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Journal articles on the topic 'ECM proteiny'

Author: Grafiati

Published: 28 June 2021

Last updated: 29 July 2025

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1

Liu, Binghui, Ling Leng, Xuer Sun, Yunfang Wang, Jie Ma, and Yunping Zhu. "ECMPride: prediction of human extracellular matrix proteins based on the ideal dataset using hybrid features with domain evidence." PeerJ 8 (April 29, 2020): e9066. http://dx.doi.org/10.7717/peerj.9066.

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Extracellular matrix (ECM) proteins play an essential role in various biological processes in multicellular organisms, and their abnormal regulation can lead to many diseases. For large-scale ECM protein identification, especially through proteomic-based techniques, a theoretical reference database of ECM proteins is required. In this study, based on the experimentally verified ECM datasets and by the integration of protein domain features and a machine learning model, we developed ECMPride, a flexible and scalable tool for predicting ECM proteins. ECMPride achieved excellent performance in pr

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2

Papadimitriou, E., V. G. Manolopoulos, G. T. Hayman, et al. "Thrombin modulates vectorial secretion of extracellular matrix proteins in cultured endothelial cells." American Journal of Physiology-Cell Physiology 272, no. 4 (1997): C1112—C1122. http://dx.doi.org/10.1152/ajpcell.1997.272.4.c1112.

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We have identified a novel cellular action of thrombin on cultured rat adrenal medullary endothelial cells (RAMEC). Five-minute incubation of RAMEC with physiological concentrations of thrombin (<1 U/ml) caused within 3 h an increase in the basolateral deposition of the extracellular matrix (ECM) proteins fibronectin, laminin, and collagens IV and I, concomitant with a corresponding decrease in the apical release of these proteins into the medium. This shift in vectorial secretion of ECM proteins, quantitated with enzyme-linked immunoassays, was time dependent. Maximal stimulation of ECM pr

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3

El-Nakhel, Christophe, Eugenio Cozzolino, Lucia Ottaiano, et al. "Effect of Biostimulant Application on Plant Growth, Chlorophylls and Hydrophilic Antioxidant Activity of Spinach (Spinacia oleracea L.) Grown under Saline Stress." Horticulturae 8, no. 10 (2022): 971. http://dx.doi.org/10.3390/horticulturae8100971.

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Irrigated agricultural lands are prone to salinity problems which may imperil horticultural crops by reducing growth, yield and even qualitative traits. Eco-friendly approaches such as biostimulant application and in particular protein hydrolysates from vegetal origin are implemented to mitigate salinity stress effects on crops. For this reason, a greenhouse experiment on spinach irrigated with increasing concentrations of saline water (EC = 3 dS m−1 (EC3), 6 dS m−1 (EC6) and 9 dS m−1 (EC9), in addition to non-saline treatment (EC0)) was organized, while plants were subjected to foliar applica

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Rende, Umut, Seong Beom Ahn, Subash Adhikari, et al. "Deciphering the Kidney Matrisome: Identification and Quantification of Renal Extracellular Matrix Proteins in Healthy Mice." International Journal of Molecular Sciences 24, no. 3 (2023): 2827. http://dx.doi.org/10.3390/ijms24032827.

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Precise characterization of a tissue’s extracellular matrix (ECM) protein composition (matrisome) is essential for biomedicine. However, ECM protein extraction that requires organ-specific optimization is still a major limiting factor in matrisome studies. In particular, the matrisome of mouse kidneys is still understudied, despite mouse models being crucial for renal research. Here, we comprehensively characterized the matrisome of kidneys in healthy C57BL/6 mice using two ECM extraction methods in combination with liquid chromatography tandem mass spectrometry (LC-MS/MS), protein identificat

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Liem, David A., Sanjana Murali, Dibakar Sigdel, et al. "Phrase mining of textual data to analyze extracellular matrix protein patterns across cardiovascular disease." American Journal of Physiology-Heart and Circulatory Physiology 315, no. 4 (2018): H910—H924. http://dx.doi.org/10.1152/ajpheart.00175.2018.

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Extracellular matrix (ECM) proteins have been shown to play important roles regulating multiple biological processes in an array of organ systems, including the cardiovascular system. Using a novel bioinformatics text-mining tool, we studied six categories of cardiovascular disease (CVD), namely, ischemic heart disease, cardiomyopathies, cerebrovascular accident, congenital heart disease, arrhythmias, and valve disease, anticipating novel ECM protein-disease and protein-protein relationships hidden within vast quantities of textual data. We conducted a phrase-mining analysis, delineating the r

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Di Mola, Ida, Stefano Conti, Eugenio Cozzolino, et al. "Plant-Based Protein Hydrolysate Improves Salinity Tolerance in Hemp: Agronomical and Physiological Aspects." Agronomy 11, no. 2 (2021): 342. http://dx.doi.org/10.3390/agronomy11020342.

