Seamount influences on mid-water shrimps (Decapoda) and Gnathophausiids (Lophogastridea) of the South-West Indian ridge

This study was conducted under the UNDP/IUCN project, funded by the Global Environment Facility (GEF). The authors thank the School of Biology at the University of St Andrews and the National Environmental Research Council (NERC) for funding toward Tom B Letessier's PhD.Maintenance of often-observed elevated levels of pelagic diversity and biomass on seamounts, that are of relevance to conservation and fishery management, involves complex interactions between physical and biological variables that remain poorly understood. To untangle these biophysical processes we explore factors influencing the distribution of epi- and meso-pelagic (0–1000 m) micronektonic crustaceans (>15 mm; order Lophogastridea, family Gnathophausiidea; and order Decapoda) on and off seamounts along the South West Indian Ridge (SWIR, 27° to 42°S) and on a seamount off the Madagascar Ridge (31.6°S, 42.8°E). Thirty-one species of micronektic crustaceans were caught using mid-water trawls within the study are but there was no apparent latitude-related patterns in species richness or abundance. Species richness predicted by rarefraction curves and numerical abundance was highest in the vicinity (800 m). The dominant species assemblage comprised the shrimps Systellaspis debilis (37%) and Sergia prehensilis (34%), and was restricted to seamounts on the subtropical SWIR. Our observations suggest that the ‘oasis effect’ of seamounts conventionally associated with higher trophic levels is also applicable to pelagic micronektic crustaceans at lower trophic levels. We suggest that the enhanced biomass and species richness attributed is due to ‘habitat enrichment’, whereby seamounts provide favourable habitats for both pelagic and bentho-pelagic mid-water crustaceans.PostprintPeer reviewe

The inflammatory bowel disease drug azathioprine induces autophagy via mTORC1 and the unfolded protein response sensor PERK

Background Genetic studies have strongly linked autophagy to Crohn's disease (CD) and stimulating autophagy in CD patients may be therapeutically beneficial. The aim of this study was to evaluate the effect of current inflammatory bowel disease (IBD) drugs on autophagy and investigate molecular mechanisms of action and functional outcomes in relation to this cellular process. Methods Autophagy marker LC3 was evaluated by confocal fluorescence microscopy and flow cytometry. Drug mechanism of action was investigated by PCR Array with changes in signaling pathways examined by immunoblot and RT-qPCR. Clearance of adherent-invasive Escherichia coli (AIEC) and levels of pro-inflammatory cytokine tumour necrosis factor alpha (TNFα) were evaluated by gentamicin protection assays and RT-qPCR respectively. LC3 was analysed in peripheral blood mononuclear cells (PBMC) from paediatric patients by flow cytometry. Results Azathioprine induces autophagy via mechanisms involving modulation of mechanistic target of rapamycin (mTORC1) signaling and stimulation of the unfolded protein response (UPR) sensor PERK. Induction of autophagy with azathioprine correlated with the enhanced clearance of AIEC and dampened AIEC-induced increases in TNFα. Azathioprine induced significant increase in autophagosome bound LC3-II in PBMC populations ex vivo, supporting in vitro findings. In patients, the CD-associated ATG16L1 T300A single-nucleotide polymorphism did not attenuate azathioprine induction of autophagy. Conclusions Modulation of autophagy via mTORC1 and the UPR may contribute to the therapeutic Powered by Editorial Manager® and ProduXion Manager® from Aries Systems Corporatio

Concussion and long-term cognitive function among rugby players-The BRAIN Study.

OBJECTIVE: The BRAIN Study was established to assess the associations between self-reported concussions and cognitive function among retired rugby players. METHODS: Former elite-level male rugby union players (50+ years) in England were recruited. Exposure to rugby-related concussion was collected using the BRAIN-Q tool. The primary outcome measure was the Preclinical Alzheimer Cognitive Composite (PACC). Linear regressions were conducted for the association between concussion and PACC score, adjusting for confounders. RESULTS: A total of 146 participants were recruited. The mean (standard deviation) length of playing career was 15.8 (5.4) years. A total of 79.5% reported rugby-related concussion(s). No association was found between concussion and PACC (β -0.03 [95% confidence interval (CI): -1.31, 0.26]). However, participants aged 80+ years reporting 3+ concussions had worse cognitive function than those without concussion (β -1.04 [95% CI: -1.62, -0.47]). CONCLUSIONS: Overall there was no association between concussion and cognitive function; however, a significant interaction with age revealed an association in older participants

Adjunctive rifampicin for Staphylococcus aureus bacteraemia (ARREST): a multicentre, randomised, double-blind, placebo-controlled trial.

