The model organism zebrafish (Danio rerio) is particularly amenable to studies deciphering regulatory genetic networks in vertebrate development, biology, and pharmacology. Unraveling the functional dynamics of such networks requires precise quantitation of protein expression during organismal growth, which is incrementally challenging with progressive complexity of the systems. In an approach toward such quantitative studies of dynamic network behavior, we applied mass spectrometric methodology and rigorous statistical analysis to create comprehensive, high quality profiles of proteins expressed at two stages of zebrafish development. Proteins of embryos 72 and 120 h postfertilization (hpf) were isolated and analyzed both by two-dimensional (2D) LC followed by ESI-MS/MS and by 2D PAGE followed by MALDI-TOF/TOF protein identification. We detected 1384 proteins from 327,906 peptide sequence identifications at 72 and 120 hpf with false identification rates of less than 1% using 2D LC-ESI-MS/MS. These included only ϳ30% of proteins that were identified by 2D PAGE-MALDI-TOF/TOF. Roughly 10% of all detected proteins were derived from hypothetical or predicted gene models or were entirely unannotated. Comparison of proteins expression by 2D DIGE revealed that proteins involved in energy production and transcription/translation were relatively more abundant at 72 hpf consistent with faster synthesis of cellular proteins during organismal growth at this time compared with 120 hpf. The data are accessible in a database that links protein identifications to existing resources including the Zebrafish Information Network database. This new resource should facilitate the selection of candidate proteins for targeted quantitation and refine systematic genetic network analysis in vertebrate development and biology. Molecular & Cellular Proteomics 7:981-994, 2008.

Little is known about prostaglandin F2␣ in cardiovascular homeostasis. Prostaglandin F2␣ dose-dependently elevates blood pressure in WT mice via activation of the F prostanoid (FP) receptor. The FP is expressed in preglomerular arterioles, renal collecting ducts, and the hypothalamus. Deletion of the FP reduces blood pressure, coincident with a reduction in plasma renin concentration, angiotensin, and aldosterone, despite a compensatory upregulation of AT1 receptors and an augmented hypertensive response to infused angiotensin II. Plasma and urinary osmolality are decreased in FP KOs that exhibit mild polyuria and polydipsia. Atherogenesis is retarded by deletion of the FP, despite the absence of detectable receptor expression in aorta or in atherosclerotic lesions in Ldlr KOs. Although vascular TNF ␣, inducible nitric oxide enzyme and TGF ␤ are reduced and lesional macrophages are depleted in the FP/Ldlr double KOs, this result reflects the reduction in lesion burden, as the FP is not expressed on macrophages and its deletion does not alter macrophage cytokine generation. Blockade of the FP offers an approach to the treatment of hypertension and its attendant systemic vascular disease.hypertension ͉ renin ͉ PGF2␣ receptor ͉ juxtaglomerular granular cell ͉ water metabolism C ontrol of hypertension has contributed to a decline of cardiovascular morbidity and mortality. Therapies have targeted neurohumoral mechanisms, such as the sympathoadrenal and renin-angiotensin-aldosterone systems (RAAS) as well as downstream effectors and volume control. Elevated blood pressure (BP) cosegregates with clinical cardiovascular events and randomized trials have revealed the efficacy of antihypertensive drugs to reduce the risk of stroke and myocardial infarction (1). Angiotensin II activates and up-regulates NADPH oxidase (2), augmenting oxidant stress and vascular dysfunction. Both pharmacological and genetic disruption of elements of the RAAS decreases BP and retards atherogenesis (3-5).Prostaglandins (PGs) also contribute to BP homeostasis. Elevation of BP complicates the use of nonsteroidal antiinflammatory drugs and relates to the degree of inhibition of cyclooxygenase (COX)-2 and the selectivity with which it is attained (6). Genetic and pharmacological manipulations suggest that products of COX-1 may elevate BP (7), although the impact of manipulating the PG cascade is conditioned by genetic background in mice (8). Prostacyclin (PGI 2 ) is a potent renin secretagogue (9), and its biosynthesis is increased markedly in pregnancy, a high-renin but hypotensive condition; its biosynthesis is depressed in pregnancy-induced hypertension (10). Deletion of its I prostanoid receptor (the IP) reduces BP in renoprival models of high-renin hypertension in rodents (11). PGI 2 is also a vasodilator and promotes sodium excretion; indeed, salt-sensitive hypertension characterizes IP-KO mice in some genetic backgrounds (12). PGF 2␣ is derived mainly from COX-1 in the female reproductive system, where it is required for normal parturition ...

