Biological, Earth and Environmental Sciences

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Leaf galls in our native trees and shrubs
(University College Cork, 1945) Walsh, Eileen G.; Renouf, Louis P. W.
Plant galls constitute a branch of study and research which has been to me a subject of much interest for some time. At the start of this work, it was intended to include Plant galls in general, but after some months this was found to be too comprehensive a field and would in fact take a great many years to study fully. Even leaf galls alone, both of herbs and trees provide so large a field of investigation that ultimately I decided to confine my attention to those or our native trees and shrubs. Upon looking up the literature on this subject, it will be found that in nearly all cases, either the gall is described fully and mere mention made or the agent concerned in its production, or vice versa. This state of things is most unsatisfactory, as in studying galls, both the gall-maker and the gall formation must be examined in detail before it is safe to apply nomenclature. This work, therefore, sets out to give accurate and scientific descriptions of both galls and gall-makers. The difficulties encountered are manifold; firstly, our trees are all deciduous, hence, the collecting period is necessarily restricted to that time of the year between the appearance of the buds and the fall of the leaf. Secondly, the rearing of imagines is always difficult, especially in the case or the autumn gall; more will be said on this matter later. Lastly, due to war-time conditions much trouble was experienced in obtaining suitable literature and many invaluable books on this subject were unprocurable. The Plates at the back have all been copied from original material except in the case or the Phytoptid mites which have been sketched with the help of illustrations, the reason for this being the difficulty of making suitable mounts of these minute creatures, Where possible all stages or at least larva and imago have been sketched, together with the host plant and the type of gall-formation produced. Slides have also been made of most larvae and the imagines attached to cards and pinned on to pith or cork in the usual manner.
Studies on Formica lugubris Zetterstedt in Ireland (Hymenoptera, Formicidae)
(University College Cork, 1976) Breen, John A. G.; O'Rourke, Fergus J.
This thesis is based on studies of Formica lugubris from 1972-1975. While this species' range is diminishing in Ireland, the nests are quite common in the State plantations of South Tipperary. It is not certain that the species is indigenous. Above-ground activity occurs from late-February to the end of October; foraging begins in April. Two territorial "spring-battles" between neighbouring nests are described. Most active nests produced alatae of both sexes and flights were observed on successive June mornings above l7.5°C air temperature. Both polygyny and polycaly seem to be rare. Where the nests occur commonly, the recorded densities are similar to those reported from the continent. Most nests persisted at the same site since 1973. The nest-sites are described by recording an array of nest, soil, tree, vegetation and location variables at each site. Pinus sylvestris is the most important overhead tree. Nests seem to be the same age as their surrounding plantation and reach a maximum of c. 30 years. Nearest-neighbour analysis suggests the sites are overdispersed. Forager route-fidelity was studied and long-term absence from the route, anaesthetization and "removal" of an aphid tree had little effect on this fidelity. There were no identifiable groups of workers specifically honeydew or prey-carriers. Size-duty relationships of workers participating in adult transport are described. Foraging rhythms were studied on representative days: the numbers foraging were linearly related to temperature. Route-traffic passed randomly and an average foraging trip lasted c. four hours. Annual food intake to a nest with 25 000 foragers was estimated at approximately 75 kg honeydew and 2 million prey-items. Forager-numbers and colony-size were estimated using the capture-mark - recapture method: paint marking was used for the forager estimate and an interval radiophosphorus mark, detected by autoradiography, was used for the colony-size estimate. The aphids attended by lugubris and the nest myrmecophiles are recorded.
Micropropagation of Begonia and a study of genome stability in Begonia rex
(University College Cork, 1985) Morrish, Fionnuala; Cassells, Alan C.
