An integrated approach to identify spatiotemporal and individual-level determinants of animal home range size

Animal home range use is a central focus of ecological research. However, how and why home range size varies between individuals is not well studied or understood for most species. We develop a hierarchical analytical approach--using generalized linear mixed-effects modeling of time series of home range sizes--that allows variance in home range size to be decomposed into components due to variation in temporal, spatial, and individual-level processes, also facilitating intra- and interspecific comparative analyses. We applied the approach to data from a roe deer population radiotracked in central Italy. Over multiple timescales, temporal variation is explained by photoperiod and climate and spatial variation by the distribution of habitat types and spatial variance in radiotracking error. Differences between individuals explained a substantial amount of variance in home range size, but only a relatively minor part was explained by the individual attributes of sex and age. We conclude that the choice of temporal scale at which data are collected and the definition of home range can significantly influence biological inference. We suggest that the appropriate choice of scale and definition requires a good understanding of the ecology and life history of the study species. Our findings contrast with several common assumptions about roe deer behavior.     

Molecular Characterization of the Multiple Interactions of SpsD,a Surface Protein from Staphylococcus pseudintermedius,with Host Extracellular Matrix Proteins

Staphylococcus pseudintermedius, a commensal and pathogen of dogs and occasionally of humans, expresses surface proteins potentially involved in host colonization and pathogenesis. Here, we describe the cloning and characterization of SpsD, a surface protein of S. pseudintermedius reported as interacting with extracellular matrix proteins and corneocytes. A ligand screen and Western immunoblotting revealed that the N-terminal A domain of SpsD bound fibrinogen, fibronectin, elastin and cytokeratin 10. SpsD also interfered with thrombin-induced fibrinogen coagulation and blocked ADP-induced platelet aggregation. The binding site for SpsD was mapped to residues 395–411 in the fibrinogen γ-chain, while binding sites in fibronectin were localized to the N- and C-terminal regions. SpsD also bound to glycine- and serine-rich omega loops within the C-terminal tail region of cytokeratin 10. Ligand binding studies using SpsD variants lacking the C-terminal segment or containing an amino-acid substitution in the putative ligand binding site provided insights into interaction mechanism of SpsD with the different ligands. Together these data demonstrate the multi-ligand binding properties of SpsD and illustrate some interesting differences in the variety of ligands bound by SpsD and related proteins from S. aureus.     

Correlation Spectroscopy and Molecular Dynamics Simulations to Study the Structural Features of Proteins

In this work, we used a combination of fluorescence correlation spectroscopy (FCS) and molecular dynamics (MD) simulation methodologies to acquire structural information on pH-induced unfolding of the maltotriose-binding protein from Thermus thermophilus (MalE2). FCS has emerged as a powerful technique for characterizing the dynamics of molecules and it is, in fact, used to study molecular diffusion on timescale of microsecond and longer. Our results showed that keeping temperature constant, the protein diffusion coefficient decreased from 84±4 µm²/s to 44±3 µm²/s when pH was changed from 7.0 to 4.0. An even more marked decrease of the MalE2 diffusion coefficient (31±3 µm²/s) was registered when pH was raised from 7.0 to 10.0. According to the size of MalE2 (a monomeric protein with a molecular weight of 43 kDa) as well as of its globular native shape, the values of 44 µm²/s and 31 µm²/s could be ascribed to deformations of the protein structure, which enhances its propensity to form aggregates at extreme pH values. The obtained fluorescence correlation data, corroborated by circular dichroism, fluorescence emission and light-scattering experiments, are discussed together with the MD simulations results.     

