The role of oxygen in the vertical distribution of nematodes: an experimental approach

The role of oxygen in the vertical distribution of nematodes was investigated by means of an experiment in which different oxygen conditions were imposed on sediment from an intertidal area of the Oosterschelde (The Netherlands). To test our hypothesis that the vertical distribution of the nematode assemblages was not influenced by changing oxygen conditions (e.g. nematodes do not migrate to favourable oxygen conditions), 5 cm sediment was inversed and incubated for 5 days at the lab. In a first treatment, food (diatoms) was added to the bottom; in a second treatment oxygen and food were added to the bottom. For each case and a control treatment, fresh, well-aerated Oosterschelde water was added on top of the sediment. The analysis of the field situation showed that nematodes were the most abundant taxon. Highest densities were observed in the subsurface sediment layer (1-2 cm). The lower abundance in the oxygen and algae-rich superficial layer (0-0.5 cm) could be due to the time of sampling relative to the tides or to biotic factors (e.g. macrofaunal activity). The vertical distribution of the nematode assemblages in the experimental and control treatments proved to be significantly different. An obvious segregation existed between the nematode species assemblage from the superficial (0-0.2cm) and the deeper layers (0.2-1 cm and 4-5 cm). Characterising genera for the superficial sediment layers were Daptonema, Ptycholaimellus, Prochromadorella and Microlaimus; for the deeper layers Terschellingia and Microlaimus. The occurrence of the first species assemblage is determined by the presence of free oxygen. The second species assemblage is adapted to the reduced sediment; nevertheless, artificial addition of limited amounts of oxygen to the deeper sediment layers favoured the assemblage as higher abundances were recorded. In general, oxygen seems to be important in determining the vertical distribution of nematodes in this experiment

Nematoda - free living

The list was compiled by Guy De Smet, a non-specialist, who was assisted by nematologists Magda Vincx, Ann Vanreusel, Sandra Vanhove, Jan Vanaverbeke and Maaike Steyaert. Dr. F. Riemann gave useful advice for the genus Daptonema. The classification in the list is based upon Lorenzen (1979, 1994). Information on the geographic distribution in the list is based upon Gerlach and Riemann (1973, 1974), Platt and Warwick (1983, 1988) and Warwick et al. (1998).ReferencesLorenzen, S. Entwürf eines Phylogenetischen Systems der Freilebenden Nematoden, Kiel, 1979.Lorenzen, S. The Phylogenetic Systematics of Freeliving Nematodes, The Ray Society, 1994.Gerlach, S. A. and Riemann, F. The Bremerhaven Checklist of Aquatic Nematodes. Veröffentlichungen des Instituts für Meeresforschung in Bremerhaven, Supplement 4, (Heft 1 1973, Heft 2 1974).Platt, H. M. and Warwick, R. M. Free-living Marine Nematodes (Part I British Enoplids) Synopses of the British Fauna (New series) No. 28, 1983.Platt, H. M. and Warwick, R. M. Free-living Marine Nematodes (Part II British Chromadorids) Synopses of the British Fauna (New series) No. 38, 1988.Warwick, R. M., Platt, H. M. and Somerfield, P. J. Free-living Marine Nematodes (Part III Monhysterids) Synopses of the British Fauna (New series) No. 53, 1998.</ul

Belgian shipwrecks: hotspots for marine biodiversity

Hard bottom substrates at sea allow the development of communities that are often rich in terms of species diversity. Non-biogenic structures such as shipwrecks are an integral part of these substrates, even if they have an anthropogenic origin and the species assemblages they harbor could be for that reason qualified as 'exotic'. There are 200 recent shipwrecks on the Belgian Continental Shelf (BCS), which represent a large fraction of the hard substrate available locally; their presence has an additional interest if we know that the major part of the English Channel and Southern Bight of the North Sea consists almost exclusively of soft sediments. Five shipwrecks on the BCS will be studied in order to assess the meio- and macrofaunal diversity using direct observations and scuba sampling techniques. The soft sediments close to shipwrecks will also be studied to serve as model for areas relatively undisturbed by fisheries (untrawled). Added to this, the influence of shipwrecks on local hydrodynamics and sediment transport will favor the colonization by fragile epibenthic species and as a consequence increase habitat complexity. For each site, standard abiotic parameters and current vectors will be measured and modeled. The information will be centralized in a database and disseminated through a web site devoted to the biodiversity of the BCS. The results will be relevant to the management of the BCS; the anthropogenic hard substrates of shipwrecks can serve as a model for what will happen with the installation of offshore windmills. A brochure will increase public awareness of the importance of marine diversity, and increase public support for marine protected areas