BACKGROUND: Staphylococcus aureus bacteraemia is a common cause of severe community-acquired and hospital-acquired infection worldwide. We tested the hypothesis that adjunctive rifampicin would reduce bacteriologically confirmed treatment failure or disease recurrence, or death, by enhancing early S aureus killing, sterilising infected foci and blood faster, and reducing risks of dissemination and metastatic infection. METHODS: In this multicentre, randomised, double-blind, placebo-controlled trial, adults (≥18 years) with S aureus bacteraemia who had received ≤96 h of active antibiotic therapy were recruited from 29 UK hospitals. Patients were randomly assigned (1:1) via a computer-generated sequential randomisation list to receive 2 weeks of adjunctive rifampicin (600 mg or 900 mg per day according to weight, oral or intravenous) versus identical placebo, together with standard antibiotic therapy. Randomisation was stratified by centre. Patients, investigators, and those caring for the patients were masked to group allocation. The primary outcome was time to bacteriologically confirmed treatment failure or disease recurrence, or death (all-cause), from randomisation to 12 weeks, adjudicated by an independent review committee masked to the treatment. Analysis was intention to treat. This trial was registered, number ISRCTN37666216, and is closed to new participants. FINDINGS: Between Dec 10, 2012, and Oct 25, 2016, 758 eligible participants were randomly assigned: 370 to rifampicin and 388 to placebo. 485 (64%) participants had community-acquired S aureus infections, and 132 (17%) had nosocomial S aureus infections. 47 (6%) had meticillin-resistant infections. 301 (40%) participants had an initial deep infection focus. Standard antibiotics were given for 29 (IQR 18-45) days; 619 (82%) participants received flucloxacillin. By week 12, 62 (17%) of participants who received rifampicin versus 71 (18%) who received placebo experienced treatment failure or disease recurrence, or died (absolute risk difference -1·4%, 95% CI -7·0 to 4·3; hazard ratio 0·96, 0·68-1·35, p=0·81). From randomisation to 12 weeks, no evidence of differences in serious (p=0·17) or grade 3-4 (p=0·36) adverse events were observed; however, 63 (17%) participants in the rifampicin group versus 39 (10%) in the placebo group had antibiotic or trial drug-modifying adverse events (p=0·004), and 24 (6%) versus six (2%) had drug interactions (p=0·0005). INTERPRETATION: Adjunctive rifampicin provided no overall benefit over standard antibiotic therapy in adults with S aureus bacteraemia. FUNDING: UK National Institute for Health Research Health Technology Assessment

Bi-allelic Loss-of-Function CACNA1B Mutations in Progressive Epilepsy-Dyskinesia.

