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secretome analysis

Joana C Silva, Emmanuel Cornillot, Carrie McCracken, Sahar Usmani-Brown, Ankit Dwivedi, Olukemi O Ifeonu, Jonathan Crabtree, Hanzel T Gotia, Azan Z Virji, Christelle Reynes, Jacques Colinge, Vidya Kumar, Lauren Lawres, Joseph E Pazzi, Jozelyn V Pablo, Chris Hung, Jana Brancato, Priti Kumari, Joshua Orvis, Kyle Tretina, Marcus Chibucos, Sandy Ott, Lisa Sadzewicz, Naomi Sengamalay, Amol C Shetty, Qi Su, Luke Tallon, Claire M Fraser, Roger Frutos, Douglas M Molina, Peter J Krause, Choukri Ben Mamoun
Babesia microti, a tick-transmitted, intraerythrocytic protozoan parasite circulating mainly among small mammals, is the primary cause of human babesiosis. While most cases are transmitted by Ixodes ticks, the disease may also be transmitted through blood transfusion and perinatally. A comprehensive analysis of genome composition, genetic diversity, and gene expression profiling of seven B. microti isolates revealed that genetic variation in isolates from the Northeast United States is almost exclusively associated with genes encoding the surface proteome and secretome of the parasite...
October 18, 2016: Scientific Reports
Jessica Brandi, Ilaria Dando, Elisa Dalla Pozza, Giulia Biondani, Rosalind Jenkins, Victoria Elliott, Kevin Park, Giuseppina Fanelli, Lello Zolla, Eithne Costello, Aldo Scarpa, Daniela Cecconi, Marta Palmieri
: Recently, we have shown that the secretome of pancreatic cancer stem cells (CSCs) is characterized by proteins that participate in cancer differentiation, invasion, and metastasis. However, the differentially expressed intracellular proteins that lead to the specific characteristics of pancreatic CSCs have not yet been identified, and as a consequence the deranged metabolic pathways are yet to be elucidated. To identify the modulated proteins of pancreatic CSCs, iTRAQ-based proteomic analysis was performed to compare the proteome of Panc1 CSCs and Panc1 parental cells, identifying 230 modulated proteins...
October 13, 2016: Journal of Proteomics
Lucia Rochi, María José Diéguez, Germán Burguener, Martín Alejandro Darino, María Fernanda Pergolesi, Lorena Romina Ingala, Alba Romina Cuyeu, Adrián Turjanski, Enrique Domingo Kreff, Francisco Sacco
Rust fungi are one of the most devastating pathogens of crop plants. The biotrophic fungus Puccinia sorghi Schwein (Ps) is responsible for maize common rust, an endemic disease of maize (Zea mays L) in Argentina that causes significant yield losses in corn production. In spite of this, the Ps genomic sequence was not available. We used Illumina sequencing to rapidly produce the 99.6 Mb draft genome sequence of Ps race RO10H11247, derived from a single-uredinial isolate from infected maize leaves collected in the Argentine Corn Belt Region during 2010...
October 13, 2016: Fungal Genetics and Biology: FG & B
Neha Basotra, Baljit Kaur, Marcos Di Falco, Adrian Tsang, Bhupinder Singh Chadha
Mycothermus thermophilus (Syn. Scytalidium thermophilum/Humicola insolens), a thermophilic fungus, is being reported to produce appreciable titers of cellulases and hemicellulases during shake flask culturing on cellulose/wheat-bran/rice straw based production medium. The sequential and differential expression profile of endoglucanases, β-glucosidases, cellobiohydrolases and xylanases using zymography was studied. Mass spectrometry analysis of secretome (Q-TOF LC/MS) revealed a total of 240 proteins with 92 CAZymes of which 62 glycosyl hydrolases belonging to 30 different families were present...
October 8, 2016: Bioresource Technology
Aihua Hou, Kai Pong Law, Min Qi Tin, Yoon Pin Lim, Louis Tong
Pterygium is a triangular shaped ocular fibrous surface lesion growing from conjunctiva towards central cornea, causing ocular irritation, astigmatism, and visual disturbance. The condition is characterized by epithelial proliferation, fibrovascular growth, chronic inflammation, and prominent extracellular matrix remodeling. Studies have suggested that aberrant extracellular proteins secreted by fibroblasts lead to abnormal matrix production and tissue invasion contributing to the development of the disease...
October 7, 2016: Experimental Eye Research
Noha M Elhosseiny, Ossama M El-Tayeb, Aymen S Yassin, Stephen Lory, Ahmed S Attia
Acinetobacter baumannii infections are compounded with a striking lack of treatment options. In many Gram-negative bacteria, secreted proteins play an important early role in avoiding host defences. Typically, these proteins are targeted to the external environment or into host cells using dedicated transport systems. Despite the fact that medically relevant species of Acinetobacter possess a type II secretion system (T2SS), only recently, its significance as an important pathway for delivering virulence factors has gained attention...
