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secretome analysis

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https://www.readbyqxmd.com/read/28223967/secretome-prediction-of-two-m-tuberculosis-clinical-isolates-reveals-their-high-antigenic-density-and-potential-drug-targets
#1
Fernanda Cornejo-Granados, Zyanya L Zatarain-Barrón, Vito A Cantu-Robles, Alfredo Mendoza-Vargas, Camilo Molina-Romero, Filiberto Sánchez, Luis Del Pozo-Yauner, Rogelio Hernández-Pando, Adrián Ochoa-Leyva
The Excreted/Secreted (ES) proteins play important roles during Mycobacterium tuberculosis invasion, virulence, and survival inside the host and they are a major source of immunogenic proteins. However, the molecular complexity of the bacillus cell wall has made difficult the experimental isolation of the total bacterial ES proteins. Here, we reported the genomes of two Beijing genotype M. tuberculosis clinical isolates obtained from patients from Vietnam (isolate 46) and South Africa (isolate 48). We developed a bioinformatics pipeline to predict their secretomes and observed that ~12% of the genome-encoded proteins are ES, being PE, PE-PGRS, and PPE the most abundant protein domains...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28223221/the-atheroma-plaque-secretome-stimulates-the-mobilization-of-endothelial-progenitor-cells-ex-vivo
#2
Francisco M Vega, Violette Gautier, Cecilia M Fernandez-Ponce, Mª Jesús Extremera, A F Maarten Altelaar, Jaime Millan, Juan C Tellez, Jose A Hernandez-Campos, Rosario Conejero, Jorge Bolivar, Ricardo Pardal, Francisco J Garcia-Cózar, Enrique Aguado, Albert J R Heck, Mª Carmen Duran-Ruiz
Endothelial progenitor cells (EPCs) constitute a promising alternative in cardiovascular regenerative medicine due to their assigned role in angiogenesis and vascular repair. In response to injury, EPCs promote vascular remodeling by replacement of damaged endothelial cells and/or by secreting angiogenic factors over the damaged tissue. Nevertheless, such mechanisms need to be further characterized. In the current approach we have evaluated the initial response of early EPCs (eEPCs) from healthy individuals after direct contact with the factors released by carotid arteries complicated with atherosclerotic plaques (AP), in order to understand the mechanisms underlying the neovascularization and remodeling properties assigned to these cells...
February 18, 2017: Journal of Molecular and Cellular Cardiology
https://www.readbyqxmd.com/read/28215348/in%C3%A2-vitro-secretomic-analysis-identifies-putative-pathogenicity-related-proteins-of-sporisorium-scitamineum-the-sugarcane-smut-fungus
#3
Leonard Barnabas, N M R Ashwin, Kalimuthu Kaverinathan, Anna Rita Trentin, Micaela Pivato, Amalraj Ramesh Sundar, Palaniyandi Malathi, Rasappa Viswanathan, Paolo Carletti, Giorgio Arrigoni, Antonio Masi, Ganesh Kumar Agrawal, Randeep Rakwal
Sporisorium scitamineum, the sugarcane smut pathogen, relies predominantly on its secretome to successfully colonise its host, in accordance with other related smut fungi. Considering the significance of deciphering its secretome, we have examined alterations in the in vitro secretome of S. scitamineum in response to synthetic and sugarcane meristem tissue-amended growth media, so as to identify host signal responsive secretory proteins. Secretory proteins that were differentially abundant and exclusively secreted in response to host extract media were identified by two-dimensional gel electrophoresis coupled with MALDI-TOF/TOF MS...
March 2017: Fungal Biology
https://www.readbyqxmd.com/read/28209124/rna-seq-and-metabolomic-analyses-of-akt1-mediated-muscle-growth-reveals-regulation-of-regenerative-pathways-and-changes-in-the-muscle-secretome
#4
Chia-Ling Wu, Yoshinori Satomi, Kenneth Walsh
BACKGROUND: Skeletal muscle is a major regulator of systemic metabolism as it serves as the major site for glucose disposal and the main reservoir for amino acids. With aging, cachexia, starvation, and myositis, there is a preferential loss of fast glycolytic muscle fibers. We previously reported a mouse model in which a constitutively-active Akt transgene is induced to express in a subset of muscle groups leading to the hypertrophy of type IIb myofibers with an accompanying increase in strength...
