Downregulation of protease activated receptor expression and cytokine production in P815 cells by RNA interference

Abstract Background Protease-activated receptors (PAR) are seven transmembrane G-coupled receptors comprising four genes (PAR-1 ~ PAR-4). Mast cell has been identified to be able to express PARs and release an array of cytokines upon activation. Recently, it was reported that interleukin (IL)-12 could regulate the expression of PARs in mast cells, and tryptase could induce IL-4 and IL-6 release from mast cells. In order to further investigate the issues, RNA interference (RNAi) technique was employed and small interfering RNAs (siRNA) of PARs were transfected in P815 cells. Results The results showed that siRNAs for PAR-1, PAR-2 and PAR-4 significantly downregulated expression of PAR-1, PAR-2 and PAR-4 mRNAs and proteins in P815 cells at 24, 48 and 72 h following transfection. siRNA PAR-1.2 and siRNA PAR-4.2 significantly reduced IL-12 induced upregulation of PAR-1 and PAR-4 expression, respectively when P815 cells were transfected with them for 48 h. siRNA PAR-2.3 blocked IL-12 induced downregulation of PAR-2 expression on both mRNA and protein levels. It was also observed that siRNA PAR-2.3 and siRNA PAR-1.2 reduced trypsin induced IL-4 release by approximately 92.6% and 65.3%, and SLIGKV-NH2 induced IL-4 release by 82.1% and 60.1%, respectively. Similarly, siRNA PAR-2.3 eliminated tryptase-induced IL-4 release by 75.3%, and siRNA PAR-1.2 diminished SFLLR-NH2 induced IL-4 release by 79.3%. However, siRNA PAR-1.2, siRNA PAR-2.3 and siRNA PAR-4.3 at 10 nM did not show any effect on tryptase-induced IL-6 release from P815 cells. Conclusion In conclusion, siRNAs of PARs can modulate PAR expression and PAR related cytokine production in mast cells, confirming that PARs are likely to play a role in allergic reactions.</p

FedPerfix: Towards Partial Model Personalization of Vision Transformers in Federated Learning

Personalized Federated Learning (PFL) represents a promising solution for decentralized learning in heterogeneous data environments. Partial model personalization has been proposed to improve the efficiency of PFL by selectively updating local model parameters instead of aggregating all of them. However, previous work on partial model personalization has mainly focused on Convolutional Neural Networks (CNNs), leaving a gap in understanding how it can be applied to other popular models such as Vision Transformers (ViTs). In this work, we investigate where and how to partially personalize a ViT model. Specifically, we empirically evaluate the sensitivity to data distribution of each type of layer. Based on the insights that the self-attention layer and the classification head are the most sensitive parts of a ViT, we propose a novel approach called FedPerfix, which leverages plugins to transfer information from the aggregated model to the local client as a personalization. Finally, we evaluate the proposed approach on CIFAR-100, OrganAMNIST, and Office-Home datasets and demonstrate its effectiveness in improving the model's performance compared to several advanced PFL methods.Comment: 2023 IEEE/CVF International Conference on Computer Vision (ICCV

An integrated proteomic and metabolomic study on the gender-specific responses of mussels Mytilus galloprovincialis to tetrabromobisphenol A (TBBPA)

Tetrabromobisphenol A (TBBPA), accounting for the largest production of brominated flame-retardants (BFRs) along the Laizhou Bay in China, is of great concern due to its diverse toxicities. In this study, we focused on the gender-specific responses of TBBPA in mussel Mytilus galloprovincialis using an integrated proteomic and metabolomic approach. After exposure of TBBPA (10 mu g L-1) for one month, a total of 9 metabolites and 67 proteins were altered in mussel gills from exposed group. The significant changes of metabolites in female mussel gills from exposed group exhibited the disturbances in energy metabolism and osmotic regulation, while in male samples only be found the variation of metabolites related to osmotic regulation. iTRAQ-based proteomic analysis showed biological differences between male and female mussel gills from solvent control group. The higher levels of proteins related to primary and energy metabolism and defense mechanisms in male mussel gills meant a greater anti-stress capability of male mussels. Further analysis revealed that TBBPA exposure affected multiple biological processes consisting of production and development, material and energy metabolism, signal transduction, gene expression, defense mechanisms and apoptosis in both male and female mussels with different mechanisms. Specially, the responsive proteins of TBBPA in male mussels signified higher tolerance limits than those in female individuals, which was consistent with the biological differences between male and female mussel gills from solvent control group. This work suggested that the gender differences should be considered in ecotoxicology. (C) 2015 Elsevier Ltd. All rights reserved