The development of procedures and media for the micropropagation of B. rex are described. Media for the production of plantlets from a number of other Begonia hybrids are also provided. Growth analysis data is given for plants produced in vivo from leaf cuttings and in vitro from mature leaf petioles and immature leaves derived from singly and multiply recycled axenic plantlets. No significant difference was found in phenotype or quantitative vegetative characters for any of the populations assessed. The results presented from studies on the development of broad spectrum media for the propagation of a number of B. rex cultivars using axenic leaf explants on factorial combinations of hormones illustrate the major influence played by the genotype on explant response in vitro and suggest media on which a range of B. rex cultivars may be propagated. Procedures for in vitro irradiation and colchicine treatments to destabilize the B. rex genome have also been described. Variants produced from these treatments indicate the utility of in vitro procedures for the expression of induced somatic variation. Colour variants produced from irradiation treatment have been cultured and prove stable. Polyploids produced as variants from irradiation treatment have been subcultured but prove unstable. Media for the induction and proliferation of callus are outlined. The influence of callus subculture and aging on the stability of the B. rex genome is assessed by chromosomal analysis of cells, in vitro and in regenerants. The B. rex genome is destabilized in callus culture but attenuation of variation occurs on regeneration. Diploid cell lines are maintained in callus subcultures and supplementation of regenerative media with high cytokinin concentrations, casein hydrolysate or adenine failed to produce variants. Callus aging however resulted in the production of polyploids. The presence and expression of pre-existing somatic variation in B. rex pith and root tissue is assessed and polyploids have been produced from pith tissues cultured in vitro. The stability of the B. rex genome and the application of tissue culture to micropropagation and breeding of B. rex are discussed.
The ecology of the Irish stoat
(University College Cork, 1987) Sleeman, David Patrick; Mulcahy, Máire F.
The Irish stoat, Mustela erminea hibernica (Thomas and Barrett-Hamilton), has been regarded as an intermediate between the British stoat and the weasel. In this study Irish stoats, mainly from road casualties, were collected and studied. A small number were also live-trapped and radio-tracked. Thus information was gathered on the stoat’s ecology, in particular its form (size and coat colours), reproduction, food habits, parasites, habitat utilisation mortality and predation. The Irish stoats studied were clearly not intermediate in size between British stoats and weasels. They showed considerable size overlap with British stoats, and marked size variation within Ireland. It is argued that size of stoats is determined by food supply early in life. The ventral coat pattern of Irish stoats is apparently unique in the Palaearctic, being similar to that of some stoats found on the west coast of North America. It is argued that this is an example of parallel evolution resulting from adaptation to similar climatic conditions. The stoats were reproductively active in spring and summer. Food consisted mainly of rabbits, but rats, birds, shrews mice and voles were also consumed. Mites were the most numerous ectoparasites, followed by lice, ticks and fleas. Damage by the parasitic nematode Skrjabingylus nasicola was found more frequently in female stoat skulls. Stoats were frequently found in a variety of habitats, both open and wooded. Some of the radio-tracked stoats climbed trees. Dens used were often rat holes. Only one home range, that of a breeding female, was considered to have been accurately measured. It was 22 ha. in size. Mortality is known to have been caused by road accidents and domestic carnivores. It is argued that predation by raptorial birds is important to stoat populations. Results of this study are compared with information available from elsewhere.
Strike-slip tectonics and granite petrogenesis
(American Geophysical Union, 1992-10) Hutton, D.H.W.; Reavy, R. John
Transpression is a process that thickens the crust and therefore in obliquely convergent orogens as in normally convergent orogens there is the potential to generate granitic melts. Individual transcurrent shear zones may not only control the ascent paths, siting, and emplacement mechanisms of plutons, but they may also cause the genesis of the granitoids themselves. Two contrasting situations are examined. In the Hercynian shear zones of Iberia, thickening together with hydrous fluxing along shear zones created intracrustal wet melting of fertile Gondwanan sediments to produce syntectonic granites. In the northern part of the British Caledonides, the association of compositionally expanded granitoids with a major mantle component and transcurrent shear zones may be explained by melting of continental crust at the lower limits of crustal transpressional faults detaching into the Moho.
Variability in north temperate dung beetle assemblages at different spatial and temporal scales
(University College Cork, 1998) Finn, John A.; Giller, Paul S.