The occurrence of non-epileptic hyperkinetic movements in the context of developmental epileptic encephalopathies is an increasingly recognized phenomenon. Identification of causative mutations provides an important insight into common pathogenic mechanisms that cause both seizures and abnormal motor control. We report bi-allelic loss-of-function CACNA1B variants in six children from three unrelated families whose affected members present with a complex and progressive neurological syndrome. All affected individuals presented with epileptic encephalopathy, severe neurodevelopmental delay (often with regression), and a hyperkinetic movement disorder. Additional neurological features included postnatal microcephaly and hypotonia. Five children died in childhood or adolescence (mean age of death: 9 years), mainly as a result of secondary respiratory complications. CACNA1B encodes the pore-forming subunit of the pre-synaptic neuronal voltage-gated calcium channel Cav2.2/N-type, crucial for SNARE-mediated neurotransmission, particularly in the early postnatal period. Bi-allelic loss-of-function variants in CACNA1B are predicted to cause disruption of Ca2+ influx, leading to impaired synaptic neurotransmission. The resultant effect on neuronal function is likely to be important in the development of involuntary movements and epilepsy. Overall, our findings provide further evidence for the key role of Cav2.2 in normal human neurodevelopment.MAK is funded by an NIHR Research Professorship and receives funding from the Wellcome Trust, Great Ormond Street Children's Hospital Charity, and Rosetrees Trust. E.M. received funding from the Rosetrees Trust (CD-A53) and Great Ormond Street Hospital Children's Charity. K.G. received funding from Temple Street Foundation. A.M. is funded by Great Ormond Street Hospital, the National Institute for Health Research (NIHR), and Biomedical Research Centre. F.L.R. and D.G. are funded by Cambridge Biomedical Research Centre. K.C. and A.S.J. are funded by NIHR Bioresource for Rare Diseases. The DDD Study presents independent research commissioned by the Health Innovation Challenge Fund (grant number HICF-1009-003), a parallel funding partnership between the Wellcome Trust and the Department of Health, and the Wellcome Trust Sanger Institute (grant number WT098051). We acknowledge support from the UK Department of Health via the NIHR comprehensive Biomedical Research Centre award to Guy's and St. Thomas' National Health Service (NHS) Foundation Trust in partnership with King's College London. This research was also supported by the NIHR Great Ormond Street Hospital Biomedical Research Centre. J.H.C. is in receipt of an NIHR Senior Investigator Award. The research team acknowledges the support of the NIHR through the Comprehensive Clinical Research Network. The views expressed are those of the author(s) and not necessarily those of the NHS, the NIHR, Department of Health, or Wellcome Trust. E.R.M. acknowledges support from NIHR Cambridge Biomedical Research Centre, an NIHR Senior Investigator Award, and the University of Cambridge has received salary support in respect of E.R.M. from the NHS in the East of England through the Clinical Academic Reserve. I.E.S. is supported by the National Health and Medical Research Council of Australia (Program Grant and Practitioner Fellowship)

Temporal dynamics in the deep sea : time-series at food falls, seasonality in condition of grenadiers, and tides as time signals

The deep demersal community of the bathyal Porcupine Seabight is subject to environmental forcing on diel, seasonal and annual scales, in addition to the stochastic and transient influence of nutritional windfalls from the photic zone.  The current regime at bathyal depth in the Porcupine Seabight is characterised by oscillations in current flow with periods of 12.4h and 14.8d.  Increased current velocity and particle suspension in summer months synchronises well with the seasonal input of phytoplankton to the seafloor. These physical characteristics may constitute time signals in the deep ocean environment. Consumption and succession processes at bathyal food falls in the North Atlantic are suggestive of a fundamental difference in the community response between the North Atlantic and North Pacific oceans. The sinking of small cetacean carcasses constitutes a transient environmental impact on the local community structure which is not limited to the scavenging fauna.  There is limited evidence of a response to the seasonal increase in available organic carbon in the white muscle of North Atlantic macrourids. This is in accordance with results from Pacific macrourids and suggests that the seasonal food pulse, experienced by the deep benthos under productive surface waters, is not greatly manifested at higher trophic levels. The successful adaptation of existing baited camera technology to incorporate an autonomous periodic bait-release system has enabled long-term high frequency time-series observations of deep-sea scavenging demersal fish and crustaceans to be made for the first time. An understanding of temporal environmental cues, and of the resultant interactions between organisms and their environment, effectively pervades the study of any aspect of organismal or population ecology.EThOS - Electronic Theses Online ServiceGBUnited Kingdo

Benthic community structure on offshore northern shrimp (Pandalus borealis) grounds north of Iceland