Belgian shipwreck: hotspots for marine biodiversity BEWREMABI: final report

The main aim of the project is to document the fauna found on five shipwrecks in the Belgian part of the North Sea (map). While we have a fairly good understanding of the fauna of soft bottoms of our part of the North Sea, the fauna of these artificial hard substrates is largely unknown. Study of these habitats will allow us to understand species distribution patterns, and allow us to predict which species to expect on other artificial hard substrates, such as sokkels of wind mills. It is a two year research project carried out in the framework of the SPSD-II research action of the Belgian Federal Science Policy Office

Structural and functional basis for RNA cleavage by Ire1

BACKGROUND: The unfolded protein response (UPR) controls the protein folding capacity of the endoplasmic reticulum (ER). Central to this signaling pathway is the ER-resident bifunctional transmembrane kinase/endoribonuclease Ire1. The endoribonuclease (RNase) domain of Ire1 initiates a non-conventional mRNA splicing reaction, leading to the production of a transcription factor that controls UPR target genes. The mRNA splicing reaction is an obligatory step of Ire1 signaling, yet its mechanism has remained poorly understood due to the absence of substrate-bound crystal structures of Ire1, the lack of structural similarity between Ire1 and other RNases, and a scarcity of quantitative enzymological data. Here, we experimentally define the active site of Ire1 RNase and quantitatively evaluate the contribution of the key active site residues to catalysis. RESULTS: This analysis and two new crystal structures suggest that Ire1 RNase uses histidine H1061 and tyrosine Y1043 as the general acid-general base pair contributing \u3e/=7.6 kcal/mol and 1.4 kcal/mol to transition state stabilization, respectively, and asparagine N1057 and arginine R1056 for coordination of the scissile phosphate. Investigation of the stem-loop recognition revealed that additionally to the stem-loops derived from the classic Ire1 substrates HAC1 and Xbp1 mRNA, Ire1 can site-specifically and rapidly cleave anticodon stem-loop (ASL) of unmodified tRNAPhe, extending known substrate specificity of Ire1 RNase. CONCLUSIONS: Our data define the catalytic center of Ire1 RNase and suggest a mechanism of RNA cleavage: each RNase monomer apparently contains a separate catalytic apparatus for RNA cleavage, whereas two RNase subunits contribute to RNA stem-loop docking. Conservation of the key residues among Ire1 homologues suggests that the mechanism elucidated here for yeast Ire1 applies to Ire1 in metazoan cells, and to the only known Ire1 homologue RNase L

The Delphi technique in ecology and biological conservation: Applications and guidelines

1. Many areas of science, including conservation and environmental management, regularly require engaging stakeholders or experts to produce consensus or technical inputs. The Delphi technique is an iterative and anonymous participatory method used for gathering and evaluating such expert-based knowledge. 2. We outline the methodology of the Delphi technique and provide a taxonomy of its main variants. In addition, we refine the technique by providing suggestions to address common limitations (e.g. time consumption, attrition rate) in order tomake the method more suitable for application in ecology and conservation. 3. A comprehensive search for studies that have applied the Delphi technique in conservation and environmental management resulted in 36 papers. The Delphi technique has been applied to a range of issues, including developing decision support systems and predicting ecological impacts of climate change. 4. The papers reviewed suggest that the Delphi technique is an efficient, inclusive, systematic and structured approach that can be used to address complex issues. A major strength compared to other group-based techniques is the reduced influence of social pressures among respondents. 5. The Delphi technique is relatively little used and seems undervalued. Given its wide range of possible applications, it could be applied more widely in evaluating evidence and providing expert judgments.The authors would like to thank Pinaki Bhattacharya, Maria Voigt, Francisco Benitez-Capistros and the three anonymous reviewers for their significant contributions in improving the earlier manuscript. WJS is funded by Arcadia. NM and JH were funded by the Belgian National Science Foundation (FNRS), MIS ID 1765914 project. NM was also funded by the Fondation Weiner Anspach (FWA) postdoctoral fellowship.This is the author accepted manuscript. The final version is available from Wiley at http://dx.doi.org/10.1111/2041-210X.1238