This study examined the spatial and temporal variability of dung beetle assemblages across a variety of scales e.g. from the between-pad scale (examining the effects of dung size and type) to larger spatial scales encompassing southern Ireland. Dung beetle assemblage structure as sampled by dung pad cohort samples and dung baited pitfall trapping were compared. Generally, the rank order of abundance of dung beetle species was significantly correlated between pitfall catches and cohort pad samples. Across different dung sizes, in both pitfall catches and cohort pad samples, the relative abundance of species was frequently significantly different, but the rank order of abundance of dung beetle was usually significantly correlated. Considerable variations in pitfall catches at temporal scales of a few days appeared to be closely related to weather conditions and rotational grazing. However, despite considerable variation in absolute abundances between consecutive days of sampling, assemblage structure typically remained very similar. The relationship between dung pad size and dung beetle colonisation was investigated. In field experiments in which pads of different sizes (0.25 L, 0.5 L, 1.0 L and 1.5 L) were artificially deposited, there was a positive relationship between pad size and both biomass and number of beetles colonising dung pads and pitfall traps. In addition, with one exception, the field experiments indicated a general positive relationship between dung pad size and biomass density (dung beetle biomass per unit dung volume). A laboratory experiment indicated that pat residence times of A. rufipes were significantly correlated with dung pad size. Investigation of naturally-deposited cow dung pads in the field also indicated that both larval numbers and densities were significantly correlated with dung pad size. These results were discussed in the context of theory related to aggregation and coexistence of species, and resource utilisation by organisms in ephemeral, patchy resources. The colonisation by dung beetles of dung types from native herbivores (sheep, horse and cow) was investigated in field experiments. There were significant differences between the dung types in the chemical parameters measured, and there were significant differences in abundances of dung beetles colonising the dung types. Sheep dung was typically the preferred dung type. Data from these field experiments, and from published literature, indicated that dung beetle species can display dung type preferences, in terms of comparisons of both absolute and relative abundances. In addition, data from laboratory experiments indicate that both Aphodius larval production and pat residence times tended to be higher in those dung types which were preferred by adult Aphodius in the colonisation experiments. Data from dung-baited pitfall trapping (from this and another study) at several sites (up to 180 km distant) and over a number of years (between 1991 and 1996) were used to investigate spatial and temporal variation in dung beetle assemblage structure and composition (Aphodius, Sphaeridium and Geotrupes) across a range of scales in southern Ireland. Species richness levels, species composition and rank order of abundances were very similar between the assemblages. The temporal variability between seasons within any year exceeded temporal variability between years. DCA ordinations indicated that there was a similar level of variability between assemblage structure from the between-field (~1km) to regional (~180 km) spatial scales, and between year (6 years) temporal scales. At the biogeographical spatial scale, analysis of data from the literature indicated that there was considerable variability at this scale, largely due to species turnover.
Applications of finite element computer modelling and thermal infrared remote sensing to the study of geothermal anomalies
(University College Cork, 2000) Cosgrave, Robert J.; Higgs, Bettie
Buried heat sources can be investigated by examining thermal infrared images and comparing these with the results of theoretical models which predict the thermal anomaly a given heat source may generate. Key factors influencing surface temperature include the geometry and temperature of the heat source, the surface meteorological environment, and the thermal conductivity and anisotropy of the rock. In general, a geothermal heat flux of greater than 2% of solar insolation is required to produce a detectable thermal anomaly in a thermal infrared image. A heat source of, for example, 2-300K greater than the average surface temperature must be a t depth shallower than 50m for the detection of the anomaly in a thermal infrared image, for typical terrestrial conditions. Atmospheric factors are of critical importance. While the mean atmospheric temperature has little significance, the convection is a dominant factor, and can act to swamp the thermal signature entirely. Given a steady state heat source that produces a detectable thermal anomaly, it is possible to loosely constrain the physical properties of the heat source and surrounding rock, using the surface thermal anomaly as a basis. The success of this technique is highly dependent on the degree to which the physical properties of the host rock are known. Important parameters include the surface thermal properties and thermal conductivity of the rock. Modelling of transient thermal situations was carried out, to assess the effect of time dependant thermal fluxes. One-dimensional finite element models can be readily and accurately applied to the investigation of diurnal heat flow, as with thermal inertia models. Diurnal thermal models of environments on Earth, the Moon and Mars were carried out using finite elements and found to be consistent with published measurements. The heat flow from an injection of hot lava into a near surface lava tube was considered. While this approach was useful for study, and long term monitoring in inhospitable areas, it was found to have little hazard warning utility, as the time taken for the thermal energy to propagate to the surface in dry rock (several months) in very long. The resolution of the thermal infrared imaging system is an important factor. Presently available satellite based systems such as Landsat (resolution of 120m) are inadequate for detailed study of geothermal anomalies. Airborne systems, such as TIMS (variable resolution of 3-6m) are much more useful for discriminating small buried heat sources. Planned improvements in the resolution of satellite based systems will broaden the potential for application of the techniques developed in this thesis. It is important to note, however, that adequate spatial resolution is a necessary but not sufficient condition for successful application of these techniques.
Biological wastes as plant growth substrate amendments
(University College Cork, 2001) Rafferty, Susan M.; Cassells, Alan C.