February 16, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28202731/microfluidic-droplet-platform-for-ultrahigh-throughput-single-cell-screening-of-biodiversity
#5
Stanislav S Terekhov, Ivan V Smirnov, Anastasiya V Stepanova, Tatyana V Bobik, Yuliana A Mokrushina, Natalia A Ponomarenko, Alexey A Belogurov, Maria P Rubtsova, Olga V Kartseva, Marina O Gomzikova, Alexey A Moskovtsev, Anton S Bukatin, Michael V Dubina, Elena S Kostryukova, Vladislav V Babenko, Maria T Vakhitova, Alexander I Manolov, Maja V Malakhova, Maria A Kornienko, Alexander V Tyakht, Anna A Vanyushkina, Elena N Ilina, Patrick Masson, Alexander G Gabibov, Sidney Altman
Ultrahigh-throughput screening (uHTS) techniques can identify unique functionality from millions of variants. To mimic the natural selection mechanisms that occur by compartmentalization in vivo, we developed a technique based on single-cell encapsulation in droplets of a monodisperse microfluidic double water-in-oil-in-water emulsion (MDE). Biocompatible MDE enables in-droplet cultivation of different living species. The combination of droplet-generating machinery with FACS followed by next-generation sequencing and liquid chromatography-mass spectrometry analysis of the secretomes of encapsulated organisms yielded detailed genotype/phenotype descriptions...
February 15, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28191785/impact-of-the-secretome-of-human-mesenchymal-stem-cells-on-brain-structure-and-animal-behavior-in-a-rat-model-of-parkinson-s-disease
#6
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...
February 2017: Stem Cells Translational Medicine
https://www.readbyqxmd.com/read/28188790/the-role-of-elk3-to-regulate-peritumoral-lymphangiogenesis-and-vegf-c-production-in-triple-negative-breast-cancer-cells
#7
Nuri Oh, Ji-In Park, Ji-Hoon Park, Kwang-Soo Kim, Dong Ryul Lee, Kyung-Soon Park
Tumor-induced lymphangiogenesis, a major conduit for cancer cell dissemination from the primary tumor site to lymph nodes and beyond, eventually leads to metastasis in cancer patients. Given the recent evidence revealing that the suppression of ELK3 inhibits the metastasis of triple-negative breast cancer cells, we aimed to study the underlying mechanism of impaired metastasis in ELK3-suppressed MDA-MB-231 cells (ELK3 KD) with regard to lymphangiogenesis. We found that the secretome of ELK3 KD cells inhibited tube formation, whereas it promoted the migration and invasion of lymphatic endothelial cells (LECs) in vitro...
February 8, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28187376/genome-wide-analysis-of-excretory-secretory-proteins-in-root-knot-nematode-meloidogyne-incognita-provides-potential-targets-for-parasite-control
#8
Shachi Gahoi, Budhayash Gautam
The root-knot nematode, Meloidogyne incognita causes significant damage to various economically important crops. Infection is associated with secretion of effector proteins into host cytoplasm and interference with host innate immunity. To combat this infection, the identification and functional annotations of Excretory/Secretory (ES) proteins serve as a key to produce durable control measures. The identification of ES proteins through experimental methods are expensive and time consuming while bioinformatics approaches are cost-effective by prioritizing the experimental analysis of potential drug targets for parasitic diseases...
February 1, 2017: Computational Biology and Chemistry
https://www.readbyqxmd.com/read/28146372/the-isolation-of-morphologically-intact-and-biologically-active-extracellular-vesicles-from-the-secretome-of-cancer-associated-adipose-tissue
#9
Sarah Jeurissen, Glenn Vergauwen, Jan Van Deun, Lore Lapeire, Victoria Depoorter, Ilkka Miinalainen, Raija Sormunen, Rudy Van den Broecke, Geert Braems, Véronique Cocquyt, Hannelore Denys, An Hendrix
Breast cancer cells closely interact with different cell types of the surrounding adipose tissue to favor invasive growth and metastasis. Extracellular vesicles (EVs) are nanometer-sized vesicles secreted by different cell types that shuttle proteins and nucleic acids to establish cell-cell communication. To study the role of EVs released by cancer-associated adipose tissue in breast cancer progression and metastasis a standardized EV isolation protocol that obtains pure EVs and maintains their functional characteristics is required...
February 1, 2017: Cell Adhesion & Migration
https://www.readbyqxmd.com/read/28130068/genomic-proteomic-and-biochemical-analysis-of-the-chitinolytic-machinery-of-serratia-marcescens-bjl200
#10
Tina R Tuveng, Live Heldal Hagen, Sophanit Mekasha, Jeremy Frank, Magnus Øverlie Arntzen, Gustav Vaaje-Kolstad, Vincent G H Eijsink
The chitinolytic machinery of Serratia marcescens BJL200 has been studied in detail over the last couple of decades, however, the proteome secreted by this Gram-negative bacterium during growth on chitin has not been studied in depth. In addition, the genome of this most studied chitinolytic Serratia strain has until now, not been sequenced. We report a draft genome sequence for S. marcescens BJL200. Using label-free quantification (LFQ) proteomics and a recently developed plate-method for assessing secretomes during growth on solid substrates, we find that, as expected, the chitin-active enzymes (ChiA, B, C, and CBP21) are produced in high amounts when the bacterium grows on chitin...