October 1, 2016: International Journal of Medical Microbiology: IJMM
David Vela-Corcía, Rocío Bautista, Antonio de Vicente, Pietro D Spanu, Alejandro Pérez-García
The cucurbit powdery mildew fungus Podosphaera xanthii is a major limiting factor for cucurbit production worldwide. Despite the fungus's agronomic and economic importance, very little is known about fundamental aspects of P. xanthii biology, such as obligate biotrophy or pathogenesis. To design more durable control strategies, genomic information about P. xanthii is needed. Powdery mildews are fungal pathogens with large genomes compared with those of other fungi, which contain vast amounts of repetitive DNA sequences, much of which is composed of retrotransposons...
2016: PloS One
Jinzi Wang, Liming Shi, Xipu He, Lidan Lu, Xiaoping Li, Baoshan Chen
To understand the impact of a hypovirus infection on the secretome of the chestnut blight fungus, Cryphonectria parasitica, a phytopathogenic filamentous fungus, two-dimensional electrophoresis (2-DE) and isobaric tag for relative and absolute quantitation (iTRAQ) technology were employed to identify and quantify the secreted proteins. A total of 403 unique proteins were identified from the secretome of the wild type virus-free strain EP155. Of these proteins, 329 were predicted to be involved in known secretory pathways and they are primarily composed of metabolic enzymes, biological regulators, responders to stimulus and components involved in plant-pathogen interactions...
October 4, 2016: Scientific Reports
Kathrin Elisabeth Witzke, Kristin Rosowski, Christian Müller, Maike Ahrens, Martin Eisenacher, Dominik A Megger, Jürgen Knobloch, Andrea R Koch, Thilo Bracht, Barbara Sitek
Quantitative secretome analyses are a high-performance tool for the discovery of physiological and pathophysiological changes in cellular processes. However, serum supplements in cell culture media limit secretome analyses, but serum depletion often leads to cell starvation and consequently biased results. To overcome these limiting factors, we investigated a model of T cell activation (Jurkat cells) and performed an approach for the selective enrichment of secreted proteins from conditioned medium utilizing metabolic marking of newly synthesized glycoproteins...
October 3, 2016: Journal of Proteome Research
Julia Uhlmann, Nikolai Siemens, Ylva Kai-Larsen, Tomas Fiedler, Peter Bergman, Linda Johansson, Anna Norrby-Teglund
BACKGROUND:  Neutrophils have been proposed as important contributors to the hyper-inflammatory responses that are associated with severe invasive Streptococcus pyogenes infections. In particular streptococcal surface proteins have been implicated as potent neutrophil activators. Here we explore the impact of streptococcal secreted factors on neutrophil activation and degranulation. METHODS:  Primary human neutrophils were exposed to supernatants prepared from stationary phase cultures of invasive S...
September 28, 2016: Journal of Infectious Diseases
Majid Lotfinia, Mehdi Kadivar, Abbas Piryaei, Behshad Pournasr, Soroush Sardari, Niloofar Sodeifi, Forugh-Azam Sayahpour, Hossein Baharvand
Adult tissue-derived mesenchymal stem cells (MSCs) show tremendous promise for a wide array of therapeutic applications predominantly through paracrine activity. Recent reports showed that human embryonic stem cell (ESC)-derived MSCs are an alternative for regenerative cellular therapy due to manufacturing large quantities of MSCs from a single donor. However, no study has reported to uncover the secretome of human ESC-MSCs as treatment of an acute liver failure (ALF) mouse model. We demonstrated that human ESC-MSCs showed similar morphology and cell surface markers compared to bone marrow (BM)-derived MSCs...
September 27, 2016: Stem Cells and Development
Pavel Gromov, Irina Gromova
Tumor interstitial fluid (TIF) surrounds and perfuses bodily tumorigenic tissues and cells, and can accumulate by-products of tumors and stromal cells in a relatively local space. Interstitial fluid offers several important advantages for biomarker and therapeutic target discovery, especially for cancer. Here, we describe the most currently accepted method for recovering TIF from tumor and nonmalignant tissues that was initially performed using breast cancer tissue. TIF recovery is achieved by passive extraction of fluid from small, surgically dissected tissue specimens in phosphate-buffered saline...
2016: Methods in Molecular Biology
Armania Nurdin, Yutaro Hoshi, Toshihiro Yoneyama, Eisuke Miyauchi, Masanori Tachikawa, Michitoshi Watanabe, Tetsuya Terasaki
Prostate-specific antigen is currently the only protein biomarker routinely used as a diagnostic tool for early detection and treatment monitoring of prostate cancer. However, it remains questionable whether prostate-specific antigen-based screening can sensitively and selectively identify the presence and progression status of primary and metastatic prostate cancers. Hence, the purpose of this study was to identify potential biomarker candidates in the secretome of primary and metastatic prostate cancer cells by using a combination of global and targeted proteomics...
