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secretome analysis

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https://www.readbyqxmd.com/read/28439213/a-clinical-perspective-on-the-utility-of-alpha-1-antichymotrypsin-for-the-early-diagnosis-of-calcific-aortic-stenosis
#1
Tatiana Martin-Rojas, Laura Mourino-Alvarez, Felix Gil-Dones, Fernando de la Cuesta, Esther Rosello-Lleti, Carlos M Laborde, Miguel Rivera, Luis Fernando Lopez-Almodovar, Juan Antonio Lopez, Finn Akerstrom, Luis R Padial, Maria G Barderas
BACKGROUND: Calcific aortic stenosis (CAS) is the most common heart valve disease in the elderly, representing an important economic and social burden in developed countries. Currently, there is no way to predict either the onset or progression of CAS, emphasizing the need to identify useful biomarkers for this condition. METHODS: We performed a multi-proteomic analysis on different kinds of samples from CAS patients and healthy donors: tissue, secretome and plasma...
2017: Clinical Proteomics
https://www.readbyqxmd.com/read/28436002/characterization-of-the-chondrocyte-secretome-in-photoclickable-poly-ethylene-glycol-hydrogels
#2
Margaret C Schneider, Christopher A Barnes, Stephanie J Bryant
Poly(ethylene glycol) (PEG) hydrogels are highly tunable platforms that are promising cell delivery vehicles for chondrocytes and cartilage tissue engineering. In addition to characterizing the type of extracellular matrix (ECM) that forms, understanding the types of proteins that are secreted by encapsulated cells may be important. Thus, the objectives for this study were to characterize the secretome of chondrocytes encapsulated in PEG hydrogels and determine whether the secretome varies as a function of hydrogel stiffness and culture condition...
April 24, 2017: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/28433626/thrombin-impairs-human-endometrial-endothelial-angiogenesis-implications-for-progestin-only-contraceptive-induced-abnormal-uterine-bleeding
#3
John P Shapiro, Ozlem Guzeloglu-Kayisli, Umit A Kayisli, Nihan Semerci, S Joseph Huang, Sefa Arlier, Kellie Larsen, Paolo Fadda, Frederick Schatz, Charles J Lockwood
OBJECTIVE: Progestin-only contraceptives induce abnormal uterine bleeding, accompanied by pro-thrombin leakage from dilated endometrial microvessels and increased thrombin generation by human endometrial stromal cell (HESC)-expressed tissue factor. Initial studies of the thrombin-treated HESC secretome identified elevated levels of cleaved chondroitin sulfate proteoglycan 4 (CSPG4), impairing pericyte-endothelial interactions. Thus, we investigated direct and CSPG4-mediated effects of thrombin in eliciting abnormal uterine bleeding by disrupting endometrial angiogenesis...
April 19, 2017: Contraception
https://www.readbyqxmd.com/read/28417959/genome-sequence-of-plasmopara-viticola-and-insight-into-the-pathogenic-mechanism
#4
Ling Yin, Yunhe An, Junjie Qu, Xinlong Li, Yali Zhang, Ian Dry, Huijuan Wu, Jiang Lu
Plasmopara viticola causes downy mildew disease of grapevine which is one of the most devastating diseases of viticulture worldwide. Here we report a 101.3 Mb whole genome sequence of P. viticola isolate 'JL-7-2' obtained by a combination of Illumina and PacBio sequencing technologies. The P. viticola genome contains 17,014 putative protein-coding genes and has ~26% repetitive sequences. A total of 1,301 putative secreted proteins, including 100 putative RXLR effectors and 90 CRN effectors were identified in this genome...
April 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28414035/bothrops-jararaca-venom-gland-secretory-cells-in-culture-effects-of-noradrenaline-on-toxin-production-and-secretion
#5
Luciana Godoy Viana, Richard Hemmi Valente, Cíntia Scucuglia Heluany, Andreia Souza-Imberg, Milene Schmidt Luna, Jonas Perales, Norma Yamanouye
Primary culture of snake venom gland secretory cells could be a good model to study the mechanism(s) of toxin(s) production. These cells can produce and secrete venom to the medium with a hemorrhagic activity comparable to that induced by venom collected from snakes. Production of new venom is triggered by the sympathetic outflow, through the release of noradrenaline, but the importance of this neurotransmitter on toxin synthesis has not been addressed. This work led to the identification and comparison of the toxin panel produced by cultured secretory cells, during a 12-day time-course analysis, as well as to the effects of noradrenaline on the process...