Globally, agriculture is being intensified with mechanization and increased use of synthetic fertilizers and pesticides. There has been a scaling up of production to satisfy the demands of supermarket distribution. Problems associated with intensification of production, trade globalisation and a larger market demand for greater volumes of fresh produce, include consumers' concern about pesticide residues and leaching of nutrients and pesticides into the environment, as well as increases in the transmission of human food-poisoning pathogens on raw vegetables and in fruit juices. The first part of this research was concerned with the evaluation of a biological control strategy for soil-borne pathogens, these are difficult to eliminate and the chemicals of which the most effective fumigants e.g. methyl bromide, are being withdrawn form use. Chitin-containing crustaceans shellfish waste was investigated as a selective growth substrate amendment in the field, in glasshouse and in storage trials against Sclerotinia disease of Helianthus tuberosus, Phytophthora fragariae disease of Fragaria vesca and Fusarium disease of Dianthus. Results showed that addition to shellfish waste stimulated substrate microbial populations and lytic activity and induced plant defense proteins, namely chitinases and cellulases. Protective effects were seen in all crop models but the results indicate that further trials are required to confirm long-term efficacy. The second part of the research investigated the persistence of enteric bacteria in raw salad vegetables using model food poisoning isolates. In clinical investigations plants are sampled for bacterial contamination but no attempt is made to differentiate between epiphytes and endophytes. Results here indicate that the mode isolates persist endophytically thereby escaping conventional chlorine washes and they may also induce host defenses, which results in their suppression and in negative results in conventional plate count screening. Finally a discussion of criteria that should be considered for a HACCP plan for safe raw salad vegetable production is presented.
The ecology of the song thrush, Turdus philomelos Br., in Ireland
(University College Cork, 2005-10) Kelleher, Katherine M.; O'Halloran, John; Enterprise Ireland; Coillte, Ireland
Over the last 30 years, western European Song Thrush populations have declined with the steepest decline recorded on British farmland. Changes in agricultural practices have been implicated in these population declines. Ireland is an agriculturally dominated landscape but changes in agriculture here have occurred on a relatively slower rate and scale. Little is known about the ecology of the Song Thrush in Ireland, even though it is not classified as a species of conservation concern here. Some decline is thought to have occurred but the current breeding population appears to be stable and widespread. In light of these facts, this study investigated various aspects of Song Thrush ecology in relation to the Irish landscape from 2001-2003. The breeding season extended from mid March to late June, where mean clutch size was 4.1 and number of fledglings was 3.7. There were very few third broods. Daily nest survival rates were calculated for egg stage 0.9362, incubation stage 0.9505 and nestling stage 0.6909. Most nest failures were due to avian predation at both egg and chick stages. Most nests were located 1.3 -2.4m from the ground at trees, bushes or hedgerow. Clutch size was significantly higher on farmland than garden & parkland and woodland, and the number of fledglings was significantly lower in nests in trees than hedgerow and bush sites. Daily nest fail rates were significantly higher at tree sites and partly concealed nests. Nesting areas had significantly denser vertical vegetation than non-nesting areas. Mercury and the organochlorine HEOD were the most common contaminants in Song Thrush eggs and livers. However concentrations and occurrence were low and of no apparent biological or ecological concern. The presence of breeding Song Thrushes was influenced by mixed surrounding farmland, the absence of grass surrounding farmland, ditches especially wet ones, tall dense vegetation and trimmed boundaries. Song Thrush winter densities were predicted by ditches, with wet or dry, low thin vegetation and untrimmed boundaries. Winter densities were almost double that of the breeding season, probably due to the arrival and passage of migrating Song Thrushes through the country, especially in November. Changes in Irish agriculture did not differ significantly in areas of Song Thrush breeding population stability and apparent decline during 1970 1990. Even though the current breeding population heavily uses farmland, woodland, human and scrub habitats are more preferred. Nevertheless no farmland habitat was avoided, highlighting a positive relationship between breeding Song Thrushes and Irish agriculture. This appears to be in contrast with findings between breeding Song Thrushes and British agriculture. Theses findings are compared with other studies and possible influences by agricultural intensification, climate, latitude and insular syndrome are discussed. Implications for conservation measures are considered, especially for areas of decline. Even though Song Thrushes are currently widespread and stable here, future environmental consequences of longer-term changes in Irish agriculture and perhaps climate change remain to be seen.