Pittsburgh Center for Artificial Intelligence Innovation in Medical Imaging

We propose to create a medical imaging artificial intelligence (AI) center (name: Pittsburgh Center for Artificial Intelligence Innovation in Medical Imaging). AI is the new revolutionary technique for medical research and is reshaping tomorrow’s clinical practice in medical imaging (radiology and pathology). Our long-term vision is to build a center for innovative AI in clinical translational medical imaging by combining computational expertise and clinical resources across Pitt, UPMC, and CMU. The Center concept is a formalization of a group of researchers and clinicians that are united by the common theme: “building advanced and trustworthy imaging AI for clinical applications.” Our short-term plan is to assemble dedicated members from the School of Medicine, the School of Engineering, and the School of Computing and Information. We seek a Scaling grant from the Momentum Funds to foster collaborative activities of the Center between these three Pitt schools to provide the essential components of a competitive P41 (Biomedical Technology Resource Centers) center grant in 2 years. The National Institute of Biomedical Imaging and Bioengineering (NIBIB) P41 mechanism aligns with the overall vision of this initiative to develop specific AI imaging tools and to support the dissemination and commercialization pathways that are essential to bringing AI imaging tools to clinical practice. These projects will include key components: 1) Clinical need-driven medical imaging AI development and evaluation of tools, models, systems, and informatics, 2) Core imaging AI theory, methodology, and algorithm investigation, and 3) Linking imaging phenotypes to the biological (genomics and proteomics) underpinnings. To date, we have already 35 members for the Center. The Pitt Momentum Funds will provide critical scaling support to promote communication between the three Pitt schools to develop a competitive P41 grant application and a sustainable framework to ensure the clinical impact of these AI imaging tools

Genomic characterization of putative allergen genes in peach/almond and their synteny with apple

<p>Abstract</p> <p>Background</p> <p>Fruits from several species of the Rosaceae family are reported to cause allergic reactions in certain populations. The allergens identified belong to mainly four protein families: pathogenesis related 10 proteins, thaumatin-like proteins, lipid transfer proteins and profilins. These families of putative allergen genes in apple (<it>Mal d 1 </it>to <it>4</it>) have been mapped on linkage maps and subsequent genetic study on allelic diversity and hypoallergenic traits has been carried out recently. In peach (<it>Prunus persica</it>), these allergen gene families are denoted as <it>Pru p 1 </it>to <it>4 </it>and for almond (<it>Prunus dulcis</it>)<it>Pru du 1 </it>to <it>4</it>. Genetic analysis using current molecular tools may be helpful to establish the cause of allergenicity differences observed among different peach cultivars. This study was to characterize putative peach allergen genes for their genomic sequences and linkage map positions, and to compare them with previously characterized homologous genes in apple (<it>Malus domestica</it>).</p> <p>Results</p> <p>Eight <it>Pru p/du 1 </it>genes were identified, four of which were new. All the <it>Pru p/du 1 </it>genes were mapped in a single bin on the top of linkage group 1 (G1). Five <it>Pru p/du 2 </it>genes were mapped on four different linkage groups, two very similar <it>Pru p/du 2.01 </it>genes (<it>A </it>and <it>B</it>) were on G3, <it>Pru p/du 2.02 </it>on G7,<it>Pru p/du 2.03 </it>on G8 and <it>Pru p/du 2.04 </it>on G1. There were differences in the intron and exon structure in these <it>Pru p/du 2 </it>genes and in their amino acid composition. Three <it>Pru p/du 3 </it>genes (3.01–3.03) containing an intron and a mini exon of 10 nt were mapped in a cluster on G6. Two <it>Pru p/du 4 </it>genes (<it>Pru p/du 4.01 </it>and <it>4.02</it>) were located on G1 and G7, respectively. The <it>Pru p/du 1 </it>cluster on G1 aligned to the <it>Mal d 1 </it>clusters on LG16; <it>Pru p/du 2.01A </it>and <it>B </it>on G3 to <it>Mal d 2.01A </it>and <it>B </it>on LG9; the <it>Pru p/du 3 </it>cluster on G6 to <it>Mal d 3.01 </it>on LG12; <it>Pru p/du 4.01 </it>on G1 to <it>Mal d 4.03 </it>on LG2; and <it>Pru p/du 4.02 </it>on G7 to <it>Mal d 4.02 </it>on LG2.</p> <p>Conclusion</p> <p>A total of 18 putative peach/almond allergen genes have been mapped on five linkage groups. Their positions confirm the high macro-synteny between peach/almond and apple. The insight gained will help to identify key genes causing differences in allergenicity among different cultivars of peach and other <it>Prunus </it>species.</p