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Hemp (Cannabis sativa L.) is a multipurpose plant attracting increasing interest as a source for the production of natural fibers, paper, bio-building material and food. In this research we studied the agronomical performance of Cannabis sativa cv. Eletta Campana irrigated with saline water. Under those conditions, we tested the effect of protein hydrolysate (PH) biostimulant application in overcoming and/or balancing deleterious salinity effects. The results of the diverse treatments were also investigated at the physiological level, focusing on photosynthesis by means of a chlorophyll a fluo

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Hoke, David E., Suhelen Egan, Paul A. Cullen, and Ben Adler. "LipL32 Is an Extracellular Matrix-Interacting Protein of Leptospira spp. and Pseudoalteromonas tunicata." Infection and Immunity 76, no. 5 (2008): 2063–69. http://dx.doi.org/10.1128/iai.01643-07.

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ABSTRACT LipL32 is the major outer membrane protein in pathogenic Leptospira. It is highly conserved throughout pathogenic species and is expressed in vivo during human infection. While these data suggest a role in pathogenesis, a function for LipL32 has not been defined. Outer membrane proteins of gram-negative bacteria are the first line of molecular interaction with the host, and many have been shown to bind host extracellular matrix (ECM). A search for leptospiral ECM-interacting proteins identified the major outer membrane protein, LipL32. To verify this finding, recombinant LipL32 was ex

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Vallet, Sylvain D., Martin N. Davis, Anna Barqué, Ali H. Thahab, Sylvie Ricard-Blum, and Alexandra Naba. "Computational and experimental characterization of the novel ECM glycoprotein SNED1 and prediction of its interactome." Biochemical Journal 478, no. 7 (2021): 1413–34. http://dx.doi.org/10.1042/bcj20200675.

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The extracellular matrix (ECM) is a complex meshwork of proteins and an essential component of multicellular life. We have recently reported the characterization of a novel ECM protein, SNED1, and showed that it promotes breast cancer metastasis and regulates craniofacial development. However, the mechanisms by which it does so remain unknown. ECM proteins exert their functions by binding to cell surface receptors and interacting with other ECM proteins, actions that we can predict using knowledge of protein's sequence, structure, and post-translational modifications. Here, we combined in-sili

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Chan, Gek Cher, Diana G. Eng, Jeffrey H. Miner, et al. "Differential expression of parietal epithelial cell and podocyte extracellular matrix proteins in focal segmental glomerulosclerosis and diabetic nephropathy." American Journal of Physiology-Renal Physiology 317, no. 6 (2019): F1680—F1694. http://dx.doi.org/10.1152/ajprenal.00266.2019.

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In healthy glomeruli, parietal epithelial cell (PEC)-derived extracellular matrix (ECM) proteins include laminin-β1, perlecan, and collagen type IV-α2 and podocyte-specific ECM proteins include laminin-β2, agrin, and collagen type IV-α4. This study aimed to define individual ECM protein isoform expression by PECs in both experimental and human focal segmental glomerulosclerosis (FSGS) and diabetic nephropathy (DN) and to determine if changes were CD44 dependent. In experimental FSGS induced with a cytotoxic podocyte antibody and in the BTBR ob/ob mouse model of DN, PEC-derived protein staining

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Lipp, Sarah N., Kathryn R. Jacobson, David S. Hains, Andrew L. Schwarderer, and Sarah Calve. "3D Mapping Reveals a Complex and Transient Interstitial Matrix During Murine Kidney Development." Journal of the American Society of Nephrology 32, no. 7 (2021): 1649–65. http://dx.doi.org/10.1681/asn.2020081204.

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BackgroundThe extracellular matrix (ECM) is a network of proteins and glycosaminoglycans that provides structural and biochemical cues to cells. In the kidney, the ECM is critical for nephrogenesis; however, the dynamics of ECM composition and how it relates to 3D structure during development is unknown.MethodsUsing embryonic day 14.5 (E14.5), E18.5, postnatal day 3 (P3), and adult kidneys, we fractionated proteins based on differential solubilities, performed liquid chromatography–tandem mass spectrometry, and identified changes in ECM protein content (matrisome). Decellularized kidneys were

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Ghanemi, Abdelaziz, Mayumi Yoshioka, and Jonny St-Amand. "Secreted Protein Acidic and Rich in Cysteine: Metabolic and Homeostatic Properties beyond the Extracellular Matrix Structure." Applied Sciences 10, no. 7 (2020): 2388. http://dx.doi.org/10.3390/app10072388.

