A review of the status and range expansion of common carp (Cyprinus carpio L.) in Ireland

Although common carp are known to have been present in Ireland since the early 17th century, historically the species’ distribution was extremely localised. Owing to the popularity of carp as a sport fish in more recent times, it was suspected that the species range had expanded. Distribution maps were constructed from records in the published literature and consultations with both angling and governmental bodies, facilitating a review of the temporal changes in the range and distribution of carp from 1950 to the present day. There has been a significant increase in the range of distribution of carp, by order of 302% in the national 10 km grid-square network. The characteristic pattern of extinction and colonisation of carp in Irish water bodies clearly indicates that the species has not spread by natural dispersal but rather by human-mediated transfers, which are the mechanism for the species’ range expansion. While carp has been able to establish self-sustaining populations in Ireland, these remain restricted to smaller, often land-locked, water bodies. Future climatic warming and the increasing popularity of carp as an angling quarry may facilitate further range expansion, both naturally and human mediated

Validating citizen science monitoring of ambient water quality for the United Nations sustainable development goals

Citizen science (CS) may be described as research carried out by members of the public with the aim of gathering scientific information for the purpose of aiding in scientific projects. It has many potential advantages, including data collection at a scale not possible by professional scientists alone. The United Nations (UN) has recently recognized citizen science as a potential source of data that may con-tribute to the UN Sustainable Development Goals (SDGs). The availability of relatively inexpensive water quality monitoring field equipment suitable for CS suggests great potential for increased spatial coverage far beyond that of traditional, laboratory-based monitoring networks for water quality. In support of work towards the achievement of Sustainable Development Goal 6: ‘‘Clean Water and Sanitation”, this study tested the use of such field equipment by citizen scientists for SDG Indicator 6.3.2: ‘‘Proportion of bodies of water with good ambient water quality”. Data generated by 26 citizen scientists were compared with the results produced by an accredited laboratory. The results compared well for most parameters, suggesting that citizen science may be able to contribute towards monitoring ambient water quality for the Sustainable Development Goals

Saltmarshes on peat substrate on the southwest coast of Ireland: edaphic parameters and plant species distribution

Abstract. Saltmarshes on peat substrate are common along the western Atlantic coast of Ireland. The peat which underlies these marshes was formed under freshwater conditions in post glacial times, after which these systems were subjected to a marine transgression. The aim of this study was to determine the relationship between edaphic factors, substrate type and saltmarsh vegetation, specifically investigating the role of edaphic factors in determining the distribution of saltmarsh species Atriplex portulacoides in Ireland. Edaphic parameters measured for each substrate included pH, moisture content, ammonium and nitrate. The peat was found to differ markedly from other substrates. Using canonical correspondence analysis it was found that pH and ammonium were the major drivers in influencing saltmarsh vegetation on peat substrate. Under both in situ and ex situ conditions Atriplex portulacoides showed an affinity for drier substrate and its absence from fringe marshes in Ireland is likely due to a combination of both biotic and abiotic factors, including intolerance to high soil moisture levels

Developments in water quality monitoring and management in large river catchments using the Danube River as an example

Effective management of water quality in large rivers requires information on the influence of activities within the catchment (urban and rural) throughout the whole river basin. However, traditional water quality monitoring programmes undertaken by individual agencies normally relate to specific objectives, such as meeting quality criteria for wastewater discharges, and fail to provide information on basin-scale impacts, especially in transboundary river basins. Ideally, monitoring in large international river basins should be harmonised to provide a basin-scale assessment of sources and impacts of human activities, and the effectiveness of management actions. This paper examines current water quality issues in the Danube River basin and evaluates the approach to water quality monitoring in the context of providing information for a basin-wide management plan. Lessons learned from the monitoring programme in the Danube are used to suggest alternative approaches that could result in more efficient generation of water quality data and provide new insights into causes and impacts of variations in water quality in other large international river basins

Developments in water quality monitoring and management in large river catchments using the Danube River as an example

Effective management of water quality in large rivers requires information on the influence of activities within the catchment (urban and rural) throughout the whole river basin. However, traditional water quality monitoring programmes undertaken by individual agencies normally relate to specific objectives, such as meeting quality criteria for wastewater discharges, and fail to provide information on basin-scale impacts, especially in transboundary river basins. Ideally, monitoring in large international river basins should be harmonised to provide a basin-scale assessment of sources and impacts of human activities, and the effectiveness of management actions. This paper examines current water quality issues in the Danube River Basin and evaluates the approach to water quality monitoring in the context of providing information for a basin-wide management plan. Lessons learned from the monitoring programme in the Danube are used to suggest alternative approaches that could result in more efficient generation of water quality data and provide new insights into causes and impacts of variations in water quality in other large international river basins

Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips

The Brassica napus 60K Illumina Infinium™ SNP array has had huge international uptake in the rapeseed community due to the revolutionary speed of acquisition and ease of analysis of this high-throughput genotyping data, particularly when coupled with the newly available reference genome sequence. However, further utilization of this valuable resource can be optimized by better understanding the promises and pitfalls of SNP arrays. We outline how best to analyze Brassica SNP marker array data for diverse applications, including linkage and association mapping, genetic diversity and genomic introgression studies. We present data on which SNPs are locus-specific in winter, semi-winter and spring B. napus germplasm pools, rather than amplifying both an A-genome and a C-genome locus or multiple loci. Common issues that arise when analyzing array data will be discussed, particularly those unique to SNP markers and how to deal with these for practical applications in Brassica breeding applications

Basic science232. Certolizumab pegol prevents pro-inflammatory alterations in endothelial cell function

Background: Cardiovascular disease is a major comorbidity of rheumatoid arthritis (RA) and a leading cause of death. Chronic systemic inflammation involving tumour necrosis factor alpha (TNF) could contribute to endothelial activation and atherogenesis. A number of anti-TNF therapies are in current use for the treatment of RA, including certolizumab pegol (CZP), (Cimzia ®; UCB, Belgium). Anti-TNF therapy has been associated with reduced clinical cardiovascular disease risk and ameliorated vascular function in RA patients. However, the specific effects of TNF inhibitors on endothelial cell function are largely unknown. Our aim was to investigate the mechanisms underpinning CZP effects on TNF-activated human endothelial cells. Methods: Human aortic endothelial cells (HAoECs) were cultured in vitro and exposed to a) TNF alone, b) TNF plus CZP, or c) neither agent. Microarray analysis was used to examine the transcriptional profile of cells treated for 6 hrs and quantitative polymerase chain reaction (qPCR) analysed gene expression at 1, 3, 6 and 24 hrs. NF-κB localization and IκB degradation were investigated using immunocytochemistry, high content analysis and western blotting. Flow cytometry was conducted to detect microparticle release from HAoECs. Results: Transcriptional profiling revealed that while TNF alone had strong effects on endothelial gene expression, TNF and CZP in combination produced a global gene expression pattern similar to untreated control. The two most highly up-regulated genes in response to TNF treatment were adhesion molecules E-selectin and VCAM-1 (q 0.2 compared to control; p > 0.05 compared to TNF alone). The NF-κB pathway was confirmed as a downstream target of TNF-induced HAoEC activation, via nuclear translocation of NF-κB and degradation of IκB, effects which were abolished by treatment with CZP. In addition, flow cytometry detected an increased production of endothelial microparticles in TNF-activated HAoECs, which was prevented by treatment with CZP. Conclusions: We have found at a cellular level that a clinically available TNF inhibitor, CZP reduces the expression of adhesion molecule expression, and prevents TNF-induced activation of the NF-κB pathway. Furthermore, CZP prevents the production of microparticles by activated endothelial cells. This could be central to the prevention of inflammatory environments underlying these conditions and measurement of microparticles has potential as a novel prognostic marker for future cardiovascular events in this patient group. Disclosure statement: Y.A. received a research grant from UCB. I.B. received a research grant from UCB. S.H. received a research grant from UCB. All other authors have declared no conflicts of interes

Rare coding variants in PLCG2, ABI3, and TREM2 implicate microglial-mediated innate immunity in Alzheimer's disease

We identified rare coding variants associated with Alzheimer’s disease (AD) in a 3-stage case-control study of 85,133 subjects. In stage 1, 34,174 samples were genotyped using a whole-exome microarray. In stage 2, we tested associated variants (P<1×10-4) in 35,962 independent samples using de novo genotyping and imputed genotypes. In stage 3, an additional 14,997 samples were used to test the most significant stage 2 associations (P<5×10-8) using imputed genotypes. We observed 3 novel genome-wide significant (GWS) AD associated non-synonymous variants; a protective variant in PLCG2 (rs72824905/p.P522R, P=5.38×10-10, OR=0.68, MAFcases=0.0059, MAFcontrols=0.0093), a risk variant in ABI3 (rs616338/p.S209F, P=4.56×10-10, OR=1.43, MAFcases=0.011, MAFcontrols=0.008), and a novel GWS variant in TREM2 (rs143332484/p.R62H, P=1.55×10-14, OR=1.67, MAFcases=0.0143, MAFcontrols=0.0089), a known AD susceptibility gene. These protein-coding changes are in genes highly expressed in microglia and highlight an immune-related protein-protein interaction network enriched for previously identified AD risk genes. These genetic findings provide additional evidence that the microglia-mediated innate immune response contributes directly to AD development