Predictive systems ecology

Human societies, and their well-being, depend to a significant extent on the state of the ecosystems that surround them. These ecosystems are changing rapidly usually in response to anthropogenic changes in the environment. To determine the likely impact of environmental change on ecosystems and the best ways to manage them, it would be desirable to be able to predict their future states. We present a proposal to develop the paradigm of predictive systems ecology, explicitly to understand and predict the properties and behaviour of ecological systems. We discuss the necessary and desirable features of predictive systems ecology models. There are places where predictive systems ecology is already being practised and we summarize a range of terrestrial and marine examples. Significant challenges remain but we suggest that ecology would benefit both as a scientific discipline and increase its impact in society if it were to embrace the need to become more predictive.     

Engineering a therapeutic IgG molecule to address cysteinylation,aggregation and enhance thermal stability and expression

Antibodies can undergo a variety of covalent and non-covalent degradation reactions that have adverse effects on efficacy, safety, manufacture and storage. We had identified an antibody to Angiopoietin 2 (Ang2 mAb) that neutralizes Ang2 binding to its receptor in vitro and inhibits tumor growth in vivo. Despite favorable pharmacological activity, the Ang2 mAb preparations were heterogeneous, aggregated rapidly and were poorly expressed. Here, we report the engineering of the antibody variable and constant domains to generate an antibody with reduced propensity to aggregate, enhanced homogeneity, 11°C elevated T_m, 26-fold improved level of expression and retained activity. The engineered molecule, MEDI-3617, is now compatible with the large scale material supply required for clinical trials and is currently being evaluated in Phase 1 in cancer patients. This is the first report to describe the stability engineering of a therapeutic antibody addressing non canonical cysteine residues and the design strategy reported here is generally applicable to other therapeutic antibodies and proteins.     

Functional mimetic of the G-protein coupled receptor CXCR4 on a soluble antibody scaffold

G-protein coupled receptors (GPCRs) constitute major drug targets due to their involvement in critical biological functions and pathophysiological disorders. The leading challenge in their structural and functional characterization has been the need for a lipid environment to accommodate their hydrophobic cores. Here, we report an antibody scaffold mimetic (ASM) platform where we have recapitulated the extracellular functional domains of the GPCR, C-X-C chemokine receptor 4 (CXCR4) on a soluble antibody framework. The engineered ASM molecule can accommodate the N-terminal loop and all three extracellular loops of CXCR4. These extracellular features are important players in ligand recruitment and interaction for allostery and signal transduction. Our study shows that ASM^CXCR4 can be recognized by the anti-CXCR4 antibodies, MEDI3185, 2B11, and 12G5, and that ASM^CXCR4 can bind the HIV-1 glycoprotein ligand gp120, and the natural chemokine ligand SDF-1α. Further, we show that ASM^CXCR4 can competitively inhibit the SDF-1α signaling pathway, and be used as an immunogen to generate CXCR4-specific antibodies. This platform will be useful in the study of GPCR biology in a soluble receptor context for evaluating its extracellular ligand interactions.     

Changes in apparent water permeability during the moulting cycle in the western rock lobster

The kinetics of water exchange, as measured by ³H₂O fluxes, were examined in the western rock lobster, Panulirus longipes (Milne Edwards) during stages C₄, D₃, D₄, D₄-E and B₁ of the moulting cycle. A series of samples of blood and external water was taken during each experiment and the inward and outward rate constants found using the SAAM 25 computer program, assuming a simple 2-compartment model with reversible exchange. Both inward and outward turnover rates remained constant up to the swelling prior to ecdysis when there was an increase of 203% inwards compared with 133% outwards. The latter increased in stage B₁, so that both rates were comparably high, probably due to the increased permeability of the soft integument.Further analysis showed that the rock lobster does not behave as a single compartment with respect to tritiated water. Two compartments were resolved by graphical analysis, one with fast and the other with slow exchange. It is suggested that blood and tissue ‘free’ water comprise one compartment and chemically ‘bound’ water the other, with fast exchange between the free and bound water and relatively slow exchange between free body water and the external medium.     

