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https://www.readbyqxmd.com/read/28315245/multidimensional-analysis-of-protease-substrates-and-their-cellular-origins-in-mixed-secretomes-from-multiple-cell-types
#1
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
https://www.readbyqxmd.com/read/28314116/secretory-proteome-analysis-of-streptomycin-resistant-mycobacterium-tuberculosis-clinical-isolates
#2
Divakar Sharma, Deepa Bisht
Tuberculosis still remains one of the most fatal infectious diseases. Streptomycin (SM) is the drug of choice, especially for patients with multidrug-resistant tuberculosis or category II patients, because it targets the protein synthesis machinery by interacting with steps of translation. Several mechanisms have been proposed to explain the resistance, but our knowledge is inadequate. Secretome often plays an important role in pathogenesis and is considered an attractive reservoir for the development of novel diagnostic markers and targets...
March 1, 2017: SLAS Discov
https://www.readbyqxmd.com/read/28300209/localizer-subcellular-localization-prediction-of-both-plant-and-effector-proteins-in-the-plant-cell
#3
Jana Sperschneider, Ann-Maree Catanzariti, Kathleen DeBoer, Benjamin Petre, Donald M Gardiner, Karam B Singh, Peter N Dodds, Jennifer M Taylor
Pathogens secrete effector proteins and many operate inside plant cells to enable infection. Some effectors have been found to enter subcellular compartments by mimicking host targeting sequences. Although many computational methods exist to predict plant protein subcellular localization, they perform poorly for effectors. We introduce LOCALIZER for predicting plant and effector protein localization to chloroplasts, mitochondria, and nuclei. LOCALIZER shows greater prediction accuracy for chloroplast and mitochondrial targeting compared to other methods for 652 plant proteins...
March 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28297570/human-lung-spheroids-as-in-vitro-niches-of-lung-progenitor-cells-with-distinctive-paracrine-and-plasticity-properties
#4
Isotta Chimenti, Francesca Pagano, Francesco Angelini, Camilla Siciliano, Giorgio Mangino, Vittorio Picchio, Elena De Falco, Mariangela Peruzzi, Roberto Carnevale, Mohsen Ibrahim, Giuseppe Biondi-Zoccai, Elisa Messina, Giacomo Frati
Basic and translational research on lung biology has discovered multiple progenitor cell types, specialized or facultative, responsible for turnover, renewal, and repair. Isolation of populations of resident lung progenitor cells (LPCs) has been described by multiple protocols, and some have been successfully applied to healthy human lung tissue. We aimed at understanding how different cell culture conditions may affect, in vitro, the phenotype of LPCs to create an ideal niche-like microenvironment. The influence of different substrates (i...
March 2017: Stem Cells Translational Medicine
https://www.readbyqxmd.com/read/28289371/exosomes-origins-and-therapeutic-potential-for-neurodegenerative-disease
#5
REVIEW
Diana K Sarko, Cindy E McKinney
Exosomes, small lipid bilayer vesicles, are part of the transportable cell secretome that can be taken up by nearby recipient cells or can travel through the bloodstream to cells in distant organs. Selected cellular cytoplasm containing proteins, RNAs, and other macromolecules is packaged into secreted exosomes. This cargo has the potential to affect cellular function in either healthy or pathological ways. Exosomal content has been increasingly shown to assist in promoting pathways of neurodegeneration such as β-amyloid peptide (Aβ) accumulation forming amyloid plaques in the brains of patients with Alzheimer's disease, and pathological aggregates of proteins containing α-synuclein in Parkinson's disease transferred to the central nervous system via exosomes...
2017: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/28287408/nutrient-sensing-nuclear-receptors-ppar%C3%AE-and-fxr-control-liver-energy-balance
#6
Geoffrey A Preidis, Kang Ho Kim, David D Moore
The nuclear receptors PPARα (encoded by NR1C1) and farnesoid X receptor (FXR, encoded by NR1H4) are activated in the liver in the fasted and fed state, respectively. PPARα activation induces fatty acid oxidation, while FXR controls bile acid homeostasis, but both nuclear receptors also regulate numerous other metabolic pathways relevant to liver energy balance. Here we review evidence that they function coordinately to control key nutrient pathways, including fatty acid oxidation and gluconeogenesis in the fasted state and lipogenesis and glycolysis in the fed state...