Distribution of Transglutaminase in Pear Pollen Tubes in Relation to Cytoskeleton and Membrane Dynamics

Transglutaminases (TGases) are ubiquitous enzymes that take part in a variety of cellular functions. In the pollen tube, cytoplasmic TGases are likely to be involved in the incorporation of primary amines at selected peptide-bound glutamine residues of cytosolic proteins (including actin and tubulin), while cell wall-associated TGases are believed to regulate pollen tube growth. Using immunological probes, we identified TGases associated with different subcellular compartments (cytosol, membranes, and cell walls). Binding of cytosolic TGase to actin filaments was shown to be Ca²⁺ dependent. The membrane TGase is likely associated with both Golgi-derived structures and the plasma membrane, suggesting a Golgi-based exocytotic delivery of TGase. Association of TGase with the plasma membrane was also confirmed by immunogold transmission electron microscopy. Immunolocalization of TGase indicated that the enzyme was present in the growing region of pollen tubes and that the enzyme colocalizes with cell wall markers. Bidimensional electrophoresis indicated that different TGase isoforms were present in distinct subcellular compartments, suggesting either different roles or different regulatory mechanisms of enzyme activity. The application of specific inhibitors showed that the distribution of TGase in different subcellular compartments was regulated by both membrane dynamics and cytoskeleton integrity, suggesting that delivery of TGase to the cell wall requires the transport of membranes along cytoskeleton filaments. Taken together, these data indicate that a cytoplasmic TGase interacts with the cytoskeleton, while a different TGase isoform, probably delivered via a membrane/cytoskeleton-based transport system, is secreted in the cell wall of pear (Pyrus communis) pollen tubes, where it might play a role in the regulation of apical growth.Transglutaminases (TGases [EC 2.3.2.13]; protein-Gln γ-glutamyltransferase) are a family of ubiquitous Ca²⁺-activated enzymes that are involved in animal cell morphogenesis and differentiation, apoptosis, cell death, inflammation, cell migration, and wound healing (Griffin et al., 2002; Mehta et al., 2006; Beninati et al., 2009). TGases are associated with different subcellular compartments, such as cytosol, plasma membrane, nucleus, mitochondria, and extracellular matrix. The specific localization of TGases is likely to determine both the biochemical activity and the type of proteins and/or substrates with which TGases react (Park et al., 2010). The distribution profile of TGase is affected by Ca²⁺, since the enzyme is preferentially associated with the lysosome compartment of liver cells in the absence of Ca²⁺ (Juprelle-Soret et al., 1984).TGase was initially detected in association with the cytosol, with the particulate (probably the microsomal) fraction (Birckbichler et al., 1976), and with the nucleus of animal cells (Remington and Russell, 1982). The association of TGase with the plasma membrane was related to its activity in promoting cell adhesion and to the interaction of cells with the extracellular matrix, while the presence of TGase in the nucleus is likely related to cell apoptosis (Griffin et al., 2002). How TGase is delivered to its final destination in animal cells remains to be clarified. Since the cytoskeleton is essential for the correct positioning of proteins in the cells, this interplay has often been studied in terms of potential substrates of TGase activity (Griffin et al., 2002). For example, the TGase-mediated incorporation of polyamines (PAs) stimulates actin polymerization (Takashi, 1988; Griffin et al., 2002). TGase was also found to associate with myosin in stress fibers of vascular smooth cells (Chowdhury et al., 1997). The association between TGase and microtubules (MTs) was initially studied in view of the importance of MTs in Alzheimer’s disease (Griffin et al., 2002), whereas the dynamics of MTs is also likely to be controlled by TGase (Al-Jallad et al., 2011). Interestingly, MTs are also a substrate of TGase activity in cells committed to apoptosis (Piredda et al., 1999). TGase was also shown to posttranslationally modify MT-associated proteins such as tau (Griffin et al., 2002).Information about the localization and function of TGases in