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An extracellular matrix (ECM) is a network of numerous macromolecules that represents the cellular structural support involved in key biofunctions such as signal transduction and cellular adhesion. In addition, ECM-associated proteins interact with ECM and with other endogenous structures and molecules to control cellular growth, structural modifications, cellular migration, etc. Among the ECM-associated proteins, secreted protein acidic and rich in cysteine (SPARC) is a protein that is known to be expressed when tissues change. Herein, we put a spotlight on selected, metabolic and homeostatic

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Curtis, Patrick D., James Atwood, Ron Orlando, and Lawrence J. Shimkets. "Proteins Associated with the Myxococcus xanthus Extracellular Matrix." Journal of Bacteriology 189, no. 21 (2007): 7634–42. http://dx.doi.org/10.1128/jb.01007-07.

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ABSTRACT Fruiting body formation of Myxococcus xanthus, like biofilm formation of many other organisms, involves the production of an extracellular matrix (ECM). While the polysaccharide component has been studied, the protein component has been largely unexplored. Proteins associated with the ECM were solubilized from purified ECM by boiling with sodium dodecyl sulfate and were identified by liquid chromatography-tandem mass spectrometry of tryptic fragments. The ECM is enriched in proteins of novel function; putative functions were assigned for only 5 of the 21 proteins. Thirteen putative EC

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Chakraborty, Abir, and Adrienne Lesley Edkins. "HSP90 as a regulator of extracellular matrix dynamics." Biochemical Society Transactions 49, no. 6 (2021): 2611–25. http://dx.doi.org/10.1042/bst20210374.

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The extracellular matrix (ECM) is a dynamic and organised extracellular network assembled from proteins and carbohydrates exported from the cell. The ECM is critical for multicellular life, providing spatial and temporal cellular cues to maintain tissue homeostasis. Consequently, ECM production must be carefully balanced with turnover to ensure homeostasis; ECM dysfunction culminates in disease. Hsp90 is a molecular chaperone central to protein homeostasis, including in the ECM. Intracellular and extracellular Hsp90 isoforms collaborate to regulate the levels and status of proteins in the ECM

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Nath, Abhigyan, Sudama Rathore, and Pangambam Sendash Singh. "Exploiting ensemble learning and negative sample space for predicting extracellular matrix receptor interactions." Mathematical Biology and Bioinformatics 18, no. 1 (2023): 113–27. http://dx.doi.org/10.17537/2023.18.113.

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The extracellular matrix (ECM) is best described as a dynamic three-dimensional mesh of various macromolecules. These include proteoglycans (e.g., perlecan andagrin), non-proteoglycan polysaccharides (e.g., hyaluronan), and fibrous proteins (e.g., collagen, elastin, fibronectin, and laminin). ECM proteins are involved in various biological functions and their functionality is largely governed by interaction with other ECM proteins as well as trans-membrane receptors including integrins, proteoglycans such assyndecan, other glycoproteins, and members of the immunoglobulin superfamily. In the pr

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Yamamoto, H., Y. Shibata, and T. Miyazaki. "Anode Glow Discharge Plasma Treatment of Titanium Plates Facilitates Adsorption of Extracellular Matrix Proteins to the Plates." Journal of Dental Research 84, no. 7 (2005): 668–71. http://dx.doi.org/10.1177/154405910508400717.

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Glow discharge plasma (GDP) supplied to an anode (GDP+) promotes calcium phosphate adsorption onto titanium better than that supplied to a cathode (GDP-). However, the adsorption of extracellular matrix (ECM) proteins is crucial for cell adhesion to titanium. Since GDP+ induced both inorganic adsorption and cell adhesion, we hypothesized that the inorganic adsorption in a culture medium might affect the adsorption of the ECM proteins. In this study, ECM proteins adsorbed on titanium with and without GDP were examined by x-ray photoelectron spectroscopy. After 1 hr of incubation, increasing sod

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Jamaluddin, M. Fairuz B., Yi-An Ko, Manish Kumar, et al. "Proteomic Profiling of Human Uterine Fibroids Reveals Upregulation of the Extracellular Matrix Protein Periostin." Endocrinology 159, no. 2 (2017): 1106–18. http://dx.doi.org/10.1210/en.2017-03018.

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Abstract The central characteristic of uterine fibroids is excessive deposition of extracellular matrix (ECM), which contributes to fibroid growth and bulk-type symptoms. Despite this, very little is known about patterns of ECM protein expression in fibroids and whether these are influenced by the most common genetic anomalies, which relate to MED12. We performed extensive genetic and proteomic analyses of clinically annotated fibroids and adjacent normal myometrium to identify the composition and expression patterns of ECM proteins in MED12 mutation–positive and mutation–negative uterine fibr

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Pokhilko, Alexandra, Gaia Brezzo, Lahiru Handunnetthi, et al. "Global proteomic analysis of extracellular matrix in mouse and human brain highlights relevance to cerebrovascular disease." Journal of Cerebral Blood Flow & Metabolism 41, no. 9 (2021): 2423–38. http://dx.doi.org/10.1177/0271678x211004307.