PLANTS DEMO - Enabling mixed societies of communicating plants and artefacts
(2006) Barton, John; O'Flynn, Brendan; Aherne, Kevin; Morrissey, Anthony; Cassells, Alan; Drossos, Nikos; Goumopoulos, Christos; Tooke, Fiona; Whitbread-Abrutat, Peter
Several applications, such as precision farming, military field monitoring and seismic activity monitoring require reliable and extended lifetime deployments of potentially a very large number of wireless sensor and actuator nodes. As hardware becomes cheaper and smaller, more of these applications are likely to appear, particularly as these miniaturised nodes offer the opportunity for the electronics to be embedded unobtrusively into everyday objects. This paper will present results from an EU funded project, PLANTS. PLANTS is a research project devising a novel technology that will allow plants to control their own environments. Using this technology, plant signals are detected, analysed and an appropriate response activated. The PLANTS system automatically responds to a plant's needs.
A procedure to identify natural arsenic sources, applied in an affected area in North Rhine-Westphalia, Germany
(Springer, 2008-05-10) Banning, Andre; Coldewey, Wilhelm G.; Göbel, Patricia; Abteilung für Abfallwirtschaft und Umweltkoordination, Kreis Coesfel
The aim of the study was to identify the geogenic source for elevated arsenic (As) concentrations recently discovered in soils of the Heubach plain, North Rhine-Westphalia, Germany. Therefore, a catalogue of conditions that an As source has to fulfil in order to be considered as geogenic was formulated, including the source’s linkage to the sink, its mineralogy, As total content, As mobilization potential, groundwater redox conditions and As output. Accordingly, mineralogical, geo- and hydrochemical investigations were carried out, including X-ray diffractometry, microscopy, ICP-OES and AAS analysis and a sequential extraction procedure. Paleo bog iron ores (PBIOs) of Tertiary age, occurring within unconsolidated sands (Haltern-layers, Santonian–Lower Campanian), and glauconitic marlstones (Dülmen-layers, Lower Campanian) were examined. Results indicate that output from the PBIOs is responsible for the elevated As levels. Accounting their diverse mineralogy, five types of PBIOs were defined. Type-dependent, they at least partly fulfil all of the formulated requirements. The relations and behaviour of As sources and sinks in space and time could be clarified for the area of interest. The approach presented in this paper may offer a tool for identifying natural As sources worldwide.
The importance of interaction strength for food web dynamics and ecosystem functioning
(University College Cork, 2009-09) O'Gorman, Eoin J.; Emmerson, Mark C.; Irish Research Council for Science Engineering and Technology
Global biodiversity is eroding at an alarming rate, through a combination of anthropogenic disturbance and environmental change. Ecological communities are bewildering in their complexity. Experimental ecologists strive to understand the mechanisms that drive the stability and structure of these complex communities in a bid to inform nature conservation and management. Two fields of research have had high profile success at developing theories related to these stabilising structures and testing them through controlled experimentation. Biodiversity-ecosystem functioning (BEF) research has explored the likely consequences of biodiversity loss on the functioning of natural systems and the provision of important ecosystem services. Empirical tests of BEF theory often consist of simplified laboratory and field experiments, carried out on subsets of ecological communities. Such experiments often overlook key information relating to patterns of interactions, important relationships, and fundamental ecosystem properties. The study of multi-species predator-prey interactions has also contributed much to our understanding of how complex systems are structured, particularly through the importance of indirect effects and predator suppression of prey populations. A growing number of studies describe these complex interactions in detailed food webs, which encompass all the interactions in a community. This has led to recent calls for an integration of BEF research with the comprehensive study of food web properties and patterns, to help elucidate the mechanisms that allow complex communities to persist in nature. This thesis adopts such an approach, through experimentation at Lough Hyne marine reserve, in southwest Ireland. Complex communities were allowed to develop naturally in exclusion cages, with only the diversity of top trophic levels controlled. Species removals were carried out and the resulting changes to predator-prey interactions, ecosystem functioning, food web properties, and stability were studied in detail. The findings of these experiments contribute greatly to our understanding of the stability and structure of complex natural communities.