plant cells is limited. Following the early evidence of an enzyme-based incorporation of PAs in plants (Serafini-Fracassini et al., 1988), a number of reports described the presence and role of TGase in nonphotosynthetic/photosynthetic tissues and in isolated chloroplasts (Serafini-Fracassini and Del Duca, 2008, and refs. therein). Attempts have also been made to examine the differences and similarities between plant and animal TGases. For example, a tobacco (Nicotiana tabacum) TGase was proposed to be involved in the programmed cell death (PCD) of the flower corolla (Della Mea et al., 2007); in such a case, TGase is likely to be released into the cell wall by a Golgi vesicle-based transport. Plant TGases might also be involved in protection against viruses (Del Duca et al., 2007) and in the self-incompatibility (SI) response involving pollen and stigma during sexual reproduction (Del Duca et al., 2010). Recently, different TGase isoforms were detected in meristematic apices of Jerusalem artichoke (Helianthus tuberosus) tuber sprouts (Beninati et al., 2013).The pollen tube is a widely investigated tip-growing plant cell (Lee and Yang, 2008). Studies are generally aimed at clarifying the many aspects related either to its growth or to rejection by the stigma/style. Early evidence for a role of PAs during pollen tube emergence (Bagni et al., 1981) was confirmed through the detection of PA binding via a Ca²⁺-activated TGase activity (Del Duca et al., 1997) and later by the identification of actin and tubulin as substrates of purified pollen TGase (Del Duca et al., 2009). In pollen, the enzyme affected the polymerization state and activity of actin filaments (AFs) and MTs (Del Duca et al., 2009) and existed as both soluble and cell wall associated (Di Sandro et al., 2010). Visualization of fluorescently labeled TGase products indicated that the cross-linking activity of TGase occurred at the apex of pollen tubes, in a basal region close to the pollen grain and within the pollen grain itself (Iorio et al., 2008). The enzyme was found as a soluble cytoplasmic form likely involved in the regulation of unspecified physiological processes (possibly associated with the cytoskeleton; Del Duca et al., 2009).Although the association of pollen TGases with organelles/vesicles has not been reported, an extracellular form of a Ca²⁺-dependent TGase was shown to be involved in pollen tube growth (likely as a modulator of cell wall building and strengthening). Moreover, pollen TGase was secreted in the incubation medium during germination, where it might catalyze the cross linking of PAs with secreted proteins (Di Sandro et al., 2010). This suggests that pollen TGase may be secreted through a vesicle-based mechanism. Finally, a TGase activity was also observed in planta, consistent with a possible role of TGase during tube migration through the style (Di Sandro et al., 2010) or in the SI response of pollen tubes (Del Duca et al., 2010).The pollen tube is an excellent model to study how a given plant protein is either secreted or delivered to its final destination. Although we know that actin and tubulin are substrates of TGase activity, and that the active enzyme is located in the cell wall and released outside, how TGase is distributed in the cells and how this process is dependent on cytoskeleton and membrane dynamics remain unknown. Here, we wanted to study in detail the localization and distribution of TGase in growing pollen tubes of pear (Pyrus communis) in relation to both cytoskeleton and membrane dynamics. The aim was to shed light on the mechanism by which TGase is transported and secreted, a process that is still not well understood even in animal cells. Specific antibodies that cross react with the TGase of pollen tubes were used to localize the enzyme in different membrane compartments and in the cell wall. The use of specific inhibitors indicated that the delivery of extracellular TGase is dependent on both AFs and membrane dynamics. Analysis by bidimensional electrophoresis (2-DE) showed that distinct TGase isoforms are associated with different cell compartments, suggesting that TGase might be differently regulated according to its position in the cell. Together, these data may contribute to our understanding of the mechanisms underlying pollen tube growth, an essential aspect of fertilization processes.     