April 13, 2017: Toxicon: Official Journal of the International Society on Toxinology
https://www.readbyqxmd.com/read/28406185/knockdown-of-stem-cell-regulator-oct4a-in-ovarian-cancer-reveals-cellular-reprogramming-associated-with-key-regulators-of-cytoskeleton-extracellular-matrix-remodelling
#6
Chantel Samardzija, David W Greening, Ruth Escalona, Maoshan Chen, Maree Bilandzic, Rodney Luwor, George Kannourakis, Jock K Findlay, Nuzhat Ahmed
Oct4A is a master regulator of self-renewal and pluripotency in embryonic stem cells. It is a well-established marker for cancer stem cell (CSC) in malignancies. Recently, using a loss of function studies, we have demonstrated key roles for Oct4A in tumor cell survival, metastasis and chemoresistance in in vitro and in vivo models of ovarian cancer. In an effort to understand the regulatory role of Oct4A in tumor biology, we employed the use of an ovarian cancer shRNA Oct4A knockdown cell line (HEY Oct4A KD) and a global mass spectrometry (MS)-based proteomic analysis to investigate novel biological targets of Oct4A in HEY samples (cell lysates, secretomes and mouse tumor xenografts)...
April 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28403795/mesenchymal-stem-cell-derived-extracellular-vesicles-for-renal-repair
#7
Arash A Nargesi, Lilach O Lerman, Alfonso Eirin
Transplantation of autologous mesenchymal stem cells (MSCs) has been shown to attenuate renal injury and dysfunction in several animal models, and its efficacy is currently being tested in clinical trials for patients with renal disease. Accumulating evidence indicates that MSCs release extracellular vesicles (EVs) that deliver genes, microRNAs and proteins to recipient cells, acting as mediators of MSC paracrine actions. In this context, it is critical to characterize the MSC-derived EV cargo to elucidate their potential contribution to renal repair...
April 12, 2017: Current Gene Therapy
https://www.readbyqxmd.com/read/28402555/deregulation-of-the-endometrial-stromal-cell-secretome-precedes-embryo-implantation-failure
#8
Ruban Rex Peter Durairaj, Asma Aberkane, Lukasz Polanski, Yojiro Maruyama, Miriam Baumgarten, Emma S Lucas, Siobhan Quenby, Jerry K Y Chan, Nick Raine-Fenning, Jan J Brosens, Hilde Van de Velde, Yie Hou Lee
STUDY QUESTION: Is implantation failure following ART associated with a perturbed decidual response in endometrial stromal cells (EnSCs)? SUMMARY ANSWER: Dynamic changes in the secretome of decidualizing EnSCs underpin the transition of a hostile to a supportive endometrial microenvironment for embryo implantation; perturbation in this transitional pathway prior to ART is associated with implantation failure. WHAT IS KNOWN ALREADY: Implantation is the rate-limiting step in ART, although the contribution of an aberrant endometrial microenvironment in IVF failure remains ill defined...
April 10, 2017: Molecular Human Reproduction
https://www.readbyqxmd.com/read/28390274/proteomic-characterization-and-schizophyllan-production-by-schizophyllum-commune-istl04-cultured-on-leucaena-leucocephala-wood-under-submerged-fermentation
#9
Manoj Kumar Singh, Madan Kumar, Indu Shekhar Thakur
In this study Schizophyllum commune ISTL04 was grown on Leucaena leucocephala wood (LLW) for secretome analysis and schizophyllan production. There is no report on extracellular protein profile and schizophyllan production on woody biomass by this fungus under submerged fermentation conditions. Leucaena leucocephala, a promising bioenergy crop having high holocellulose content was used as substrate without pretreatment. The maximum sugar, extracellular protein and exopolysaccharide (EPS) production during fermentation was found to be 8...
March 30, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28387650/a-proteomic-analysis-of-the-malignant-mesothelioma-secretome-using-itraq
#10
Jenette Creaney, Ian M Dick, Justine S Leon, Bruce W S Robinson
Backgound/Aim: Malignant mesothelioma (MM) is an aggressive and fatal pleural cancer. The cell secretome offers information allowing insight into the pathogenesis of MM while offering the possibility to identify potential therapeutic targets and biomarkers. In the present study the secretome protein profile of MM cell lines was compared to normal mesothelial cells. MATERIALS AND METHODS: Six MM cell lines were compared against three primary mesothelial cell culture preparations using iTRAQ® mass spectrometry...