Genetic stock identification of Atlantic salmon (Salmo salar) populations in the southern part of the European range
(BioMed Central, 2010-04-29) Griffiths, Andrew M.; Machado-Schiaffino, Gonzalo; Dillane, Eileen; Coughlan, Jamie P.; Horreo, Jose L.; Bowkett, Andrew E.; Minting, Peter; Toms, Simon; Roche, Willie; Gargan, Paddy; McGinnity, Philip; Cross, Thomas F.; Bright, Dylan; Garcia-Vazquez, Eva; Stevens, Jamie R.; European Commission
Background: Anadromous migratory fish species such as Atlantic salmon (Salmo salar) have significant economic, cultural and ecological importance, but present a complex case for management and conservation due to the range of their migration. Atlantic salmon exist in rivers across the North Atlantic, returning to their river of birth with a high degree of accuracy; however, despite continuing efforts and improvements in in-river conservation, they are in steep decline across their range. Salmon from rivers across Europe migrate along similar routes, where they have, historically, been subject to commercial netting. This mixed stock exploitation has the potential to devastate weak and declining populations where they are exploited indiscriminately. Despite various tagging and marking studies, the effect of marine exploitation and the marine element of the salmon lifecycle in general, remain the "black-box" of salmon management. In a number of Pacific salmonid species and in several regions within the range of the Atlantic salmon, genetic stock identification and mixed stock analysis have been used successfully to quantify exploitation rates and identify the natal origins of fish outside their home waters - to date this has not been attempted for Atlantic salmon in the south of their European range. Results: To facilitate mixed stock analysis (MSA) of Atlantic salmon, we have produced a baseline of genetic data for salmon populations originating from the largest rivers from Spain to northern Scotland, a region in which declines have been particularly marked. Using 12 microsatellites, 3,730 individual fish from 57 river catchments have been genotyped. Detailed patterns of population genetic diversity of Atlantic salmon at a sub-continent-wide level have been evaluated, demonstrating the existence of regional genetic signatures. Critically, these appear to be independent of more commonly recognised terrestrial biogeographical and political boundaries, allowing reporting regions to be defined. The implications of these results on the accuracy of MSA are evaluated and indicate that the success of MSA is not uniform across the range studied; our findings indicate large differences in the relative accuracy of stock composition estimates and MSA apportioning across the geographical range of the study, with a much higher degree of accuracy achieved when assigning and apportioning to populations in the south of the area studied. This result probably reflects the more genetically distinct nature of populations in the database from Spain, northwest France and southern England. Genetic stock identification has been undertaken and validation of the baseline microsatellite dataset with rod-and-line and estuary net fisheries of known origin has produced realistic estimates of stock composition at a regional scale. Conclusions: This southern European database and supporting phylogeographic and mixed-stock analyses of net samples provide a unique tool for Atlantic salmon research and management, in both their natal rivers and the marine environment. However, the success of MSA is not uniform across the area studied, with large differences in the relative accuracy of stock composition estimates and MSA apportioning, with a much higher degree of accuracy achieved when assigning and apportioning to populations in the south of the region. More broadly, this study provides a basis for long-term salmon management across the region and confirms the value of this genetic approach for fisheries management of anadromous species.
Enrichment processes of arsenic in oxidic sedimentary rocks – from geochemical and genetic characterization to potential mobility.
(Elsevier, 2010-06-01) Banning, Andre; Rüde, Thomas R.
Sedimentary marine iron ores of Jurassic age and Tertiary marine sandy sediments containing iron hydroxides concretions have been sampled from boreholes and outcrops in two study areas in Germany to examine iron and arsenic accumulation processes. Samples were analyzed for bulk rock geochemistry (INAA/ICP-OES), quantitative mineralogy (XRD with Rietveld analysis), element distribution (electron microprobe) and arsenic fractionation (sequential extraction). Bulk Jurassic ores contain an average arsenic content of 123 μg g−1 hosted in mainly goethite ooids which slowly formed in times of condensed sedimentation. Enrichment occurred syndepositionally and is therefore characterized as primary. Iron concretions in Tertiary sediments mainly consist of goethite and yield arsenic up to 1860 μg g−1. The accumulation process is secondary as it took place in the course of oxidation of the originally reduced marine sediments under terrestrial conditions, leading to element redistribution and local enrichment in the near-surface part. The scale of enrichment was assessed calculating Enrichment Factors, indicating that arsenic accumulation was favoured over other potential contaminants. In spite of higher bulk arsenic contents in the oxidic rocks, the mainly pyrite-hosted As pool within the reduced deeper part of the Tertiary sediments is shown to have a higher potential for remobilization and creation of elevated arsenic concentrations in groundwater.