Role of Arg403 for thermostability and catalytic activity of rabbit 12/15-lipoxygenase

12/15-Lipoxygenases (12/15-LOX) have been implicated in inflammatory and hyperproliferative diseases but the numerous aspects of structural biology of these enzymes are far from clear. Early mutagenesis data and structural modeling of enzyme–substrate complexes suggested that Arg403, which is localized at the entrance of the putative substrate binding pocket, might interact with the fatty acid carboxylic group. On the other hand, side-chain of Arg403 is a part of an ionic network with the residues of α2-helix, which undergoes pronounced conformation changes upon inhibitor binding. To explore the role of Arg403 for catalysis in more detail we exchanged positively charged Arg403 to neutral Leu and quantified structural and functional consequences of the alteration at the site of mutation using fluorometric techniques. We found that a loss of electrostatic interaction between Arg403 and negatively charged amino acid residues of α2-helix has only minor impact on protein folding, but partially destabilized the tertiary structure of the enzyme. We hypothesize that interaction of Arg403 with the substrate's carboxylate might be involved in a complex mechanism triggering conformational changes of the α2-helix, which are required for formation of the catalytically competent dimer r12/15-LOX complex at pre-catalytic stages.     

Acylated and unacylated ghrelin attenuate isoproterenol-induced lipolysis in isolated rat visceral adipocytes through activation of phosphoinositide 3-kinase γ and phosphodiesterase 3B

The acylated peptide ghrelin (AG) and its endogenous non-acylated isoform (UAG) protect cardiomyocytes, pancreatic β-cells, and preadipocytes from apoptosis, and induce preadipocytes differentiation into adipocytes. These events are mediated by AG and UAG binding to a still unidentified receptor, which determines the activation of phosphoinositide 3-kinase (PI3K), protein kinase B (AKT), and mitogen-activated protein kinase (MAPK) ERK1/2. AG and UAG also possess antilipolytic activity in vitro, but the underlying mechanism remains unknown. Thus, the objective of the current study was to characterize the molecular events involved in AG/UAG receptor signaling cascade. We treated rat primary visceral adipocytes with isoproterenol (ISO) and forskolin (FSK) to stimulate lipolysis, simultaneously incubating them with or without AG or UAG. Both peptides blocked ISO- and FSK-induced lipolysis. By direct measurement of cAMP intracellular content, we demonstrated that AG/UAG effect was associated to a reduction of ISO-induced cAMP accumulation. Moreover, the cAMP analog 8Br-cAMP abolished AG/UAG effect. As AG and UAG were ineffective against lipolysis induced by db-cAMP, another poorly hydrolyzable cAMP analog, phosphodiesterase (PDE) involvement was hypothesized. Indeed, cilostamide, a specific PDE3B inhibitor, blocked AG/UAG effect on ISO-induced lipolysis. Furthermore, the PI3K inhibitor wortmannin and AKT inhibitor 1,3-dihydro-1-(1-((4-(6-phenyl-1H-imidazo(4,5-g)quinoxalin-7-yl)phenyl)methyl)-4piperidinyl)-2H-benzimidazol-2-one trifluoroacetate also blocked AG/UAG action, suggesting a role in PDE3B activation. In particular, PI3K isoenzyme gamma (PI3Kγ) selective inhibition through the compound AS605240 prevented AG/UAG effect on ISO-stimulated lipolysis, hampering AKT phosphorylation on Ser(473). Taken together, these data demonstrate for the first time that AG/UAG attenuation of ISO-induced lipolysis involves PI3Kγ/AKT and PDE3B.     

Distribution of callose synthase, cellulose synthase, and sucrose synthase in tobacco pollen tube is controlled in dissimilar ways by actin filaments and microtubules

