane is involved in activation of the progesterone-signaling pathway that leads to amphibian oocyte maturation.     

Density,activity, and diversity of bacteria indigenous to a karstic aquifer

The microbial ecology of karstic ground water is largely unknown. The density, activity, and diversity of bacteria indigenous to subsurface karstic material in Mammoth Cave National Park, Mammoth Cave, Kentucky were studied using minimally disruptive, on-site procedures. Two sites, located 100 m below the surface and consisting of saturated fine to coarse sand in pooled water, were examined. Samples were taken aseptically using modified, sterile 60-cc syringes. Total cell and total respiring cell densities were determined using an acridine orange/p-iodonitrotetrazolium violet (AO/INT) staining procedure. Cells in selected cores were stained with INT and incubated in the cave for 4 h prior to fixing with glutaraldehyde and subsequent transport to the laboratory. Cells were stained with AO in the laboratory. Low- and high-nutrient media were used to determine viable cell counts. Plates were incubated in the cave for 1 day at ambient temperature prior to transportation to the laboratory in an insulated cooler. Viable cell counts ranged from 1.0 × 106 to 8.1 × 106 cells wet g^–1 of sediment. Total direct counts were 3.9 × 106 and 1.4 × 107 cells wet g^–1 for the Olivia's Dome and the Catherine's Dome sites, respectively. Viable cell counts were highly similar to respiring cell counts at both sites. At the Olivia's Dome site, viable cell counts represented 26–31% of the direct cell counts, while 58% of the total cell count were actively respiring. At the Catherine's Dome site, viable cell counts represented 11–58% of the direct counts, while 53% of the cells were actively respiring. A total of 237 strains recovered from low- and high-nutrient media at both Olivia's and Catherine's Domes, and 10 reference strains were examined for 117 morphological, biochemical, and physiological characteristics. Results were coded in a binary fashion and analyzed using numerical taxonomic techniques. Similarity values were calculated using a simple matching coefficient. Fifty-two clusters, ranging in size from 2 to 13 members, were defined at the 80–85% similarity level with the weighted pair-group mathematical average algorithm (WPGMA). The matrix was examined using the Jaccard coefficient and WPGMA clustering to control for distortion due to negative matches and varying group size. Presumptively identified genera include, Arthrobacter, Brevibacterium, Bacillus, Cornyebacterium, Actinomyces, Aureobacterium, Chromobacterium, and Mycobacterium. Pseudomonas spp. were not recovered. Fifty percent of the clustered operational taxonomic units (OTUs) were not identified. Thirty percent of the clustered OTUs were irregular, asporogenous, Gram-positive rods. The bacterial communities varied between sites, and isolation medium had a strong influence on the strains recovered. The bacterial community in the karstic sediments sampled exhibits a high degree of diversity having no dominant strain or strains.Correspondence to: K.J. Rusterholtz     

Decadal Response of Arctic Freshwaters to Burgeoning Goose Populations

The Arctic is faced with rapid climatic changes, but in some areas, drastic changes in the abundance of herbivores represent an even greater agent of change. Increasing goose populations, especially midcontinent lesser snow geese (Chen caerulescens), have led to an extensive loss of vegetation in terrestrial habitats in the Arctic through heavy grazing and destructive foraging. Our aim was to evaluate the effect of geese on the freshwater systems in their Arctic breeding grounds. We sampled the water chemistry of lakes and ponds across a major goose breeding area in the Eastern Canadian Arctic and compared results to samples taken 13 years earlier to determine whether the changes in water chemistry, if evident, were consistent with effects of geese or of climate. Our results suggest that nutrient loadings have increased while most other parameters associated with the underlying geology and hydrology of the region have stayed in a similar range as a decade ago. The most significant changes were linked to nitrogen and phosphorus; phosphorus concentrations doubled between 2001/2002 and 2015, with the highest levels and greatest changes observed for wetlands inside versus outside of goose breeding areas. Our results suggest that geese are most strongly affecting nutrient loads in freshwaters inside breeding areas, which show evidence of ornithological eutrophication. Nutrient changes of this magnitude, especially in typically oligotrophic Arctic lakes, can have profound consequences on ecosystem structure and function and demonstrate how burgeoning waterfowl populations can act as a vector of rapid environmental change in Arctic freshwaters.     

Do rural impoundments in coastal Bay of Fundy,Canada sustain adequate habitat for wildlife?

In Canada and elsewhere in North America, impoundments are created in compensation for historic wetland loss and for habitat loss due to development projects, but these new sites are infrequently evaluated to determine how effectively they function. The Cumberland Marsh Region (CMR), located at the head of the Bay of Fundy, Canada, is of importance to migratory birds and has been subject to 300+ years of anthropogenic alteration, including impoundment creation on diked and drained tidal marsh in the last five decades. Wetland managers have noticed a pervasive decline in impoundment productivity leading to reduced waterbird usage (senescence). To understand factors that promote senescence, we analyzed abiotic and biotic proxies in sediment archives from six freshwater impoundments in two coastal watersheds to assess spatial trends across the CMR within recent decades. Our results demonstrate that impoundment productivity is driven by autochthonous nutrient sources (C/N between 7.7 and 14.4), but biogeochemical conditions can be highly variable among impoundments despite their proximity. Biogeochemical variation among top-of-core sediment samples from each impoundment was generally minimal, and thus we believe that the aging of impoundments has resulted in low productivity and organic matter accumulation due to dike stabilization and declines in nutrient loading. We conclude that these freshwater impoundments (in the CMR and likely other similar settings) are not highly productive, and may not provide abundant forage and optimal wildlife habitat which is expected of these systems; adaptive management strategies and hydrologic rehabilitation merit consideration to enhance ecological functioning. Understanding landscape attributes, hydrologic dynamics, and conditions prior to and after major human alterations should be a priority in future compensation projects.     