Creating actionable knowledge for sustainability: a case of 'standards in the making'

Social and environmental standards-development organizations (SDOs) have been collaborating together to construct “meta-standards.” These exercises in standards-setting are part of a longer term process of transitioning innovative approaches to sustainable agriculture from diverse niches such as organic, fair trade, and environmental conservation into a regime of certified sustainability. Using participant observation during the development of an Assurance Code, we examine how actors construct the tools that enable them to influence the broader transition to sustainability. We do this by focusing on intermediation activities by “experts” during the development of a “meta-standard” for assurance. The purpose of this chapter is twofold. First, we propose that in order to understand transitions in progress, we should be attentive to how these processes are accompanied by intermediation activities. Second, we argue that intermediate objects (or boundary objects) are important in these processes as they help actors to create actionable knowledge. These intermediation activities and the production of actionable knowledge contribute to the ability of actors to govern markets in the transition toward sustainable agriculture

Human shields mediate sexual conflict in a top predator

Selecting the right habitat in a risky landscape is crucial for an individual's survival and reproduction. In predator–prey systems, prey often can anticipate the habitat use of their main predator and may use protective associates (i.e. typically an apex predator) as shields against predation. Although never tested, such mechanisms should also evolve in systems in which sexual conflict affects offspring survival. Here, we assessed the relationship between offspring survival and habitat selection, as well as the use of protective associates, in a system in which sexually selected infanticide (SSI), rather than interspecific predation, affects offspring survival. We used the Scandinavian brown bear ( Ursus arctos ) population with SSI in a human-dominated landscape as our model system. Bears, especially adult males, generally avoid humans in our study system. We used resource selection functions to contrast habitat selection of GPS-collared mothers that were successful (i.e. surviving litters, n = 19) and unsuccessful (i.e. complete litter loss, n = 11) in keeping their young during the mating season (2005–2012). Habitat selection was indeed a predictor of litter survival. Successful mothers were more likely to use humans as protective associates, whereas unsuccessful mothers avoided humans. Our results suggest that principles of predator–prey and fear ecology theory (e.g. non-consumptive and cascading effects) can also be applied to the context of sexual conflict

Entrepreneurship, incongruence and affect: drawing insights from a Swedish anti-racist organisation

In recent years, entrepreneurship has been reconceptualised as social change. Understood as such, entrepreneurship can be viewed to disrupt and disturb the social order. We argue in this paper that Foucault’s notion of heterotopia and Lacan’s concepts of the real and anxiety help us to conceptualize the disturbing aspect of entrepreneurship as social change, and understand why the latter may encounter social resistance. Our contribution to critical entrepreneurship literature is to first emphasise that entrepreneurship instigates social change by introducing incongruence, and second, to highlight that this process can be affective: it can create anxiety. The paper uses an illustrative historical case-example of a Swedish anti-racist commercial magazine (Gringo) to elucidate these points. We conclude by pointing out that anxiety may be necessary for the provocation of social transformation

A specific nanobody prevents amyloidogenesis of D76N β2-microglobulin in vitro and modifies its tissue distribution in vivo

Systemic amyloidosis is caused by misfolding and aggregation of globular proteins in vivo for which effective treatments are urgently needed. Inhibition of protein self-aggregation represents an attractive therapeutic strategy. Studies on the amyloidogenic variant of β2-microglobulin, D76N, causing hereditary systemic amyloidosis, have become particularly relevant since fibrils are formed in vitro in physiologically relevant conditions. Here we compare the potency of two previously described inhibitors of wild type β2-microglobulin fibrillogenesis, doxycycline and single domain antibodies (nanobodies). The β2-microglobulin -binding nanobody, Nb24, more potently inhibits D76N β2-microglobulin fibrillogenesis than doxycycline with complete abrogation of fibril formation. In β2-microglobulin knock out mice, the D76N β2-microglobulin/ Nb24 pre-formed complex, is cleared from the circulation at the same rate as the uncomplexed protein; however, the analysis of tissue distribution reveals that the interaction with the antibody reduces the concentration of the variant protein in the heart but does not modify the tissue distribution of wild type β2-microglobulin. These findings strongly support the potential therapeutic use of this antibody in the treatment of systemic amyloidosis