Callose and cellulose are fundamental components of the cell wall of pollen tubes and are probably synthesized by distinct enzymes, callose synthase and cellulose synthase, respectively. We examined the distribution of callose synthase and cellulose synthase in tobacco (Nicotiana tabacum) pollen tubes in relation to the dynamics of actin filaments, microtubules, and the endomembrane system using specific antibodies to highly conserved peptide sequences. The role of the cytoskeleton and membrane flow was investigated using specific inhibitors (latrunculin B, 2,3-butanedione monoxime, taxol, oryzalin, and brefeldin A). Both enzymes are associated with the plasma membrane, but cellulose synthase is present along the entire length of pollen tubes (with a higher concentration at the apex) while callose synthase is located in the apex and in distal regions. In longer pollen tubes, callose synthase accumulates consistently around callose plugs, indicating its involvement in plug synthesis. Actin filaments and endomembrane dynamics are critical for the distribution of callose synthase and cellulose synthase, showing that enzymes are transported through Golgi bodies and/or vesicles moving along actin filaments. Conversely, microtubules appear to be critical in the positioning of callose synthase in distal regions and around callose plugs. In contrast, cellulose synthases are only partially coaligned with cortical microtubules and unrelated to callose plugs. Callose synthase also comigrates with tubulin by Blue Native-polyacrylamide gel electrophoresis. Membrane sucrose synthase, which expectedly provides UDP-glucose to callose synthase and cellulose synthase, binds to actin filaments depending on sucrose concentration; its distribution is dependent on the actin cytoskeleton and the endomembrane system but not on microtubules.     

Quinoline tricyclic derivatives. Design, synthesis and evaluation of the antiviral activity of three new classes of RNA-dependent RNA polymerase inhibitors

In this study three new classes of linear N-tricyclic compounds, derived by condensation of the quinoline nucleus with 1,2,3-triazole, imidazole or pyrazine, were synthesized, obtaining triazolo[4,5-g]quinolines, imidazo[4,5-g]quinolines and pyrido[2,3-g]quinoxalines, respectively. Title compounds were tested in cell-based assays for cytotoxicity and antiviral activity against RNA viruses representative of the three genera of the Flaviviridae family, that is BVDV (Pestivirus), YFV (Flavivirus) and HCV (Hepacivirus). Quinoline derivatives were also tested against representatives of other RNA virus families containing single-stranded, either positive-sense (ssRNA(+)) or negative-sense (RNA(-)), and double-stranded genomes (dsRNA), as well as against representatives of two DNA virus families. Some quinolines showed moderate, although selective activity against CVB-5, Reo-1 and RSV. However, derivatives belonging to all classes showed activity against BVDV. Among the most potent were the bis-triazoloquinoline 1m, the imidazoquinolines 2e and 2h, and the pyridoquinoxalines 4h, 4j and 5n (EC(50) range 1-5 μM). When tested in a replicon assay, compound 2h was the sole derivative to also display anti-HCV activity (EC(50)=3.1 μM). In enzyme assays, 1m, 2h, 5m and 5n proved to be potent inhibitors of the BVDV RNA-dependent RNA polymerase (RdRp), while only 2h also inhibited the recombinant HCV enzyme.     

Characterization of a novel peripheral pro-lipolytic mechanism in mice: role of VGF-derived peptide TLQP-21

The peptides encoded by the VGF gene are gaining biomedical interest and are increasingly being scrutinized as biomarkers for human disease. An endocrine/neuromodulatory role for VGF peptides has been suggested but never demonstrated. Furthermore, no study has demonstrated so far the existence of a receptor-mediated mechanism for any VGF peptide. In the present study, we provide a comprehensive in vitro, ex vivo and in vivo identification of a novel pro-lipolytic pathway mediated by the TLQP-21 peptide. We show for the first time that VGF-immunoreactivity is present within sympathetic fibres in the WAT (white adipose tissue) but not in the adipocytes. Furthermore, we identified a saturable receptor-binding activity for the TLQP-21 peptide. The maximum binding capacity for TLQP-21 was higher in the WAT as compared with other tissues, and selectively up-regulated in the adipose tissue of obese mice. TLQP-21 increases lipolysis in murine adipocytes via a mechanism encompassing the activation of noradrenaline/β-adrenergic receptors pathways and dose-dependently decreases adipocytes diameters in two models of obesity. In conclusion, we demonstrated a novel and previously uncharacterized peripheral lipolytic pathway encompassing the VGF peptide TLQP-21. Targeting the sympathetic nerve-adipocytes interaction might prove to be a novel approach for the treatment of obesity-associated metabolic complications.