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The extracellular matrix (ECM) is a key interface between the cerebrovasculature and adjacent brain tissues. Deregulation of the ECM contributes to a broad range of neurological disorders. However, despite this importance, our understanding of the ECM composition remains very limited mainly due to difficulties in its isolation. To address this, we developed an approach to extract the cerebrovascular ECM from mouse and human post-mortem normal brain tissues. We then used mass spectrometry with off-line high-pH reversed-phase fractionation to increase the protein detection. This identified more

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Pokhilko, Alexandra, Gaia Brezzo, Lahiru Handunnetthi, et al. "Global proteomic analysis of extracellular matrix in mouse and human brain highlights relevance to cerebrovascular disease." Journal of Cerebral Blood Flow & Metabolism 41, no. 9 (2021): 2423–38. https://doi.org/10.1177/0271678X211004307.

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<strong>Abstract </strong>The extracellular matrix (ECM) is a key interface between the cerebrovasculature and adjacent brain tissues. Deregulation of the ECM contributes to a broad range of neurological disorders. However, despite this importance, our understanding of the ECM composition remains very limited mainly due to difficulties in its isolation. To address this, we developed an approach to extract the cerebrovascular ECM from mouse and human post-mortem normal brain tissues. We then used mass spectrometry with off-line high-pH reversed-phase fractionation to increase the protein detect

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Taha, Isra N., and Alexandra Naba. "Exploring the extracellular matrix in health and disease using proteomics." Essays in Biochemistry 63, no. 3 (2019): 417–32. http://dx.doi.org/10.1042/ebc20190001.

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Abstract The extracellular matrix (ECM) is a complex assembly of hundreds of proteins that constitutes the scaffold of multicellular organisms. In addition to providing architectural and mechanical support to the surrounding cells, it conveys biochemical signals that regulate cellular processes including proliferation and survival, fate determination, and cell migration. Defects in ECM protein assembly, decreased ECM protein production or, on the contrary, excessive ECM accumulation, have been linked to many pathologies including cardiovascular and skeletal diseases, cancers, and fibrosis. The

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Wu, Chuanyue, and Shoukat Dedhar. "Integrin-linked kinase (ILK) and its interactors." Journal of Cell Biology 155, no. 4 (2001): 505–10. http://dx.doi.org/10.1083/jcb.200108077.

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How intracellular cytoskeletal and signaling proteins connect and communicate with the extracellular matrix (ECM) is a fundamental question in cell biology. Recent biochemical, cell biological, and genetic studies have revealed important roles of cytoplasmic integrin-linked kinase (ILK) and its interactive proteins in these processes. Cell adhesion to ECM is an important process that controls cell shape change, migration, proliferation, survival, and differentiation. Upon adhesion to ECM, integrins and a selective group of cytoskeletal and signaling proteins are recruited to cell matrix contac

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Trinh, Katie, Sohel M. Julovi, and Natasha M. Rogers. "The Role of Matrix Proteins in Cardiac Pathology." International Journal of Molecular Sciences 23, no. 3 (2022): 1338. http://dx.doi.org/10.3390/ijms23031338.

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The extracellular matrix (ECM) and ECM-regulatory proteins mediate structural and cell-cell interactions that are crucial for embryonic cardiac development and postnatal homeostasis, as well as organ remodeling and repair in response to injury. These proteins possess a broad functionality that is regulated by multiple structural domains and dependent on their ability to interact with extracellular substrates and/or cell surface receptors. Several different cell types (cardiomyocytes, fibroblasts, endothelial and inflammatory cells) within the myocardium elaborate ECM proteins, and their role i

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van Dijk, Christian G. M., Laura Louzao-Martinez, Elise van Mulligen, et al. "Extracellular Matrix Analysis of Human Renal Arteries in Both Quiescent and Active Vascular State." International Journal of Molecular Sciences 21, no. 11 (2020): 3905. http://dx.doi.org/10.3390/ijms21113905.

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In vascular tissue engineering strategies, the addition of vascular-specific extracellular matrix (ECM) components may better mimic the in vivo microenvironment and potentially enhance cell–matrix interactions and subsequent tissue growth. For this purpose, the exact composition of the human vascular ECM first needs to be fully characterized. Most research has focused on characterizing ECM components in mature vascular tissue; however, the developing fetal ECM matches the active environment required in vascular tissue engineering more closely. Consequently, we characterized the ECM protein com

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Rannels, D. E., S. E. Dunsmore, and R. N. Grove. "Extracellular matrix synthesis and turnover by type II pulmonary epithelial cells." American Journal of Physiology-Lung Cellular and Molecular Physiology 262, no. 5 (1992): L582—L589. http://dx.doi.org/10.1152/ajplung.1992.262.5.l582.