An anti-inflammatory effect of PGI(2) has been suggested by increased inflammation in mice that are deficient in the PGI(2) receptor (IP) or in respiratory syncytial viral- or OVA-induced CD4 T cell-associated responses. To determine the mechanism of the anti-inflammatory effect, we hypothesized that PGI(2) analogs inhibit CD4 T cell effector cytokine production. To test this hypothesis, we activated purified CD4 T cells with anti-CD3 and anti-CD28 antibodies under Th1 and Th2 polarizing conditions for 4 days and restimulated the T cells with anti-CD3 in the presence of PGI(2) analogs for 2 days. We found that PGI(2) analogs (cicaprost and iloprost) inhibited the production of Th1 cytokines (IFN-gamma) and Th2 cytokines (IL-4, IL-10, and IL-13) in a dose-dependent pattern. The inhibitory effect was partially dependent on the IP receptor signaling and was correlated with elevated intracellular cAMP and down-regulated NF-kappaB activity. Pretreatment of the CD4 T cells with 8-bromoadenosine-3',5'-cyclic monophosphorothioate, Rp-isomer, to inhibit a key signaling molecule in the cAMP pathway, protein kinase A (PKA), attenuated the suppressive effect of PGI(2) analogs significantly, suggesting that PKA, in part, mediates the inhibition of the cytokine production. These data indicate that PGI(2) analogs have an immune-suppressive effect on previously activated and differentiated CD4 T cells in vitro and suggest that PGI(2) may have a similar function in vivo.

MS/MSProteomics methods aim to identify the proteins expressed in biological samples (1) just like transcriptomics methods detect and quantify the abundance of RNA molecules (2). Both techniques can point to particular tissue correlates, such as disease biomarkers, and find networks of co-regulated genes and proteins that reveal the mechanisms underlying biological processes (3). As thousands of simultaneous measurements are taken, however, balancing sensitivity of detection against rates of false positive error is a major challenge. With rapid advances in large scale proteomics technology, there is an urgent need for methods that maximize sensitivity and control of false protein identifications by integrating the results of multiple experiments.In "shotgun" proteomics studies, a protein sample is digested with a proteolytic enzyme, and the resulting peptide mixture is separated by LC prior to conducting collisioninduced dissociation and MS/MS (1). This generates thousands of peptide ion fragmentation spectra containing diagnostic amino acid sequence information. Peptide sequences are inferred by matching the resulting product ion spectra to theoretical or empirical spectra in peptide sequence databases (4). No match is exact, so the peptide identifications are not certain. Database search algorithms either calculate a probability that the spectrum results from a random fragmentation (e.g. MASCOT, Ref. 5) or use heuristic scores (such as SEQUEST, Ref. 6), which can then be converted into probabilities of accurate peptide identification (7,8). A variety of other statistical models have also been proposed to score peptide matches (9). These algorithms have to some extent complementary merits, and the sensitivity and specificity of peptide sequence identifications from MS/MS data can be improved by the use of more than one search algorithm (10 -12). A recent comparison of five database search programs concluded with the recommendation to use consensus scoring from at least two different algorithms and noted the need for appropriate methods of combining scores from different algorithms (11). Database search methods using different assumptions and procedures can result in markedly different sets of protein identifications (e.g. Ref. 13).Probable peptide sequences need to be assembled to proteins (14). A simple method for identifying proteins is to filter the peptide matches using empirically derived thresholds and then sort by parent protein. Variants of this approach do not attempt to estimate false identification rates, nor do they deal in a useful way with "degenerate" peptides whose sequence matches more than one protein in the database (15-17). More sophisticated methods use statistical models to calculate protein expression probabilities (12, 18 -20) or ranking scores (21) based on the number and quality of peptide sequence matches and other criteria, such as protein length, the size of the database, and the degeneracy of the peptide sequence identifications. These models can be empirically validated by search...

Background-Antagonism or deletion of the receptor (the TP) for the cyclooxygenase (COX) product thromboxane (Tx)A 2 , retards atherogenesis in apolipoprotein E knockout (ApoE KO) mice. Although inhibition or deletion of COX-1 retards atherogenesis in ApoE and LDL receptor (LDLR) KOs, the role of COX-2 in atherogenesis remains controversial. Other products of COX-2, such as prostaglandin (PG) I 2 and PGE 2 , may both promote inflammation and restrain the effects of TxA 2 . Thus, combination with a TP antagonist might reveal an antiinflammatory effect of a COX-2 inhibitor in this disease. We addressed this issue and the role of TxA 2 in the promotion and regression of diffuse, established atherosclerosis in Apobec-1/LDLR double KOs (DKOs). Methods and Results-TP antagonism with S18886, but not combined inhibition of COX-1 and COX-2 with indomethacin or selective inhibition of COX-2 with Merck Frosst (MF) tricyclic, retards significantly atherogenesis in DKOs.Although indomethacin depressed urinary excretion of major metabolites of both TxA 2 , 2,3-dinor TxB 2 (Tx-M), and PGI 2 , 2,3-dinor 6-keto PGF 1␣ (PGI-M), only PGI-M was depressed by the COX-2 inhibitor. None of the treatments modified significantly the increase in lipid peroxidation during atherogenesis, reflected by urinary 8,12-iso-iPF 2␣ -VI. Combination with the COX-2 inhibitor failed to augment the impact of TP antagonism alone on lesion area. Rather, analysis of plaque morphology reflected changes consistent with destabilization of the lesion coincident with augmented formation of TxA 2 . Despite a marked effect on disease progression, TP antagonism failed to induce regression of established atherosclerotic disease in this model. Conclusions-TP antagonism is more effective than combined inhibition of COX-1 and COX-2 in retarding atherogenesis in Apobec-1/LDLR DKO mice, which perhaps reflects activation of the receptor by multiple ligands during disease initiation and early progression. Despite early intervention, selective inhibition of COX-2, alone or in combination with a TP antagonist, failed to modify disease progression but may undermine plaque stability when combined with the antagonist. TP antagonism failed to induce regression of established atherosclerotic disease. TP ligands, including COX-1 (but not COX-2)-derived TxA 2 , promote initiation and early progression of atherogenesis in Apobec-1/LDLR DKOs but appear unimportant in the maintenance of established disease. (Circulation. 2005;111:334-342.)

