Genome-wide prediction of C. elegans genetic interactions

To obtain a global view of functional interactions among genes in a metazoan genome, we computationally integrated interactome data, gene expression data, phenotype data, and functional annotation data from three model organisms-Saccharomyces cerevisiae, Caenorhabditis elegans, and Drosophila melanogaster-and predicted genome-wide genetic interactions in C. elegans. The resulting genetic interaction network (consisting of 18,183 interactions) provides a framework for system-level understanding of gene functions. We experimentally tested the predicted interactions for two human disease-related genes and identified 14 new modifiers.     

Liver lobe torsion in dogs: 13 cases (1995-2004)

OBJECTIVE: To determine history, results of diagnostic testing, surgical findings, complications, and outcome for dogs with liver lobe torsion (LLT). DESIGN: Retrospective case series. ANIMALS: 12 dogs (1 with 2 episodes). PROCEDURE: Signalment, clinical signs, clinicopathologic findings, radiographic and ultrasonographic findings, surgical and histologic findings, complications, and hospitalization time were evaluated. RESULTS: The most common clinical signs were nonspecific abnormalities (eg, vomiting, lethargy, and anorexia) of acute or chronic duration. All dogs were large-breed dogs (median body weight, 37.2 kg [82 lb]). Biochemical abnormalities included high alanine amino-transferase (n = 12) and aspartate aminotransferase (11) activities. Results of abdominal ultrasonography were supportive of the diagnosis in 5 of 8 cases. Affected lobes included the left medial lobe (n = 4), left lateral lobe (3), papillary process of the caudate lobe (2), caudate lobe (1), and right lateral lobe (1). Exploratory celiotomy and liver lobectomy were performed in 12 of 13 cases, and in 11 of those 12 cases, the dog survived. CONCLUSIONS AND CLINICAL RELEVANCE: Results suggest that development of nonspecific clinical signs of vomiting, lethargy, and anorexia in conjunction with high serum hepatic enzyme activities and mature neutrophilia in a medium-sized or large-breed dog should increase the index of suspicion for LLT. Abdominal ultrasonography with Doppler assessment may be useful in establishing the diagnosis. The long-term outcome for dogs that survive the hospitalization period is excellent.     

Monoclonal antibodies to equine CD23 identify the low-affinity receptor for IgE on subpopulations of IgM+ and IgG1+ B-cells in horses

CD23, also called FcεRII, is the low-affinity receptor for IgE and has first been described as a major receptor regulating IgE responses. In addition, CD23 also binds to CD21, integrins and MHC class II molecules and thus has a much wider functional role in immune regulation ranging from involvement in antigen-presentation to multiple cytokine-like functions of soluble CD23. The role of CD23 during immune responses of the horse is less well understood. Here, we expressed equine CD23 in mammalian cells using a novel IL-4 expression system. Expression resulted in high yield of recombinant IL-4/CD23 fusion protein which was purified and used for the generation of monoclonal antibodies (mAbs) to equine CD23. Seven anti-CD23 mAbs were further characterized. The expression of the low-affinity IgE receptor on equine peripheral blood mononuclear cells was analyzed by flow cytometric analysis. Cell surface staining showed that CD23 is mainly expressed by a subpopulation of equine B-cells. Only a very few equine T-cells or monocytes expressed CD23. CD23(+) B-cells were either IgM(+) or IgG1(+) cells. All CD23(+) cells were also positive for cell surface IgE staining suggesting in vivo IgE binding by the receptor. Two of the CD23 mAbs detected either the complete extracellular region of CD23 or a 22kDa cleavage product of CD23 by Western blotting. The new anti-CD23 mAbs provide valuable reagents to further analyze the roles of CD23 during immune responses of the horse in health and disease.     

Spatial distribution of saplings in heavily worn urban forests: Implications for regeneration and management

We studied the spatial distribution of saplings in the vicinity of other saplings and mature trees in heavily worn urban forests. Our aim was to identify favorable microsites for saplings to regenerate under different levels of wear. We hypothesized that these safe microsites were situated close to tree trunks that might offer shelter from trampling caused by humans and their pet dogs. The distribution of saplings was explored at 0.1–0.6 m to the nearest sapling and 0.1–2 m to the nearest mature tree. Sorbus aucuparia was the most abundant sapling species, followed by Populus tremula, Betula pubescens and Picea abies. These species all tended to cluster with their conspecific saplings and were generally randomly distributed with respect to mature trees. Saplings of S. aucuparia and P. tremula favored growing close to mature P. abies (already at 0.4–0.8 up to 2 m from the trunk base, respectively) and S. aucuparia trees (at 0.2–0.4 m up to 2 m). Betula sp. and Acer platanoides grew close to Pinus sylvestris trees. Furthermore, with increased levels of wear, saplings clustered more likely together and close to tree trunks. The results are contrary to the gap regeneration hypothesis known from rural unworn forests where saplings often grow in canopy gaps. We suggest the idea of a ‘sheltering group’, i.e. tree groups and thickets of densely growing conspecific saplings, for the maintenance of regeneration of saplings and other vegetation in heavily worn recreational forests. Since urban forestry may strongly affect the existence and spatial location of a high variety of microhabitats, small-scale spatial exploration is needed to identify microsites that offer opportunities for natural regeneration under heavy recreational use. To maintain natural regeneration and the survival of saplings in worn urban forests, we recommend microhabitat-level species-specific forest management.     