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Both type I and type II pulmonary epithelial cells contact the extracellular matrix (ECM). Type II cell-ECM interactions are bidirectional; they involve matrix-mediated modulation of type II cell differentiation, as well as cellular synthesis and deposition of ECM components. The present experiments examine the kinetics of accumulation of newly synthesized proteins in cell and matrix fractions from primary cultures of type II pneumocytes. Cycloheximide-sensitive incorporation of [3H]leucine into total protein of both the cell and ECM fractions was linear for 24–30 h, when steady-state labeling

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Tan, Hong, Lorain Junor, Robert L. Price, Russell A. Norris, Jay D. Potts, and Richard L. Goodwin. "Expression and Deposition of Fibrous Extracellular Matrix Proteins in Cardiac Valves during Chick Development." Microscopy and Microanalysis 17, no. 1 (2010): 91–100. http://dx.doi.org/10.1017/s1431927610094365.

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AbstractExtracellular matrix (ECM) plays essential signaling and structural roles required for the proper function of cardiac valves. Cardiac valves initially form as jelly-like cushions, which must adapt to withstand the increased circulation hemodynamics associated with fetal development and birth. This increased biomechanical stability of the developing valves is largely imparted by ECM proteins, which form a highly organized fibrous meshwork. Since heart valve defects contribute to most congenital heart diseases, understanding valve development will provide insight into the pathogenesis of

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Monteiro-Lobato, Gabriela M., Pedro S. T. Russo, Flavia V. Winck, and Luiz H. Catalani. "Proteomic Analysis of Decellularized Extracellular Matrix: Achieving a Competent Biomaterial for Osteogenesis." BioMed Research International 2022 (October 11, 2022): 1–18. http://dx.doi.org/10.1155/2022/6884370.

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Decellularized ECMs have been used as biological scaffolds for tissue repair due to their tissue-specific biochemical and mechanical composition, poorly simulated by other materials. It is used as patches and powders, and it could be further processed via enzymatic digestion under acidic conditions using pepsin. However, part of the bioactivity is lost during the digestion process due to protein denaturation. Here, stepwise digestion was developed to prepare a competent biomaterial for osteogenesis from three different ECM sources. In addition, three different proteases were compared to evalua

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Park, Jisook, Hyun-Seung Lee, Eun-Bi Go, et al. "Proteomic Analysis of the Meniscus Cartilage in Osteoarthritis." International Journal of Molecular Sciences 22, no. 15 (2021): 8181. http://dx.doi.org/10.3390/ijms22158181.

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The distribution of differential extracellular matrix (ECM) in the lateral and medial menisci can contribute to knee instability, and changes in the meniscus tissue can lead to joint disease. Thus, deep proteomic identification of the lateral and medial meniscus cartilage is expected to provide important information for treatment and diagnosis of various knee joint diseases. We investigated the proteomic profiles of 12 lateral/medial meniscus pairs obtained from excess tissue of osteoarthritis patients who underwent knee arthroscopy surgery using mass spectrometry-based techniques and measured

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Gurung, Sadeechya. "Abstract 998: Extracellular proximity labeling (ePL) as a tool to identify protein-protein interactions in the tumor microenvironment." Cancer Research 82, no. 12_Supplement (2022): 998. http://dx.doi.org/10.1158/1538-7445.am2022-998.

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Abstract The extracellular matrix (ECM) is a dynamic niche that is extensively reshaped in the development of the tumor microenvironment (TME). Our current understanding of ECM function and dynamics is largely informed by identification of protein-protein interactions (PPIs) using co-immunoprecipitation (co-IP) techniques that may miss transient and weak/unstable interactions. Recent advances in proximity labeling techniques have greatly expanded the interactome networks of numerous intracellular proteins, however these tools have yet to be extended to study PPIs in the ECM. We have recently o

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Khan, Zia A., and Subrata Chakrabarti. "Cellular Signaling and Potential New Treatment Targets in Diabetic Retinopathy." Experimental Diabetes Research 2007 (2007): 1–12. http://dx.doi.org/10.1155/2007/31867.

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Dysfunction and death of microvascular cells and imbalance between the production and the degradation of extracellular matrix (ECM) proteins are a characteristic feature of diabetic retinopathy (DR). Glucose-induced biochemical alterations in the vascular endothelial cells may activate a cascade of signaling pathways leading to increased production of ECM proteins and cellular dysfunction/death. Chronic diabetes leads to the activation of a number of signaling proteins including protein kinase C, protein kinase B, and mitogen-activated protein kinases. These signaling cascades are activated in

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Evans, J., T. Kaitu'u Lino, S. Fernando, and L. Salamonsen. "173. ENDOMETRIAL REPAIR - ENTER THE MATRIX." Reproduction, Fertility and Development 21, no. 9 (2009): 91. http://dx.doi.org/10.1071/srb09abs173.