The main fisheries of northern shrimp in Icelandic waters are located west and north of Iceland. These locations are studied in an annual survey to estimate stock size and distribution of northern shrimp. In July 2015, an additional survey was conducted to study the benthic community structure and function to describe the habitat where the northern shrimp fisheries take place. Underwater images were taken from 26 stations, grab samples were collected at 11 stations and in addition, by-catch was collected from the annual Icelandic shrimp survey in August 2015. The sampling sites, despite being distributed throughout a relatively large area north of Iceland, were rather uniform in relation to sediment type and fauna composition. The stations were similar in grain size and dominated by soft sediment of sand and silt/mud and soft sediment fauna. The infauna was mainly burrowing infauna with affinity to soft sediment and surface deposit feeding. The epifauna were free-living crawlers with affinity for predation feeding habit. No relationship with environment was observed for either the epifauna or the infauna. Species diversity and community composition did not vary with depth, probably because of the narrow depth range of the sites. This study provides the first data on benthic in- and epifauna in northern shrimp fishery locations north of Iceland, which can later be used to estimate possible changes and/or the effect of shrimp fishing within this area

Improved DNA extraction efficiency from low level cell numbers using a silica monolith based micro fluidic device

The evaluation of a micro fluidic system with an integrated silica monolith for performing DNA extraction from limited biological samples has been carried out. Low DNA target concentrations usually require the addition of carrier RNA to ensure desired extraction efficiencies. Here, we demonstrate a micro fluidic extraction system with increasingly efficient extraction performances for biological samples containing <15ng of total DNA without the need of adding carrier nucleic acids. All extracted DNA showed successful amplification via the polymerase chain reaction demonstrating both the effectiveness of the proposed system at removing potential inhibitors and yielding good quality DNA. The work presented here beneficially identifies reduced sample volumes/concentrations as suitable for processing with respect to downstream analysis by enabling pre-concentration of the biological sample, particularly important when dealing with clinical or forensic specimens

Consumption of large bathyal food fall, a six month study in the NE Atlantic

We deployed 2 porpoise (Phocoena phocoena) carcasses at bathyal depth (2555 to 2710 m) in the Porcupine Seabight, NE Atlantic for periods of 1 wk and 6 mo respectively. Consumption rates of 0.085 and 0.078 kg h–1 were similar to those observed at abyssal depths in the Atlantic, and 1 order of magnitude slower than at bathyal depth in the Pacific. A distinct succession of scavenging species was observed at both carcasses: the abyssal grenadier Coryphaenoides armatus and the cusk eel Spectrunculus grandis numerically dominated the initial phase of carcass consumption and, once the bulk of the soft tissue had been removed (by Day 15), were succeeded by the squat lobster Munidopsis crassa. The blue hake Antimora rostrata and amphipod numbers were unexpectedly low, and consumption was attributed largely to direct feeding by C. armatus. The interaction of a crustacean prey species (M. crassa) and cephalopod predator (Benthoctopus sp.) was observed for the first time, revealing that large food falls also attract secondary predators that do not utilise the food fall directly. The staying time of a single parasitised C. armatus (18 h) greatly exceeded previous estimates (≤8 h). This study describes the first large food fall to be monitored at high frequency over a 6 mo period, and the first observations of a large food fall at bathyal depth in the NE Atlantic. It enables direct comparison with similarly sized food falls at abyssal depth, much larger megacarrion falls, and similar studies differing in geographic location, in particular those carried out under Pacific whale migration corridors

The impact of trawling on the epibenthic megafauna of the west Greenland shelf

Benthic habitats are important elements of polar marine environments, but can be vulnerable to anthropogenic influences such as trawling. Bottom trawling can reduce diversity and alter communities, although some habitats show resilience. The shrimp trawl fishery of West Greenland is a significant part of Greenland's economy. It operates along the west coast from the narrow rockier shelf of the south, up to deeper, muddy areas around Disko Bay. Here we use a benthic drop camera to sample 201 sites between latitudes 60–72°N and depths of 61–725m. Linear models examined relationships of taxon abundance and diversity with bottom trawling intensity and environment (depth, temperature, current, iceberg concentration). Trawling intensity is the most important factor determining the overall abundance of benthic organisms, accounting for 12–16% of variance, although environmental conditions also show significant associations. Sessile erect organisms such as corals show a significant negative response to trawling. Soft sediment communities show a higher resilience than rocky areas. On soft sediments significantly lower abundance characterises sites trawled under five years ago. On hard/mixed ground reduced abundance remains characteristic of sites trawled a decade ago. Continued monitoring of benthic habitats is an essential part of evaluating the ongoing impacts of trawl fisheries