Diversity and Biosynthetic Potential of Culturable Microbes Associated with Toxic Marine Animals

Tetrodotoxin (TTX) is a neurotoxin that has been reported from taxonomically diverse organisms across 14 different phyla. The biogenic origin of tetrodotoxin is still disputed, however, TTX biosynthesis by host-associated bacteria has been reported. An investigation into the culturable microbial populations from the TTX-associated blue-ringed octopus Hapalochlaena sp. and sea slug Pleurobranchaea maculata revealed a surprisingly high microbial diversity. Although TTX was not detected among the cultured isolates, PCR screening identifiedsome natural product biosynthesis genes putatively involved in its assembly. This study is the first to report on the microbial diversity of culturable communities from H. maculosa and P. maculata and common natural product biosynthesis genes from their microbiota. We also reassess the production of TTX reported from three bacterial strains isolated from the TTX-containing gastropod Nassarius semiplicatus.     

Effects of a hook ring on catch and bycatch in a Mediterranean swordfish longline fishery: small addition with potentially large consequences

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Pomological and Nutraceutical Properties in Apricot Fruit: Cultivation Systems and Cold Storage Fruit Management

We have investigated the effect of cultivation systems and fruit post-harvest management on the antioxidant properties of apricot fruits. Trees of five cultivars ‘Tyrinthos’, ‘Cafona’, ‘Bella d’Italia’, ‘Vitillo’ and ‘Pellecchiella’ were cultivated under integrated and organic systems. Fruits were collected at full maturity stage and analyzed either immediately or after storage at 4±0.5 °C and 85% of relative humidity for seven and 14 days. The main pomological traits (weight, colour, flesh firmness, total soluble sugars, titratable acidity) and antioxidant properties were analyzed. The total antioxidant capacity (TAC by TEAC method), total phenols content (TP by Folin-Ciocalteu method) and carotenoid content by HPLC-DAD were monitored. Cultivar characterization by principal component analysis (PCA) indicated a large variability on pomological and antioxidant properties of apricot fruits. ‘Bella d’Italia’ showed better TAC and TP values compared to the other cultivars. ANOVA interactions between cultivar and cultivation system (organic/integrated) were found for the antioxidant properties. These interactions may help to select a set of genotypes with better performances under organic system, which in our study might be indicated in ‘Cafona’ and ‘Bella d’Italia’.     

Spring wheat response to timing of water deficit through sink and grain filling capacity

Water and nitrogen (N) availability are the main factors influencing crop growth globally. Poorly distributed or insufficient water for crop growth requirements decreases yields in drought-prone areas such as those with a Mediterranean type environment. Cereal grain yield is a complex trait of interrelated components: plants per unit land area, spikes per plant, spikelets per spike, grains per spikelet, and single grain weight (SGW). The effect of water limitation and timing on development of yield components was studied in detail at the spike level in spring wheat (Triticum aestivum L.) cultivar Amaretto. An experiment with three watering treatments (control watering, CONT; drought prior to pollination, DR1 and terminal drought, DR2) was arranged in a large greenhouse (20 m × 30 m), with the use of standard field-trial machinery. Automated blackout curtains were used to control day length, which was set to correspond to that at 40°N. With watering treatments, two N application rates (60 and 120 kg N ha⁻¹) were used to investigate the N effect and potential watering × N interaction on yield formation and realisation. The water deficit effect exceeded the effect of N on fertile floret and grain number and SGW. DR1 strongly reduced the number of fertile florets and grains, whereas terminal drought reduced the number of grains per spike. Resuming the watering at pollination markedly enhanced photosynthesis, and hence grain filling capacity, resulting in the highest SGW in DR1. Enhancement in availability of key resources was associated with reduced rate of fertile floret and grain abortion, which resulted in higher grain to fertile floret ratio in DR1. Spikelets in the mid-section of the spike dominated yield formation in all treatments. In DR1 this was especially emphasised as 53% of the grain yield was produced in spikelets 4–6, whereas in DR2 and CONT this was 45 and 41%, respectively. Grains in proximal position in the spikelets produced about 80% of the spike grain yield, the proportion being slightly higher in stressed plants and plants receiving 60 kg N. No marked N × water deficit treatment interaction occurred for any of the measured parameters.