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Menstruation and endometrial repair are two opposing functions which occur simultaneously within the menstruating uterus. Whilst the factors that control menstruation are increasingly understood1 the endometrial milieu which governs repair remains elusive. The extracellular-matrix (ECM) plays a dynamic role within the repairing endometrium, with roles suggested for fibronectin and certain integrins2. We have utilised two models of endometrial repair, a mouse menstruation model3, and an endometrial luminal epithelial cell-line (ECC-1)4 with the aim of defining the adhesion and ECM molecules imp

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Capaci, Valeria, Feras Kharrat, Andrea Conti, et al. "The Deep Proteomics Approach Identified Extracellular Vesicular Proteins Correlated to Extracellular Matrix in Type One and Two Endometrial Cancer." International Journal of Molecular Sciences 25, no. 9 (2024): 4650. http://dx.doi.org/10.3390/ijms25094650.

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Among gynecological cancers, endometrial cancer is the most common in developed countries. Extracellular vesicles (EVs) are cell-derived membrane-surrounded vesicles that contain proteins involved in immune response and apoptosis. A deep proteomic approach can help to identify dysregulated extracellular matrix (ECM) proteins in EVs correlated to key pathways for tumor development. In this study, we used a proteomics approach correlating the two acquisitions—data-dependent acquisition (DDA) and data-independent acquisition (DIA)—on EVs from the conditioned medium of four cell lines identifying

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Bianchi, Laura, Annalisa Altera, Virginia Barone, et al. "Untangling the Extracellular Matrix of Idiopathic Epiretinal Membrane: A Path Winding among Structure, Interactomics and Translational Medicine." Cells 11, no. 16 (2022): 2531. http://dx.doi.org/10.3390/cells11162531.

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Idiopathic epiretinal membranes (iERMs) are fibrocellular sheets of tissue that develop at the vitreoretinal interface. The iERMs consist of cells and an extracellular matrix (ECM) formed by a complex array of structural proteins and a large number of proteins that regulate cell–matrix interaction, matrix deposition and remodelling. Many components of the ECM tend to produce a layered pattern that can influence the tractional properties of the membranes. We applied a bioinformatics approach on a list of proteins previously identified with an MS-based proteomic analysis on samples of iERM to re

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Ba, X., Y. Meng, Y. Huang, et al. "In Vitro Biomineralization Induced by Self-Assembled Extracellular Matrix Proteins." Key Engineering Materials 361-363 (November 2007): 427–30. http://dx.doi.org/10.4028/www.scientific.net/kem.361-363.427.

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Extracellular matrix (ECM) proteins play an essential role during biomineralization in bone and engineered tissues. In a previous study [1], we showed that calcite preferentially nucleated on pure elastin fibers. However, the actual cellular ECM fibers are composed of a combination of proteins, primarily collagen, fibronectin and some elastin. Here we follow the calcium carbonate- and calcium phosphate- mineralization process in vitro when these ECM proteins are combined and determine the differences between these proteins in the biomineralization process. The surface morphology and mechanical

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Van Ry, Pam M., Tatiana M. Fontelonga, Pamela Barraza‐Flores, Apurva Sarathy, Andreia M. Nunes, and Dean J. Burkin. "ECM‐Related Myopathies and Muscular Dystrophies: Pros and Cons of Protein Therapies." Comprehensive Physiology 7, no. 4 (2017): 1519–36. https://doi.org/10.1002/j.2040-4603.2017.tb00774.x.

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ABSTRACTExtracellular matrix (ECM) myopathies and muscular dystrophies are a group of genetic diseases caused by mutations in genes encoding proteins that provide critical links between muscle cells and the extracellular matrix. These include structural proteins of the ECM, muscle cell receptors, enzymes, and intracellular proteins. Loss of adhesion within the myomatrix results in progressive muscle weakness. For many ECM muscular dystrophies, symptoms can occur any time after birth and often result in reduced life expectancy. There are no cures for the ECM‐related muscular dystrophies and tre

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Wang, Minghui, Lingling Yue, Xiaowen Cui, et al. "Prediction of Extracellular Matrix Proteins by Fusing Multiple Feature Information, Elastic Net, and Random Forest Algorithm." Mathematics 8, no. 2 (2020): 169. http://dx.doi.org/10.3390/math8020169.