March 13, 2017: Journal of Clinical Investigation
https://www.readbyqxmd.com/read/28284182/the-prediction-of-a-pathogenesis-related-secretome-of-puccinia-helianthi-through-high-throughput-transcriptome-analysis
#7
Lan Jing, Dandan Guo, Wenjie Hu, Xiaofan Niu
BACKGROUND: Many plant pathogen secretory proteins are known to be elicitors or pathogenic factors,which play an important role in the host-pathogen interaction process. Bioinformatics approaches make possible the large scale prediction and analysis of secretory proteins from the Puccinia helianthi transcriptome. The internet-based software SignalP v4.1, TargetP v1.01, Big-PI predictor, TMHMM v2.0 and ProtComp v9.0 were utilized to predict the signal peptides and the signal peptide-dependent secreted proteins among the 35,286 ORFs of the P...
March 11, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28282610/retinal-pigment-epithelium-secretome-a-diabetic-retinopathy-perspective
#8
REVIEW
Murugeswari Ponnalagu, Murali Subramani, Chaitra Jayadev, Rohit Shetty, Debashish Das
Diabetic retinopathy is a major complication of diabetes mellitus that can lead to retinal vascular abnormalities and visual impairment. While retinal endothelial pathology is well studied, retinal pigment epithelium (RPE) layer modifications and the patho-physiological regulations are not widely understood. The RPE is a highly specialized pigmented layer regulating not only physiological functions such as transport of nutrients, ions, absorption of light, phagocytosis of photoreceptor membranes, but also secretion of a number of cytokines, chemokines, angiogenic and anti-angiogenic factors...
March 7, 2017: Cytokine
https://www.readbyqxmd.com/read/28280409/paracrine-influence-of-human-perivascular-cells-on-the-proliferation-of-adenocarcinoma-alveolar-epithelial-cells
#9
Eunbi Kim, Sunghun Na, Borim An, Se-Ran Yang, Woo Jin Kim, Kwon-Soo Ha, Eun-Taek Han, Won Sun Park, Chang-Min Lee, Ji Yoon Lee, Seung-Joon Lee, Seok-Ho Hong
Understanding the crosstalk mechanisms between perivascular cells (PVCs) and cancer cells might be beneficial in preventing cancer development and metastasis. In this study, we investigated the paracrine influence of PVCs derived from human umbilical cords on the proliferation of lung adenocarcinoma epithelial cells (A549) and erythroleukemia cells (TF-1α and K562) in vitro using Transwell® co-culture systems. PVCs promoted the proliferation of A549 cells without inducing morphological changes, but had no effect on the proliferation of TF-1α and K562 cells...
March 2017: Korean Journal of Physiology & Pharmacology
https://www.readbyqxmd.com/read/28276602/multifactorial-experimental-design-to-optimize-the-anti-inflammatory-and-proangiogenic-potential-of-mesenchymal-stem-cell-spheroids
#10
Kaitlin C Murphy, Jacklyn Whitehead, Patrick C Falahee, Dejie Zhou, Scott I Simon, J Kent Leach
Mesenchymal stem cell therapies promote wound healing by manipulating the local environment to enhance the function of host cells. Aggregation of mesenchymal stem cells (MSCs) into three-dimensional spheroids increases cell survival and augments their anti-inflammatory and proangiogenic potential, yet there is no consensus on the preferred conditions for maximizing spheroid function in this application. The objective of this study was to optimize conditions for forming MSC spheroids that simultaneously enhance their anti-inflammatory and proangiogenic nature...
March 9, 2017: Stem Cells
https://www.readbyqxmd.com/read/28273155/tumor-stroma-with-senescence-associated-secretory-phenotype-in-steatohepatitic-hepatocellular-carcinoma
#11
Jee San Lee, Jeong Eun Yoo, Haeryoung Kim, Hyungjin Rhee, Myoung Ju Koh, Ji Hae Nahm, Jin Sub Choi, Kee-Ho Lee, Young Nyun Park
Senescence secretome was recently reported to promote liver cancer in an obese mouse model. Steatohepatitic hepatocellular carcinoma (SH-HCC), a new variant of HCC, has been found in metabolic syndrome patients, and pericellular fibrosis, a characteristic feature of SH-HCC, suggests that alteration of the tumor stroma might play an important role in SH-HCC development. Clinicopathological characteristics and tumor stroma showing senescence and senescence-associated secretory phenotype (SASP) were investigated in 21 SH-HCCs and 34 conventional HCCs (C-HCCs)...