November 2016: Journal of Pharmaceutical Sciences
Fábio G Teixeira, Miguel M Carvalho, Krishna M Panchalingam, Ana J Rodrigues, Bárbara Mendes-Pinheiro, Sandra Anjo, Bruno Manadas, Leo A Behie, Nuno Sousa, António J Salgado
: : Research in the last decade strongly suggests that mesenchymal stem cell (MSC)-mediated therapeutic benefits are mainly due to their secretome, which has been proposed as a possible therapeutic tool for the treatment of Parkinson's disease (PD). Indeed, it has been shown that the MSC secretome increases neurogenesis and cell survival, and has numerous neuroprotective actions under different conditions. Additionally, using dynamic culturing conditions (through computer-controlled bioreactors) can further modulate the MSC secretome, thereby generating a more potent neurotrophic factor cocktail (i...
September 22, 2016: Stem Cells Translational Medicine
Charley G P McCarthy, David A Fitzpatrick
While most commonly associated with prokaryotes, horizontal gene transfer (HGT) can also have a significant influence on the evolution of microscopic eukaryotes. Systematic analysis of HGT in the genomes of the oomycetes, filamentous eukaryotic microorganisms in the Stramenopiles-Alveolates-Rhizaria (SAR) supergroup, has to date focused mainly on intradomain transfer events between oomycetes and fungi. Using systematic whole-genome analysis followed by phylogenetic reconstruction, we have investigated the extent of interdomain HGT between bacteria and plant-pathogenic oomycetes...
September 2016: MSphere
Elina Välimäki, Wojciech Cypryk, Juhani Virkanen, Katariina Nurmi, Pauli M Turunen, Kari K Eklund, Karl E Åkerman, Tuula A Nyman, Sampsa Matikainen
Extracellular ATP is an endogenous danger signal that is known to activate inflammatory responses in innate immune cells, including macrophages. Activated macrophages start to secrete proteins to induce an immune response, as well as to recruit other immune cells to the site of infection and tissue damage. In this study, we characterized the secretome (i.e., the global pattern of secreted proteins) of ATP-stimulated human macrophages. We show that ATP stimulation activates robust vesicle-mediated unconventional protein secretion, including exosome release and membrane shedding, from human macrophages...
September 16, 2016: Journal of Immunology: Official Journal of the American Association of Immunologists
Stephanie Merfeld-Clauss, Benjamin R Lease, Hongyan Lu, Keith L March, Dmitry O Traktuev
Adipose stromal cells (ASCs) support endothelial cell (EC) vasculogenesis through paracrine and cell-contact communications. In addition, ASCs differentiate towards the smooth muscle cell (SMC) phenotype under different stimuli, which prompted their use as a source of mural cells in fabricating small calibre vessels. How ASCs' SMC-lineage commitment affects their subsequent communication with ECs is unknown. The vasculogenic characteristics of human ASC in progenitor stage and after differentiation towards SMC phenotype were analysed in the present study...
September 16, 2016: Journal of Tissue Engineering and Regenerative Medicine
Prakriti Sharma Ghimire, Haomiao Ouyang, Qian Wang, Yuanming Luo, Bo Shi, Jinghua Yang, Yang Lü, Cheng Jin
Lignocelluloses contained in animal forage cannot be digested by pigs or poultry with 100% efficiency. On contrary, Aspergillus fumigatus, a saprophytic filamentous fungus, is known to harbor 263 glycoside hydrolase encoding genes, suggesting that A. fumigatus is an efficient lignocellulose degrader. Hence the present study uses corn, wheat, or soybean as a sole carbon source to culture A. fumigatus under animal physiological condition to understand how cellulolytic enzymes work together to achieve an efficient degradation of lignocellulose...
October 10, 2016: Journal of Proteome Research
Jia Xu, Bin Wang, Yuxin Sun, Tianyi Wu, Yang Liu, Jinfang Zhang, Wayne Yukwai Lee, Xiaohua Pan, Yimin Chai, Gang Li
BACKGROUND: Distraction osteogenesis (DO) is one of the most dramatic reconstructive techniques for inducing bone regeneration, but it involves an undesirably long period for bone consolidation. Developing innovative approaches to enhance bone consolidation is a burning need. Human fetal mesenchymal stem cells (hFMSCs) have been shown to express more primitive developmental genes than those of human adult mesenchymal stem cells (hAMSCs), which is a preferable source for cell therapy and tissue regeneration...
2016: Stem Cell Research & Therapy
Shingo Miyauchi, David Navarro, Igor V Grigoriev, Anna Lipzen, Robert Riley, Didier Chevret, Sacha Grisel, Jean-Guy Berrin, Bernard Henrissat, Marie-Noëlle Rosso
Wood-decay fungi contain the cellular mechanisms to decompose such plant cell wall components as cellulose, hemicellulose, and lignin. A multi-omics approach to the comparative analysis of wood-decay fungi gives not only new insights into their strategies for decomposing recalcitrant plant biomass, but also an understanding of how to exploit these mechanisms for biotechnological applications. We have developed an analytical workflow, Applied Biomass Conversion Design for Efficient Fungal Green Technology (ABCDEFGT), to simplify the analysis and interpretation of transcriptomic and secretomic data...
2016: Frontiers in Microbiology
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