March 2017: Cancer Genomics & Proteomics
https://www.readbyqxmd.com/read/28368464/hypoxia-reduces-the-pathogenicity-of-pseudomonas-aeruginosa-by-decreasing-the-expression-of-multiple-virulence-factors
#11
Bettina Schaible, Javier Rodriguez, Amaya Garcia, Alexander von Kriegsheim, Siobhán McClean, Caitríona Hickey, Ciara E Keogh, Eric Brown, Kirsten Schaffer, Alexis Broquet, Cormac T Taylor
Our understanding of how the course of opportunistic bacterial infection is influenced by the microenvironment is limited. We demonstrate that the pathogenicity of P. aeruginosa strains derived from acute clinical infections is higher than that of strains derived from chronic infections, where tissues are hypoxic. Exposure to hypoxia attenuated the pathogenicity of strains from acute (but not chronic) infections implicating a role for hypoxia in regulating bacterial virulence. Mass spectrometric analysis of the secretome of P...
March 25, 2017: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28365718/verseda-vertebrate-secretome-database
#12
Ana R Cortazar, José A Oguiza, Ana M Aransay, José L Lavín
Based on the current tools, de novo secretome (full set of proteins secreted by an organism) prediction is a time consuming bioinformatic task that requires a multifactorial analysis in order to obtain reliable in silico predictions. Hence, to accelerate this process and offer researchers a reliable repository where secretome information can be obtained for vertebrates and model organisms, we have developed VerSeDa (Vertebrate Secretome Database). This freely available database stores information about proteins that are predicted to be secreted through the classical and non-classical mechanisms, for the wide range of vertebrate species deposited at the NCBI, UCSC and ENSEMBL sites...
January 1, 2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28365382/mapping-the-secretome-of-human-chondrogenic-progenitor-cells-with-mass-spectrometry
#13
Sarah Batschkus, Ilian Atanassov, Christof Lenz, Philipp Meyer-Marcotty, Gökhan Cingöz, Christian Kirschneck, Henning Urlaub, Nicolai Miosge
Tissue engineering offers promising perspectives in the therapy of osteoarthritis. In the context of cell-based therapy, chondrogenic progenitor cells (CPCs) may be used to regenerate defects in cartilage tissue. An in-depth characterization of the secretome of CPCs is a prerequisite to this approach. In this study, a method was developed for the qualitative and quantitative analysis of the secretome of undifferentiated and differentiated CPCs. Secreted proteins from cells grown in two-dimensional as well as three-dimensional alginate cultures were extracted and analyzed by liquid chromatography/tandem mass spectrometry (LC-MS/MS)...
March 30, 2017: Annals of Anatomy, Anatomischer Anzeiger: Official Organ of the Anatomische Gesellschaft
https://www.readbyqxmd.com/read/28358917/proteomic-characterization-of-epicardial-myocardial-signaling-reveals-novel-regulatory-networks-including-a-role-for-nf-%C3%AE%C2%BAb-in-epicardial-emt
#14
Yanyang Li, Alexander Urban, Devin Midura, Hans-Georg Simon, Q Tian Wang
Signaling between the epicardium and underlying myocardium is crucial for proper heart development. The complex molecular interactions and regulatory networks involved in this communication are not well understood. In this study, we integrated mass spectrometry with bioinformatics to systematically characterize the secretome of embryonic chicken EPDC-heart explant (EHE) co-cultures. The 150-protein secretome dataset established greatly expands the knowledge base of the molecular players involved in epicardial-myocardial signaling...