Water uptake at ecdysis in the western rock lobster

Water ingestion at ecdysis by the western rock lobster. Panulirus longipes (Milne Edwards) was investigated using the reference markers ⁵¹Cr-EDTA and ⁵⁸Co-EDTA. Two possible mechanisms controlling water absorption were examined: first, changes in osmolarity of blood and muscle and secondly, the effects of extracts of central nervous system.Water ingestion was 16.071 ± 2.365 mlkg^?1h^?1 during swelling just before ecdysis (stage D₄(S)) and 23.099 ± 1.238 mlkg^?1h^?1 during stage A. There was no significant absorption in the foregut or hindgut and the digestive gland appeared to be the site of major absorption. Total water ingested during stages D₄(S) and A was 13.7% of the proecdysis weight. Calculating total water uptake by wet weight differences plus wet weight of exuviae gave a value that was too high and instead weight increases were calculated from a carapace length-weight formula. Allowing for postecdysis increase in weight the net increase at ecdysis was 18.4–21.4% which was 4.7–7.7% more than the water ingested. It was concluded from this that water enters the body at ecdysis both by ingestion and by absorption through the external surface. It is suggested that water ingestion provides the main source of swelling of the cephalothorax in stage D₄(S) and after ecdysis both ingested water and external absorption enables the flaccid abdomen and appendages to swell rapidly.Statistically significant differences were found in the concentrations of total cations and chloride in leg muscle during the transition from stage C₄ to late D₄ but the trends were not consistent and probably have no functional significance. There were no changes in the concentration of osmotically active organic constituents. The freezing-point depression of the blood in stage D₄ was significantly higher than that in stage C₄(P < 0.02) but the mean difference was only 1.8%. It was concluded that osmoticchanges were unlikely to be an important mechanism of water uptake.Water-soluble extract (WSE) and acetone-soluble extract (ASE) of brains and first ventral ganglia were without significant effect when compared together with controls. There was a barely significant decrease, however, in water in the proventriculus of WSE-treated animals compared with that of controls (P < 0.05). and further investigation on the effects of such extracts on water uptake at ecdysis is warranted.     

Pig transgenesis by Sleeping Beauty DNA transposition

Modelling of human disease in genetically engineered pigs provides unique possibilities in biomedical research and in studies of disease intervention. Establishment of methodologies that allow efficient gene insertion by non-viral gene carriers is an important step towards development of new disease models. In this report, we present transgenic pigs created by Sleeping Beauty DNA transposition in primary porcine fibroblasts in combination with somatic cell nuclear transfer by handmade cloning. Göttingen minipigs expressing green fluorescent protein are produced by transgenesis with DNA transposon vectors carrying the transgene driven by the human ubiquitin C promoter. These animals carry multiple copies (from 8 to 13) of the transgene and show systemic transgene expression. Transgene-expressing pigs carry both transposase-catalyzed insertions and at least one copy of randomly inserted plasmid DNA. Our findings illustrate critical issues related to DNA transposon-directed transgenesis, including coincidental plasmid insertion and relatively low Sleeping Beauty transposition activity in porcine fibroblasts, but also provide a platform for future development of porcine disease models using the Sleeping Beauty gene insertion technology.     

The porcine <Emphasis Type="Italic">TBC1D1</Emphasis> gene: mapping,SNP identification,and association study with meat,carcass and production traits in Italian heavy pigs

TBC1D1 [TBC1 (tre-2/USP6, BUB2, cdc16) domain family, member 1] is a Rab-GTPase-activating related protein implicated in regulating the trafficking of glucose transporter 4 (GLUT4 or SLC2A4) storage vesicles to the cell surface in response to insulin and AMPK-activating stimuli in skeletal muscle. Mutations in the human and mouse TBC1D1 genes confer risk of obesity or leanness. We identified five single nucleotide polymorphisms (SNPs) in the porcine TBC1D1 gene. One of them (FN677935:g.219G>A) was genotyped either by high resolution melting and PCR-RFLP analyses to study allele frequencies in a few pig breeds and evaluate association with meat production and carcass traits in five groups of sib-tested pigs of Italian Large White and Italian Duroc breeds. The g.219G>A SNP was associated (P < 0.05) with ham weight, back fat thickness and lean cuts content in Italian Large White and with visible intermuscular fat in Italian Duroc pigs.     

The behavioural ecology of personality: consistent individual differences from an adaptive perspective

Individual humans, and members of diverse other species, show consistent differences in aggressiveness, shyness, sociability and activity. Such intraspecific differences in behaviour have been widely assumed to be non‐adaptive variation surrounding (possibly) adaptive population‐average behaviour. Nevertheless, in keeping with recent calls to apply Darwinian reasoning to ever‐finer scales of biological variation, we sketch the fundamentals of an adaptive theory of consistent individual differences in behaviour. Our thesis is based on the notion that such ‘personality differences’ can be selected for if fitness payoffs are dependent on both the frequencies with which competing strategies are played and an individual's behavioural history. To this end, we review existing models that illustrate this and propose a game theoretic approach to analyzing personality differences that is both dynamic and state‐dependent. Our motivation is to provide insights into the evolution and maintenance of an apparently common animal trait: personality, which has far reaching ecological and evolutionary implications.