Rural and urban distribution of wild and domestic carnivore stools in the context of Echinococcus multilocularis environmental exposure

In zoonotic infections, the relationships between animals and humans lead to parasitic disease with severity that ranges from mild symptoms to life-threatening conditions. In cities and their surrounding areas, this statement is truer with the overcrowding of the protagonists of the parasites’ life cycle. The present study aims to investigate the distribution of a parasite, Echinococcus multilocularis, which is the causative agent of alveolar echinococcosis, using copro-sampling in historically endemic rural settlements of the eastern part of France and in newly endemic areas including urban parks and settlements surrounding Paris. Based on 2741 morphologically identified and geolocalized copro-samples, the density of fox faeces was generally higher in the surrounding settlements, except for one rural area where the faeces were at larger density downtown in the winter. Fox faeces are rare but present in urban parks. Dog faeces are concentrated in the park entrances and in the centre of the settlements. DNA was extracted for 1530 samples that were collected and identified from fox, dog, cat, stone marten and badger carnivore hosts. Echinococcus multilocularis diagnosis and host faecal tests were performed using real-time PCR. We failed to detect the parasite in the surroundings of Paris, but the parasite was found in the foxes, dogs and cats in the rural settlements and their surroundings in the historically endemic area. A spatial structuring of the carnivore stool distribution was highlighted in the present study with high densities of carnivore stools among human occupied areas within some potentially high-risk locations.     

Effect of UV irradiation on aflatoxin reduction: a cytotoxicity evaluation study using human hepatoma cell line

In this proof-of-concept study, the efficacy of a medium-pressure UV (MPUV) lamp source to reduce the concentrations of aflatoxin B₁, aflatoxin B₂, and aflatoxin G₁ (AFB_1, AFB₂, and AFG₁) in pure water is investigated. Irradiation experiments were conducted using a collimated beam system operating between 200 to 360 nm. The optical absorbance of the solution and the irradiance of the lamp are considered in calculating the average fluence rate. Based on these factors, the UV dose was quantified as a product of average fluence rate and treatment time. Known concentrations of aflatoxins were spiked in water and irradiated at UV doses ranging from 0, 1.22, 2.44, 3.66, and 4.88 J cm^?2. The concentration of aflatoxins was determined by HPLC with fluorescence detection. LC-MS/MS product ion scans were used to identify and semi-quantify degraded products of AFB₁, AFB₂, and AFG₁. It was observed that UV irradiation significantly reduced aflatoxins in pure water (p < 0.05). Irradiation doses of 4.88 J cm^?2 reduced concentrations 67.22% for AFG₁, 29.77% for AFB₂, and 98.25% for AFB₁ (p < 0.05). Using this technique, an overall reduction of total aflatoxin content of ≈95% (p < 0.05) was achieved. We hypothesize that the formation of ˙OH radicals initiated by UV light may have caused photolysis of AFB₁, AFB₂, and AFG₁ molecules. In cell culture studies, our results demonstrated that the increase of UV dosage decreased the aflatoxin-induced cytotoxicity in HepG₂ cells. Therefore, our research finding suggests that UV irradiation can be used as an effective technique for the reduction of aflatoxins.     

Serum metabolites associated with feed efficiency in black angus steers

Introduction

Improving feed utilization in cattle is required to reduce input costs, increase production, and ultimately improve sustainability of the beef cattle industry. Characterizing metabolic differences between efficient and non-efficient animals will allow stakeholders to identify more efficient cattle during backgrounding.

Objectives

This study used an untargeted metabolomics approach to determine differences in serum metabolites between animals of low and high residual feed intake.

Methods

Residual feed intake was determined for 50 purebred Angus steers and 29 steers were selected for the study steers based on low versus high feed efficiency. Blood samples were collected from steers and analyzed using untargeted metabolomics via mass spectrometry. Metabolite data was analyzed using Metaboanalyst, visualized using orthogonal partial least squares discriminant analysis, and p-values derived from permutation testing. Non-esterified fatty acids, urea nitrogen, and glucose were measured using commercially available calorimetric assay kits. Differences in metabolites measured were grouped by residual feed intake was measured using one-way analysis of variance in SAS 9.4.

Results

Four metabolites were found to be associated with differences in feed efficiency. No differences were found in other serum metabolites, including serum urea nitrogen, non-esterified fatty acids, and glucose.

Conclusions

Four metabolites that differed between low and high residual feed intake have important functions related to nutrient utilization, among other functions, in cattle. This information will allow identification of more efficient steers during backgrounding.