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Extracellular matrix (ECM) proteins play an important role in a series of biological processes of cells. The study of ECM proteins is helpful to further comprehend their biological functions. We propose ECMP-RF (extracellular matrix proteins prediction by random forest) to predict ECM proteins. Firstly, the features of the protein sequence are extracted by combining encoding based on grouped weight, pseudo amino-acid composition, pseudo position-specific scoring matrix, a local descriptor, and an autocorrelation descriptor. Secondly, the synthetic minority oversampling technique (SMOTE) algori

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Franco-Serrano, Luis, David Sánchez-Redondo, Araceli Nájar-García, et al. "Pathogen Moonlighting Proteins: From Ancestral Key Metabolic Enzymes to Virulence Factors." Microorganisms 9, no. 6 (2021): 1300. http://dx.doi.org/10.3390/microorganisms9061300.

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Moonlighting and multitasking proteins refer to proteins with two or more functions performed by a single polypeptide chain. An amazing example of the Gain of Function (GoF) phenomenon of these proteins is that 25% of the moonlighting functions of our Multitasking Proteins Database (MultitaskProtDB-II) are related to pathogen virulence activity. Moreover, they usually have a canonical function belonging to highly conserved ancestral key functions, and their moonlighting functions are often involved in inducing extracellular matrix (ECM) protein remodeling. There are three main questions in the

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Dekkers, Bart G. J., Dedmer Schaafsma, S. Adriaan Nelemans, Johan Zaagsma, and Herman Meurs. "Extracellular matrix proteins differentially regulate airway smooth muscle phenotype and function." American Journal of Physiology-Lung Cellular and Molecular Physiology 292, no. 6 (2007): L1405—L1413. http://dx.doi.org/10.1152/ajplung.00331.2006.

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Changes in the ECM and increased airway smooth muscle (ASM) mass are major contributors to airway remodeling in asthma and chronic obstructive pulmonary disease. It has recently been demonstrated that ECM proteins may differentially affect proliferation and expression of phenotypic markers of cultured ASM cells. In the present study, we investigated the functional relevance of ECM proteins in the modulation of ASM contractility using bovine tracheal smooth muscle (BTSM) preparations. The results demonstrate that culturing of BSTM strips for 4 days in the presence of fibronectin or collagen I d

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Chaher, Nadia, Reza Hajhosseiny, Alkystis Phinikaridou, and René M. Botnar. "Imaging the Extracellular Matrix in Prevalent Cardiovascular Diseases." Applied Sciences 10, no. 11 (2020): 4001. http://dx.doi.org/10.3390/app10114001.

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The extracellular matrix (ECM) is a highly complex macromolecular network present in all tissues and organs. The ECM is continuously remodelling under an orchestrated process facilitated by many matrix-degrading and matrix-synthesising enzymes in both health and disease. Disturbance of this balance can be the result of or can lead to various diseases. In cardiovascular diseases (CVDs), changes to the ECM are evident in conditions including: atherosclerosis, myocardial infarction (MI), venous thromboembolism (VTE) and abdominal aortic aneurysm (AAA). ECM proteins and ECM regulating enzymes are

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Dalton, Caleb J., and Christopher A. Lemmon. "Fibronectin: Molecular Structure, Fibrillar Structure and Mechanochemical Signaling." Cells 10, no. 9 (2021): 2443. http://dx.doi.org/10.3390/cells10092443.

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The extracellular matrix (ECM) plays a key role as both structural scaffold and regulator of cell signal transduction in tissues. In times of ECM assembly and turnover, cells upregulate assembly of the ECM protein, fibronectin (FN). FN is assembled by cells into viscoelastic fibrils that can bind upward of 40 distinct growth factors and cytokines. These fibrils play a key role in assembling a provisional ECM during embryonic development and wound healing. Fibril assembly is also often upregulated during disease states, including cancer and fibrotic diseases. FN fibrils have unique mechanical p

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Lednev, E. M., E. A. Lysenko, V. G. Zgoda, et al. "Eight-Week Aerobic Training Activates Extracellular Matrix Biogenesis in Human Skeletal Muscle." Физиология человека 49, no. 2 (2023): 44–53. http://dx.doi.org/10.31857/s013116462210023x.

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We aimed to investigate the effect of 8 weeks of moderate endurance training without considerable mechanical stress on the activation of extracellular matrix (ECM) gene expression in human skeletal muscle. Mechanical stress activates ECM biogenesis in the skeletal muscles, therefore only aerobic exercise on a cycling ergometer with concentric muscle contractions was used in the study. Skeletal muscle samples from m. vastus lateralis were taken from seven young untrained males before and after 8 weeks of aerobic training. Changes in the transcriptome (RNA sequencing) and proteome (shotgun quant

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Boshuizen, J. A., J. W. A. Rossen, C. K. Sitaram та ін. "Rotavirus Enterotoxin NSP4 Binds to the Extracellular Matrix Proteins Laminin-β3 and Fibronectin". Journal of Virology 78, № 18 (2004): 10045–53. http://dx.doi.org/10.1128/jvi.78.18.10045-10053.2004.