2017: PloS One
https://www.readbyqxmd.com/read/28271621/first-characterization-of-human-amniotic-fluid-stem-cell-extracellular-vesicles-as-a-powerful-paracrine-tool-endowed-with-regenerative-potential
#12
Carolina Balbi, Martina Piccoli, Lucio Barile, Andrea Papait, Andrea Armirotti, Elisa Principi, Daniele Reverberi, Luisa Pascucci, Pamela Becherini, Luigi Varesio, Massimo Mogni, Domenico Coviello, Tiziano Bandiera, Michela Pozzobon, Ranieri Cancedda, Sveva Bollini
Human amniotic fluid stem cells (hAFS) have shown a distinct secretory profile and significant regenerative potential in several preclinical models of disease. Nevertheless, little is known about the detailed characterization of their secretome. Herein we show for the first time that hAFS actively release extracellular vesicles (EV) endowed with significant paracrine potential and regenerative effect. c-KIT(+) hAFS were isolated from leftover samples of amniotic fluid from prenatal screening and stimulated to enhance EV release (24 hours 20% O2 versus 1% O2 preconditioning)...
March 8, 2017: Stem Cells Translational Medicine
https://www.readbyqxmd.com/read/28270211/syndecan-1-is-a-novel-molecular-marker-for-triple-negative-inflammatory-breast-cancer-and-modulates-the-cancer-stem-cell-phenotype-via-the-il-6-stat3-notch-and-egfr-signaling-pathways
#13
Sherif Abdelaziz Ibrahim, Ramy Gadalla, Eslam A El-Ghonaimy, Omnia Samir, Hossam Taha Mohamed, Hebatallah Hassan, Burkhard Greve, Mohamed El-Shinawi, Mona Mostafa Mohamed, Martin Götte
BACKGROUND: Inflammatory breast cancer (IBC), a particularly aggressive form of breast cancer, is characterized by cancer stem cell (CSC) phenotype. Due to a lack of targeted therapies, the identification of molecular markers of IBC is of major importance. The heparan sulfate proteoglycan Syndecan-1 acts as a coreceptor for growth factors and chemokines, modulating inflammation, tumor progression, and cancer stemness, thus it may emerge as a molecular marker for IBC. METHODS: We characterized expression of Syndecan-1 and the CSC marker CD44, Notch-1 & -3 and EGFR in carcinoma tissues of triple negative IBC (n = 13) and non-IBC (n = 17) patients using qPCR and immunohistochemistry...
March 7, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28261610/cervical-cancer-cell-line-secretome-highlights-the-roles-of-transforming-growth-factor-beta-induced-protein-ig-h3-peroxiredoxin-2-and-nrf2-on-cervical-carcinogenesis
#14
Georgia Kontostathi, Jerome Zoidakis, Manousos Makridakis, Vasiliki Lygirou, George Mermelekas, Theofilos Papadopoulos, Konstantinos Vougas, Alexios Vlamis-Gardikas, Peter Drakakis, Dimitrios Loutradis, Antonia Vlahou, Nicholas P Anagnou, Kalliopi I Pappa
Cancer cells acquire unique secretome compositions that contribute to tumor development and metastasis. The aim of our study was to elucidate the biological processes involved in cervical cancer, by performing a proteomic analysis of the secretome from the following informative cervical cell lines: SiHa (HPV16+), HeLa (HPV18+), C33A (HPV-), and HCK1T (normal). Proteins were analyzed by 2D gel electrophoresis coupled to MALDI-TOF-MS. Enrichment of secreted proteins with characteristic profiles for each cell line was followed by the identification of differentially expressed proteins...
2017: BioMed Research International
https://www.readbyqxmd.com/read/28259681/stem-cell-laden-hyaluronic-acid-based-spongy-like-hydrogels-for-an-integrated-healing-of-diabetic-wounds-pathophysiologies
#15
Lucília Pereira da Silva, Tírcia Carlos Santos, Daniel Barreira Rodrigues, Rogério Pedro Pirraco, Mariana Teixeira Cerqueira, Rui Luís Reis, Vitor Manuel Correlo, Alexandra Pinto Marques
The correlation between the pathophysiologies of diabetic foot ulcerations is yet to be established and improved treatments are still required. We propose a strategy that directs inflammation, neo-vascularization and neo-innervation of diabetic wounds. Aiming to potentiate a relevant secretome for nerve regeneration, stem cells were pre-cultured in hyaluronic acid-based spongy-like hydrogels under neurogenic/standard media prior transplantation into diabetic mice full-thickness wounds. Acellular spongy-like hydrogels and empty wounds were used as controls...