January 24, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28112754/gdm-alters-paracrine-regulation-of-feto-placental-angiogenesis-via-the-trophoblast
#11
Jelena Loegl, Erika Nussbaumer, Silvija Cvitic, Berthold Huppertz, Gernot Desoye, Ursula Hiden
Feto-placental angiogenesis and vascular development are tightly regulated by pro- and anti-angiogenic factors. Villous trophoblast may be a major source of these factors. It forms the classical placental barrier between mother and fetus, and is thus exposed to maternal influences as well. Metabolic and hormonal derangements in gestational diabetes mellitus (GDM) affect feto-placental angiogenesis and vascular growth. Here we hypothesized that GDM alters the trophoblast secretome, which will modulate the paracrine regulation of feto-placental angiogenesis...
January 23, 2017: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://www.readbyqxmd.com/read/28102936/unbiased-and-quantitative-proteomics-reveals-highly-increased-angiogenesis-induction-by-the-secretome-of-mesenchymal-stromal-cells-isolated-from-fetal-rather-than-adult-skin
#12
Massimiliano Gaetani, Cinzia Maria Chinnici, Anna Paola Carreca, Claudia Di Pasquale, Giandomenico Amico, Pier Giulio Conaldi
Scarless wound healing and functional regeneration are typical processes of the fetus, gradually lost during post-natal life, and maximally attributed to fetal skin tissue and induced by fetal skin fibroblasts. The latter have been successfully applied to post-natal wounds, with clear advantages compared with autologous dermis grafts or adult fibroblast applications. Our goal was to functionally identify and uncover key factors and mechanisms through the analysis of secretomes, the principal players in all cell therapies based on mesenchymal stromal cells (MSCs)...
January 19, 2017: Journal of Tissue Engineering and Regenerative Medicine
https://www.readbyqxmd.com/read/28087649/identification-of-unique-essential-proteins-from-a-m-tuberculosis-f15-lam4-kzn-phage-secretome-library
#13
Thamsanqa Emmanuel Chiliza, Manormoney Pillay, Balakrishna Pillay
Mycobacterium tuberculosis (Mtb) is the causative agent of tuberculosis disease (TB), the leading cause of death from bacterial infection worldwide. Although treatable, the resurgence of multi- and extensively-drug resistance TB is a major setback for the fight against TB globally. Consequently, there is an urgent need for new Mtb derived biomarkers for use in the design of new drugs and rapid point-of-care diagnostic or prognostic tools for management of TB transmission. Therefore, the present study aimed to identify unique Mtb secreted proteins from the extensively drug resistant Mtb F15/LAM4/KZN phage secretome library...
January 12, 2017: Pathogens and Disease
https://www.readbyqxmd.com/read/28070933/secretome-analysis-of-diarrhea-inducing-strains-of-escherichia-coli
#14
Raja Sekhar Nirujogi, Babylakshmi Muthusamy, Min-Sik Kim, Gajanan J Sathe, P T V Lakshmi, Olga N Kovbasnjuk, T S Keshava Prasad, Mary Wade, Rabih E Jabbour
Secreted proteins constitute a major part of virulence factors that are responsible for pathogenesis caused by gram negative bacteria. Enterohemorrhagic Escherichia coli (E. coli), EHEC O157:H7 is the major pathogen often causing outbreaks. However, studies have reported that the significant outbreaks caused by non O157:H7 E. coli strains, also known as "Big-Six" serogroup strains are increasing. There is no systematic study describing differential secreted proteins from these non-O157:H7 E. coli strains. In this study, we carried out mass spectrometry-based differential secretome analysis using tandem mass tags labeling strategy of non-O157:H7 E...
January 9, 2017: Proteomics
https://www.readbyqxmd.com/read/28063828/genome-wide-computational-analysis-of-the-secretome-of-brown-algae-phaeophyceae
#15
Makoto Terauchi, Takahiro Yamagishi, Takeaki Hanyuda, Hiroshi Kawai
Brown algae have evolved complex multicellularity in the heterokont lineage. They are phylogenetically distant to land plants, fungi and animals. Especially, the members of Laminariales (so-called kelps) have developed highly differentiated tissues. Extracellular matrix (ECM) plays pivotal roles in a number of essential processes in multicellular organisms, such as cell adhesion, cell and tissue differentiations, cell-to-cell communication, and responses to environmental stimuli. In these processes, a set of extracellular secreted proteins called the secretome operates remodeling of the physicochemical nature of ECM and signal transduction by interacting with cell surface proteins and signaling molecules...