The ecology of the European hedgehog (Erinaceus europaeus) in rural Ireland
(University College Cork, 2011) Haigh, Amy; O'Riordan, Ruth M.; Butler, Fidelma; National University of Ireland
This study on the ecology of Irish hedgehogs (Erinaceus europaeus) has provided information on detection techniques, home range, habitat selection, hedgehog prey, nesting, courtship, genetics, road mortality, parasites, ageing and morphology of this species. Data were obtained from a focal study area in rural Cork, in which 24 radio tagged hedgehogs were monitored from June 2008 to June 2010. Further data were obtained through road kill surveys and the collection of hedgehog carcasses from around Ireland. Hedgehogs of both sexes were found to display philopatry. Habitat was not used in proportion to its availability, but certain habitats were selected and a similar pattern of habitat selection was evident in successive years. Hedgehogs preferred arable land in September and October and, unlike studies elsewhere, were observed to forage in the centre of fields. Badgers were regularly seen at the study site and did not appear to negatively affect hedgehogs’ use of the area. Instead the intra- and inter-habitat distribution of hedgehogs was closely correlated with that of their potential prey. Male hedgehogs had a mean annual home range of 56 ha and females 16.5 ha, although monthly home ranges were much more conservative. Male home range peaked during the breeding season (April-July) and a peak in road deaths was observed during these months. The majority of road kill (54%) were individuals of one year old or less, however, individuals were found up to eight and nine years of age. Genetic analysis showed a distinct lack of genetic variation amongst Irish hedgehogs and suggests colonisation by a small number of individuals. The ectoparasites, Archaeopsylla erinacei, Ixodes hexagonus and Ixodes canisuga were recorded in addition to the endoparasites Crenosoma striatum and Capillaria erinacei. In light of the reported decline in many areas of the hedgehogs’ range, it is a species of conservation concern, and this is the first study examining the ecology of the hedgehog in Ireland.
Drag reduction by air release promotes fast ascent in jumping emperor penguins—a novel hypothesis
(Inter Research, 2011-05-26) Davenport, John; Hughes, R. N.; Shorten, Mark; Larsen, P. S.
To jump out of water onto sea ice, emperor penguins must achieve sufficient underwater speed to overcome the influence of gravity when they leave the water. The relevant combination of density and kinematic viscosity of air is much lower than for water. Injection of air into boundary layers (‘air lubrication’) has been used by engineers to speed movement of vehicles (ships, torpedoes) through sea water. Analysis of published and unpublished underwater film leads us to present a hypothesis that free-ranging emperor penguins employ air lubrication in achieving high, probably maximal, underwater speeds (mean ± SD: 5.3 ± 1.01 m–1), prior to jumps. Here we show evidence that penguins dive to 15 to 20 m with air in their plumage and that this compressed air is released as the birds subsequently ascend whilst maintaining depressed feathers. Fine bubbles emerge continuously from the entire plumage, forming a smooth layer over the body and generating bubbly wakes behind the penguins. In several hours of film of hundreds of penguins, none were seen to swim rapidly upwards without bubbly wakes. Penguins descend and swim horizontally at about 2 m s–1; from simple physical models and calculations presented, we hypothesize that a significant proportion of the enhanced ascent speed is due to air lubrication reducing frictional and form drag, that buoyancy forces alone cannot explain the observed speeds, and that cavitation plays no part in bubble formation.
Varying disease-mediated selection at different life-history stages of Atlantic salmon in fresh water
(John Wiley & Sons Ltd., 2011-07-04) de Eyto, Elvira; McGinnity, Philip; Huisman, Jisca; Coughlan, Jamie P.; Consuegra, Sofia; Farrell, Killian; O'Toole, Ciar; Tufto, Jarle; Megens, Hendrik-Jan; Jordan, William; Cross, Thomas F.; Stet, René J. M.; Fifth Framework Programme; Marine Institute
Laboratory studies on associations between disease resistance and susceptibility and major histocompatibility (MH) genes in Atlantic salmon Salmo salar have shown the importance of immunogenetics in understanding the capacity of populations to fight specific diseases. However, the occurrence and virulence of pathogens may vary spatially and temporally in the wild, making it more complicated to predict the overall effect that MH genes exert on fitness of natural populations and over several life-history stages. Here we show that MH variability is a significant determinant of salmon survival in fresh water, by comparing observed and expected genotype frequencies at MH and control microsatellite loci at parr and migrant stages in the wild. We found that additive allelic effects at immunogenetic loci were more likely to determine survival than dominance deviation, and that selection on certain MH alleles varied with life stage, possibly owing to varying pathogen prevalence and/or virulence over time. Our results highlight the importance of preserving genetic diversity (particularly at MH loci) in wild populations, so that they have the best chance of adapting to new and increased disease challenges as a result of projected climate warming and increasing aquaculture.