March 1, 2017: Journal of Investigative Dermatology
https://www.readbyqxmd.com/read/28258195/systematic-analysis-of-cell-type-differences-in-the-epithelial-secretome-reveals-insights-into-the-pathogenesis-of-respiratory-syncytial-virus-induced-lower-respiratory-tract-infections
#16
Yingxin Zhao, Mohammad Jamaluddin, Yueqing Zhang, Hong Sun, Teodora Ivanciuc, Roberto P Garofalo, Allan R Brasier
Lower respiratory tract infections from respiratory syncytial virus (RSV) are due, in part, to secreted signals from lower airway cells that modify the immune response and trigger airway remodeling. To understand this process, we applied an unbiased quantitative proteomics analysis of the RSV-induced epithelial secretory response in cells representative of the trachea versus small airway bronchiolar cells. A workflow was established using telomerase-immortalized human epithelial cells that revealed highly reproducible cell type-specific differences in secreted proteins and nanoparticles (exosomes)...
March 3, 2017: Journal of Immunology: Official Journal of the American Association of Immunologists
https://www.readbyqxmd.com/read/28256805/targeted-label-free-quantification-of-interleukin-8-in-pma-activated-u937-cell-secretome-by-nanolc-esi-ms-ms-ssrm
#17
Pelin Esma Emirbayer, Kerstin F Gerer, Stefanie Hoyer, Monika Pischetsrieder
Monocytes are a part of the innate immune system. Their differentiation into macrophages changes their cellular proteome and secretome. Particularly secretome components such as cytokines are crucial for immune response and inflammation in many diseases. Differentiation of human lymphoma cell line U937 can be triggered by phorbol 12-myristate 13-acetate (PMA). Screening of the cytokine release in U937 upon PMA stimulation by cytometric bead array almost exclusively showed interleukin-8. Next, a label-free nanoLC-ESI-MS/MS-sSRM method for quantification of interleukin-8 in the cell secretome was established and applied to monitor the time kinetics of PMA treatment in different concentrations...
March 3, 2017: Proteomics
https://www.readbyqxmd.com/read/28254793/young-hearts-run-free-therapeutic-potential-of-neonatal-human-cardiac-progenitor-cells-secretome
#18
EDITORIAL
Venkata Naga Srikanth Garikipati, Raj Kishore
No abstract text is available yet for this article.
March 3, 2017: Circulation Research
https://www.readbyqxmd.com/read/28252646/porphyromonas-gingivalis-gingipains-cause-defective-macrophage-migration-towards-apoptotic-cells-and-inhibit-phagocytosis-of-primary-apoptotic-neutrophils
#19
Sowmya A Castro, Russell Collighan, Peter A Lambert, Irundika Hk Dias, Parbata Chauhan, Charlotte E Bland, Ivana Milic, Michael R Milward, Paul R Cooper, Andrew Devitt
Periodontal disease is a prevalent chronic inflammatory condition characterised by an aberrant host response to a pathogenic plaque biofilm resulting in local tissue damage and frustrated healing that can result in tooth loss. Cysteine proteases (gingipains) from the key periodontal pathogen Porphyromonas gingivalis have been implicated in periodontal disease pathogenesis by inhibiting inflammation resolution and are linked with systemic chronic inflammatory conditions such as rheumatoid arthritis. Efficient clearance of apoptotic cells is essential for the resolution of inflammation and tissue restoration...
March 2, 2017: Cell Death & Disease
https://www.readbyqxmd.com/read/28248570/the-diacetyl-exposed-human-airway-epithelial-secretome-new-insights-into-flavoring-induced-airways-disease
#20
David M Brass, William M Gwinn, Ashlee M Valente, Francine L Kelly, Christie D Brinkley, Andrew E Nagler, M Arthur Moseley, Daniel L Morgan, Scott M Palmer, Matthew W Foster
Bronchiolitis obliterans (BO) is an increasingly important lung disease characterized by fibroproliferative airway lesions and decrements in lung function. Occupational exposure to the artificial food flavoring ingredient diacetyl, commonly used to impart a buttery flavor to microwave popcorn, has been associated with BO development. In the occupational setting, diacetyl vapor is first encountered by the airway epithelium. To better understand the effects of diacetyl vapor on the airway epithelium we used an unbiased proteomic approach to characterize both the apical and basolateral secretomes of air liquid interface cultures of primary human airway epithelial cells from four unique donors after exposure to an occupationally relevant ~1100 ppm of diacetyl vapor or PBS as a control on alternating days...
March 1, 2017: American Journal of Respiratory Cell and Molecular Biology
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