January 4, 2017: Marine Genomics
https://www.readbyqxmd.com/read/28060763/comparison-of-the-tumor-cell-secretome-and-patient-sera-for-an-accurate-serum-based-diagnosis-of-pancreatic-ductal-adenocarcinoma
#16
Shakhawan Mustafa, Longqiang Pan, Aseel Marzoq, Malak Fawaz, Laureen Sander, Felix Rückert, Andrea Schrenk, Christina Hartl, Rico Uhler, Adem Yildirim, Oliver Strobel, Thilo Hackert, Nathalia Giese, Markus W Büchler, Jörg D Hoheisel, Mohamed Saiel Saeed Alhamdani
Pancreatic cancer is the currently most lethal malignancy. Toward an accurate diagnosis of the disease in body liquids, we studied the protein composition of the secretomes of 16 primary and established cell lines of pancreatic ductal adenocarcinoma (PDAC). Compared to the secretome of non-tumorous cells, 112 proteins exhibited significantly different abundances. Functionally, the proteins were associated with PDAC features, such as decreased apoptosis, better cell survival and immune cell regulation. The result was compared to profiles obtained from 164 serum samples from two independent cohorts - a training and a test set - of patients with PDAC or chronic pancreatitis and healthy donors...
January 2, 2017: Oncotarget
https://www.readbyqxmd.com/read/28053006/co-option-and-de-novo-gene-evolution-underlie-molluscan-shell-diversity
#17
Felipe Aguilera, Carmel McDougall, Bernard M Degnan
Molluscs fabricate shells of incredible diversity and complexity by localized secretions from the dorsal epithelium of the mantle. Although distantly-related molluscs express remarkably different secreted gene products, it remains unclear if the evolution of shell structure and pattern is underpinned by the differential co-option of conserved genes or the integration of lineage-specific genes into the mantle regulatory program. To address this, we compare the mantle transcriptomes of 11 bivalves and gastropods of varying relatedness...
January 4, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28035653/non-classical-monocytes-levels-increased-by-subcutaneous-fat-secretome-are-associated-with-less-rehospitalization-after-heart-failure-admission
#18
Sonia Eiras, Alfonso Varela-Román, Mariléia Cháves Andrade, Ana Castro, Rocío González-Ferreiro, Juan E Viñuela, Ángel Fernández-Trasancos, Marcos C Carreira, Ezequiel Álvarez, Felipe F Casanueva, José R González-Juanatey
Differential monocyte subsets are increased in obesity and heart failure (HF). We studied their role as predictors of rehospitalization for HF and their regulation by adipose tissue. Monocyte subsets and body fat composition were determined from 136 patients at the discharge after HF admission. Regulation of monocytes by SAT secretomes from obese/non-obese patients with HF was studied in a cell culture method. Proteomic analysis of secretome SAT was performed by LC-MALDI TOF/TOF. High CD14(-)CD16(+) monocyte levels indicated less rehospitalization for HF (p = 0...
December 29, 2016: Journal of Cardiovascular Translational Research
https://www.readbyqxmd.com/read/28010772/characterization-of-clostridium-thermocellum-b8-secretome-and-purified-cellulosomes-for-lignocellulosic-biomass-degradation
#19
Karen O Osiro, Brenda R de Camargo, Rachel Satomi, Pedro Ricardo V Hamann, Jéssica Pinheiro Silva, Marcelo Valle de Sousa, Betania F Quirino, Elaine N Aquino, Carlos R Felix, André Melro Murad, Eliane F Noronha
The main goal of the present study was a complete proteomic characterization of total proteins eluted from residual substrate-bound proteins (RSBP), and cellulosomes secreted by Clostridium thermocellum B8 during growth in the presence of microcrystalline cellulose as a carbon source. The second goal was to evaluate their potential use as enzymatic blends for hydrolyzing agro-industrial residues to produce fermentable sugars. Protein identification through LC-MS/MS mass spectrometry showed that the RSBP sample, in addition to cellulosomal proteins, contains a wide variety of proteins, including those without a well-characterized role in plant cell wall degradation...
February 2017: Enzyme and Microbial Technology
https://www.readbyqxmd.com/read/28003119/secretomes-of-mycoplasma-hyopneumoniae-and-mycoplasma-flocculare-reveal-differences-associated-to-pathogenesis
#20
Jéssica A Paes, Karina R Lorenzatto, Sofia N de Moraes, Hercules Moura, John R Barr, Henrique B Ferreira
: Mycoplasma hyopneumoniae and Mycoplasma flocculare cohabit the porcine respiratory tract. However, M. hyopneumoniae causes the porcine enzootic pneumonia, while M. flocculare is a commensal bacterium. Comparative analyses demonstrated high similarity between these species, which includes the sharing of all predicted virulence factors. Nevertheless, studies related to soluble secretomes of mycoplasmas were little known, although they are important for bacterial-host interactions. The aim of this study was to perform a comparative analysis between the soluble secreted proteins repertoires of the pathogenic Mycoplasma hyopneumoniae and its closely related commensal Mycoplasma flocculare...
February 10, 2017: Journal of Proteomics
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