Removal of phenanthrene from coastal waters by green tide algae Ulva prolifera

Ulva prolifera (U. prolifera) has been frequently involved in terrible algal proliferation in coastal areas. Although it is known to be associated with green tide, its contribution to the natural attenuation of the polycyclic aromatic hydrocarbons (PAHs) in seawater has not been evaluated. In this study, the removal of phenanthrene using U. prolifera collected from coastal water with green tide blooming was investigated. The results showed that phenanthrene could be removed efficiently in the presence of both the live and heat-killed U. prolifera. The phenanthrene concentrations of the live algae treatment decreased smoothly from 10.00 to 0.80 mu g L-1 through the whole process, while those of the heat-killed algae treatment decreased sharply from 10.0 to 2.71 mu g L-1 in one day and kept constantly after that. The in situ monitoring and visualizing using laser confocal scanning microscopy (LCSM) confirmed the accumulation of phenanthrene in U. prolifera. The increase in nutrient and temperature led to the increase of phenanthrene removal rate, while the salinity had less influence on the removal of phenanthrene. The removal efficiency by U. prolifera had a good linear relationship with phenanthrene initial concentration (r(2) = 0.999) even at 100 mu g L-1 which was higher than its environmentally relevant concentrations. High removal efficiency (91.3%) was observed when the initial phenanthrene concentration was set at environmental relevant concentration (5 mu g L-1). Results of this study demonstrate a potential new natural attenuation process for typical PAHs in coastal water during the outbreak of green tide. These findings indicate that the outbreak of harmful green tide algae may bring positive environmental benefits in the terms of the removal of harmful organic pollutants from coastal waters. (C) 2017 Elsevier B.V. All rights reserved.</p

The capacities of institutions for the integration of ecosystem services in coastal strategic planning: The case of Jiaozhou Bay

This paper explains how the practice of integrating ecosystem-service thinking (i.e., ecological benefits for human beings) and institutions (i.e., organisations, policy rules) is essential for coastal spatial planning. Adopting an integrated perspective on ecosystem services (ESs) both helps understand a wide range of possible services and, at the same time, attune institution to local resource patterns. The objective of this paper is to identify the extent to which ESs are integrated in a specific coastal strategic planning case. A subsequent objective is to understand whether institutions are capable of managing ESs in terms of uncovering institutional strengths and weaknesses that may exist in taking ESs into account in existing institutional practices. These two questions are addressed through the application of a content analysis method and a multi-level analysis framework on formal institutions. Jiaozhou Bay in China is used as an illustrative case. The results show that some ESs have been implicitly acknowledged, but by no means the whole range. This partial ES implementation could result from any of four institutional weaknesses in the strategic plans of Jiaozhou Bay, namely a dominant market oriented interest, fragmented institutional structures for managing ESs, limited ES assessment, and a lack of integrated reflection of the social value of ESs in decision-making. Finally, generalizations of multi-level institutional settings on ES integration, such as an inter-organisational fragmentation and a limited use of ES assessment in operation, are made together with other international case studies. Meanwhile, the comparison highlights the influences of extensive market-oriented incentives and governments' exclusive responsibilities on ES governance in the Chinese context

Proteomic responses reveal the differential effects induced by cadmium in mussels Mytilus galloprovincialis at early life stages

Cadmium (Cd) has become an important metal contaminant and posed severe risk on the organisms in the coastal environments of the Bohai Sea. Marine mussel Mytilus galloprovincialis is widely distributed along the Bohai coast and consumed as seafood by local residents. Evidences indicate that the early stages of marine organisms are more sensitive to metal contaminants. In this study, we applied two-dimensional electrophoresis-based proteomics to characterize the biological effects of Cd (50 mu g L-1) in the early life stages (D-shape larval and juvenile) of mussels. The different proteomic responses demonstrated the differential responsive mechanisms to Cd exposure in these two early life stages of mussels. In details, results indicated that Cd mainly induced immune and oxidative stresses in both D-shape larval and juvenile mussels via different pathways. In addition, the significant up-regulation of triosephosphate isomerase and metallothionein confirmed the enhanced energy demand and mobilized detoxification mechanism in D-shape larval mussels exposed to Cd. In juvenile mussels, Cd exposure also induced clear apoptosis. Overall, this work suggests that Cd is a potential immune toxicant to mussel M. galloprovincialis at early life stages. (C) 2016 Elsevier Ltd. All rights reserved