Complex pattern of genetic structuring in the Atlantic salmon (Salmo salar L.) of the River Foyle system in northwest Ireland: disentangling the evolutionary signal from population stochasticity
(Blackwell Publishing Ltd., 2011-11) Ensing, Dennis; Prodöhl, Paulo A.; McGinnity, Philip; Boylan, Patrick; O'Maoiléidigh, Niall; Crozier, Walter W.; Marine Institute; Loughs Agency, Northern Ireland
Little is known about the microevolutionary processes shaping within river population genetic structure of aquatic organisms characterized by high levels of homing and spawning site fidelity. Using a microsatellite panel, we observed complex and highly significant levels of intrariver population genetic substructure and Isolation-by-Distance, in the Atlantic salmon stock of a large river system. Two evolutionary models have been considered explaining mechanisms promoting genetic substructuring in Atlantic salmon, the member-vagrant and metapopulation models. We show that both models can be simultaneously used to explain patterns and levels of population structuring within the Foyle system. We show that anthropogenic factors have had a large influence on contemporary population structure observed. In an analytical development, we found that the frequently used estimator of genetic differentiation, F-ST, routinely underestimated genetic differentiation by a factor three to four compared to the equivalent statistic Jost's D-est (Jost 2008). These statistics also showed a near-perfect correlation. Despite ongoing discussions regarding the usefulness of "adjusted" F-ST statistics, we argue that these could be useful to identify and quantify qualitative differences between populations, which are important from management and conservation perspectives as an indicator of existence of biologically significant variation among tributary populations or a warning of critical environmental damage.
The broad-scale distribution and abundance of Scyphomedusae in Irish waters
(University College Cork, 2011-11) Bastian, Thomas Jean Daniel; Doyle, Thomas K.; McAllen, Robert; Davenport, John; European Regional Development Fund
Scyphomedusae are receiving increasing recognition as key components of marine ecosystems. However, information on their distribution and abundance beyond coastal waters is generally lacking. Organising access to such data is critical to effectively transpose findings from laboratory, mesocosm and small scale studies to the scale of ecological processes. These data are also required to identify the risks of detrimental impacts of jellyfish blooms on human activities. In Ireland, such risks raise concerns among the public, but foremost amongst the professionals of the aquaculture and fishing sectors. The present work looked at the opportunity to get access to new information on the distribution of jellyfish around Ireland mostly by using existing infrastructures and programmes. The analysis of bycatch data collected during the Irish groundfish surveys provided new insights into the distribution of Pelagia noctiluca over an area >160 000 km2, a scale never reached before in a region of the Northeast Atlantic (140 sampling stations). Similarly, 4 years of data collected during the Irish Sea juvenile gadoid fish survey provided the first spatially, explicit, information on the abundance of Aurelia aurita and Cyanea spp. (Cyanea capillata and Cyanea lamarckii) throughout the Irish Sea (> 200 sampling events). In addition, the use of ships of opportunity allowed repeated samplings (N = 37) of an >100 km long transect between Dublin (Ireland) and Holyhead (Wales, UK), therefore providing two years of seasonal monitoring of the occurrence of scyphomedusae in that region. Finally, in order to inform the movements of C. capillata in an area where many negative interactions with bathers occur, the horizontal and vertical movements of 5 individual C. capillata were investigated through acoustic tracking.
Courtship behaviour of western hedgehogs (Erinaceus europaeus) in a rural landscape in Ireland and the first appearance of offspring
(Zoogdiervereniging, 2012) Haigh, Amy; Butler, Fidelma; O'Riordan, Ruth M.; Thomas Crawford Hayes Trust, National University of Ireland Galway
A study was conducted to investigate the timing of the breeding season of western hedgehogs (Erinaceus europaeus) in a rural landscape in Ireland, their courtship activity and the first appearance and possible dispersal of juveniles. Between June 2008 and June 2010, 24 hedgehogs (18 ♂ and 6 ♀) were caught and monitored by radio tracking and direct following. A preponderance of males was recorded in both adults and juveniles at the study site and the sex ratio deviated significantly from a 1:1 ratio. Courtship behaviour took place between April and July and occurred almost exclusively in a nine ha pasture. An individual female paired with up to seven males in a season. The first appearance of juveniles was recorded in September (2008) and July (2009). The majority (n=22) of juvenile sightings, both alive and as road kill, occurred in July but they continued to be recorded up until November (n=3). The presence of juveniles at the study site in October 2008 and a pregnant female being found in September 2009 indicated that late litters occur in Ireland.

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