2017: PloS One
https://www.readbyqxmd.com/read/28358123/molecular-therapy-for-degenerative-disc-disease-clues-from-secretome-analysis-of-the-notochordal-cell-rich-nucleus-pulposus
#15
Ajay Matta, M Zia Karim, David E Isenman, W Mark Erwin
Degenerative disc disease (DDD) is associated with spinal pain often leading to long-term disability. However, the non-chondrodystrophic canine intervertebral disc is protected from the development of DDD, ostensibly due to its retention of notochordal cells (NC) in the nucleus pulposus (NP). In this study, we hypothesized that secretome analysis of the NC-rich NP will lead to the identification of key proteins that delay the onset of DDD. Using mass-spectrometry, we identified 303 proteins including components of TGFβ- and Wnt-signaling, anti-angiogeneic factors and proteins that inhibit axonal ingrowth in the bioactive fractions of serum free, notochordal cell derived conditioned medium (NCCM)...
March 30, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28352091/genome-sequencing-and-analysis-of-talaromyces-pinophilus-provide-insights-into-biotechnological-applications
#16
Cheng-Xi Li, Shuai Zhao, Ting Zhang, Liang Xian, Lu-Sheng Liao, Jun-Liang Liu, Jia-Xun Feng
Species from the genus Talaromyces produce useful biomass-degrading enzymes and secondary metabolites. However, these enzymes and secondary metabolites are still poorly understood and have not been explored in depth because of a lack of comprehensive genetic information. Here, we report a 36.51-megabase genome assembly of Talaromyces pinophilus strain 1-95, with coverage of nine scaffolds of eight chromosomes with telomeric repeats at their ends and circular mitochondrial DNA. In total, 13,472 protein-coding genes were predicted...
March 28, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28337181/comparative-genomic-analysis-reveals-ecological-differentiation-in-the-genus-carnobacterium
#17
Christelle F Iskandar, Frédéric Borges, Bernard Taminiau, Georges Daube, Monique Zagorec, Benoît Remenant, Jørgen J Leisner, Martin A Hansen, Søren J Sørensen, Cécile Mangavel, Catherine Cailliez-Grimal, Anne-Marie Revol-Junelles
Lactic acid bacteria (LAB) differ in their ability to colonize food and animal-associated habitats: while some species are specialized and colonize a limited number of habitats, other are generalist and are able to colonize multiple animal-linked habitats. In the current study, Carnobacterium was used as a model genus to elucidate the genetic basis of these colonization differences. Analyses of 16S rRNA gene meta-barcoding data showed that C. maltaromaticum followed by C. divergens are the most prevalent species in foods derived from animals (meat, fish, dairy products), and in the gut...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28336271/helminth-secretomes-reflect-different-lifestyles-and-parasitized-hosts
#18
Yesid Cuesta-Astroz, Francislon Silva de Oliveira, Laila Alves Nahum, Guilherme Oliveira
Helminths cause a number of medical and agricultural problems and are a major cause of parasitic infections in humans, animals and plants. Comparative analysis of helminth genes and genomes are important to understand the genomic biodiversity and evolution of parasites and their hosts in terms of different selective pressures in their habitats. The interactions between the infective organisms and their hosts are mediated in large part by secreted proteins, known collectively as the "secretome". Proteins secreted by parasites are able to modify a host's environment and modulate their immune system...
March 21, 2017: International Journal for Parasitology
https://www.readbyqxmd.com/read/28323242/investigation-of-the-indigenous-fungal-community-populating-barley-grains-secretomes-and-xylanolytic-potential
#19
Abida Sultan, Jens C Frisvad, Birgit Andersen, Birte Svensson, Christine Finnie
The indigenous fungal species populating cereal grains produce numerous plant cell wall-degrading enzymes including xylanases, which could play important role in plant-pathogen interactions and in adaptation of the fungi to varying carbon sources. To gain more insight into the grain surface-associated enzyme activity, members of the populating fungal community were isolated, and their secretomes and xylanolytic activities assessed. Twenty-seven different fungal species were isolated from grains of six barley cultivars over different harvest years and growing sites...
March 18, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28315245/multidimensional-analysis-of-protease-substrates-and-their-cellular-origins-in-mixed-secretomes-from-multiple-cell-types
#20
Pascal Schlage, Ulrich Auf dem Keller
Although extracellular proteases are confronted with substrate proteins expressed by multiple cell types in vivo, in most protease substrate discovery approaches, the test protease is exposed to a test proteome (secretome) derived only from a single cell type. This limits the potential substrate space and prohibits the formation of protein complexes constituted of components derived from multiple cellular origins. Mixing of secretomes collected from multiple cell types addresses this issue, but information on the cellular origin of a substrate protein is lost...
2017: Methods in Molecular Biology
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