BackgroundMacrophages play a pivotal role in atherosclerotic plaque development. Recent evidence has suggested the glucagon-like peptide-1 receptor (GLP-1R) agonist, liraglutide, can attenuate pro-inflammatory responses in macrophages. We hypothesized that liraglutide could limit atherosclerosis progression in vivo via modulation of the inflammatory response.MethodsHuman THP-1 macrophages and bone marrow-derived macrophages, from both wild-type C57BL/6 (WT) and apolipoprotein E null mice (ApoE−/−) were used to investigate the effect of liraglutide on the inflammatory response in vitro. In parallel, ApoE−/− mice were fed a high-fat (60% calories from fat) high-cholesterol (1%) diet for 8 weeks to induce atherosclerotic disease progression with/without daily 300 μg/kg liraglutide administration for the final 6 weeks. Macrophages were analysed for MΦ1 and MΦ2 macrophage markers by Western blotting, RT-qPCR, ELISA and flow cytometry. Atherosclerotic lesions in aortae from ApoE−/− mice were analysed by en face staining and monocyte and macrophage populations from bone marrow derived cells analysed by flow cytometry.ResultsLiraglutide decreased atherosclerotic lesion formation in ApoE−/− mice coincident with a reduction in pro-inflammatory and increased anti-inflammatory monocyte/macrophage populations in vivo. Liraglutide decreased IL-1beta in MΦ0 THP-1 macrophages and bone marrow-derived macrophages from WT mice and induced a significant increase in the MΦ2 surface marker mannose receptor in both MΦ0 and MΦ2 macrophages. Significant reduction in total lesion development was found with once daily 300 μg/kg liraglutide treatment in ApoE−/− mice. Interestingly, liraglutide inhibited disease progression at the iliac bifurcation suggesting that it retards the initiation and development of disease. These results corresponded to attenuated MΦ1 markers (CCR7, IL-6 and TNF-alpha), augmented MΦ2 cell markers (Arg-1, IL-10 and CD163) and finally decreased MΦ1-like monocytes and macrophages from bone marrow-derived cells.ConclusionsThis data supports a therapeutic role for liraglutide as an atheroprotective agent via modulating macrophage cell fate towards MΦ2 pro-resolving macrophages.Electronic supplementary materialThe online version of this article (10.1186/s12933-017-0626-3) contains supplementary material, which is available to authorized users.

Since the first description of interleukin-1 (IL-1) and the genesis of the field of cytokine biology, the understanding of how IL-1 and related cytokines play central orchestrating roles in the inflammatory response has been an area of intense investigation. As a consequence of these endeavours, specific strategies have been developed to target the function of the IL-1 family in human disease realizing significant impacts for patients. While the most significant advances to date have been associated with inhibition of the prototypical family members IL-1α/β, approaches to target more recently identified family members such as IL-18, IL-33 and the IL-36 subfamily are now beginning to come to fruition. This review summarizes current knowledge surrounding the roles of the IL-1 family in human disease and describes the rationale and strategies which have been developed to target these cytokines to inhibit the pathogenesis of a wide range of diseases in which inflammation plays a centrally important role.Keywords: Canakinumab r Inflammation r Inflammatory disease r Interleukin-1 family r Therapy

We report the development and demonstration of an assay that distinguishes the pharmacological effects of two widely used antiplatelet therapies, aspirin (COX-1 inhibitor) and clopidogrel (P2Y12 inhibitor). Whole blood is perfused through a low-volume microfluidic device in contact with a well-characterized (ellipsometry, atomic force microscopy) acid-soluble type I collagen surface. Whole human blood treated in vitro with a P2Y12 inhibitor 2-methylthioadenosine 5'-monophosphate triethylammonium salt (2-MeSAMP) extended the time to the start of platelet recruitment, i.e., platelet binding to the collagen surface. Treatment with 2-MeSAMP also slowed the rate of aggregate buildup, with an overall reduced average platelet aggregate area after 8 min of constant blood flow. A far smaller effect was observed for in vitro treatment with aspirin, for which the rate of change of surface coverage is indistinguishable from controls. In whole blood obtained from patients under treatment with dual-antiplatelet therapy (aspirin and clopidogrel), a significant extension of time to platelet recruitment was observed along with a slowed rate of aggregate buildup and an average aggregate size approximately half that of control measurements. Differentiation of the pharmacological effects of these two well-targeted antiplatelet pathways suggests a role for this assay in determining the antiplatelet effects of these and related new therapeutics in clinical settings.