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ABSTRACT Rotavirus is the most important cause of viral gastroenteritis and dehydrating diarrhea in young children. Rotavirus nonstructural protein 4 (NSP4) is an enterotoxin that was identified as an important agent in symptomatic rotavirus infection. To identify cellular proteins that interact with NSP4, a two-hybrid technique with Saccharomyces cerevisiae was used. NSP4 cDNA, derived from the human rotavirus strain Wa, was cloned into the yeast shuttle vector pGBKT7. An intestinal cDNA library derived from Caco-2 cells cloned into the yeast shuttle vector pGAD10 was screened for proteins th

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Zhao, Yingxin, Dianhua Qiao, Melissa Skibba та Allan R. Brasier. "The IRE1α–XBP1s Arm of the Unfolded Protein Response Activates N-Glycosylation to Remodel the Subepithelial Basement Membrane in Paramyxovirus Infection". International Journal of Molecular Sciences 23, № 16 (2022): 9000. http://dx.doi.org/10.3390/ijms23169000.

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Respiratory syncytial virus (RSV) causes severe lower respiratory tract infections (LRTI) associated with decreased pulmonary function, asthma, and allergy. Recently, we demonstrated that RSV induces the hexosamine biosynthetic pathway via the unfolded protein response (UPR), which is a pathway controlling protein glycosylation and secretion of the extracellular matrix (ECM). Because the presence of matrix metalloproteinases and matricellular growth factors (TGF) is associated with severe LRTI, we studied the effect of RSV on ECM remodeling and found that RSV enhances the deposition of fibrone

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Cameron, Caroline E. "Identification of a Treponema pallidum Laminin-Binding Protein." Infection and Immunity 71, no. 5 (2003): 2525–33. http://dx.doi.org/10.1128/iai.71.5.2525-2533.2003.

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ABSTRACT Host extracellular matrix (ECM) components represent ideal microbial adhesion targets that many pathogens use for colonization of tissues and initiation of infection. This study investigated the interaction of the spirochete Treponema pallidum with the ECM component laminin. To identify candidate laminin-binding adhesins, the T. pallidum genome was analyzed to predict open reading frames that encode putative outer membrane proteins, as these proteins interact directly with host ECM components. Subsequent recombinant expression of these proteins and analysis of their laminin-binding po

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Altieri, Anthony, Grace V. Visser, and Matthew B. Buechler. "Enter the Matrix: Fibroblast-immune cell interactions shape extracellular matrix deposition in health and disease." F1000Research 13 (December 5, 2024): 119. https://doi.org/10.12688/f1000research.143506.2.

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Fibroblasts, non-hematopoietic cells of mesenchymal origin, are tissue architects which regulate the topography of tissues, dictate tissue resident cell types, and drive fibrotic disease. Fibroblasts regulate the composition of the extracellular matrix (ECM), a 3-dimensional network of macromolecules that comprise the acellular milieu of tissues. Fibroblasts can directly and indirectly regulate immune responses by secreting ECM and ECM-bound molecules to shape tissue structure and influence organ function. In this review, we will highlight recent studies which elucidate the mechanisms by which

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Altieri, Anthony, Grace V. Visser, and Matthew B. Buechler. "Enter the Matrix: Fibroblast-immune interactions shape ECM deposition in health and disease." F1000Research 13 (February 19, 2024): 119. http://dx.doi.org/10.12688/f1000research.143506.1.

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Fibroblasts, non-hematopoietic cells of mesenchymal origin, are tissue architects which regulate the topography of tissues, dictate tissue resident cell types, and drive fibrotic disease. Fibroblasts regulate the composition of the extracellular matrix (ECM), a 3-dimensional network of macromolecules that comprise the acellular milieu of tissues. Fibroblasts can directly and indirectly regulate immune responses by secreting ECM and ECM-bound molecules to shape tissue structure and influence organ function. In this review, we will highlight recent studies which elucidate the mechanisms by which

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Senthebane, Dimakatso, Tina Jonker, Arielle Rowe, et al. "The Role of Tumor Microenvironment in Chemoresistance: 3D Extracellular Matrices as Accomplices." International Journal of Molecular Sciences 19, no. 10 (2018): 2861. http://dx.doi.org/10.3390/ijms19102861.

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Background: The functional interplay between tumor cells and their adjacent stroma has been suggested to play crucial roles in the initiation and progression of tumors and the effectiveness of chemotherapy. The extracellular matrix (ECM), a complex network of extracellular proteins, provides both physical and chemicals cues necessary for cell proliferation, survival, and migration. Understanding how ECM composition and biomechanical properties affect cancer progression and response to chemotherapeutic drugs is vital to the development of targeted treatments. Methods: 3D cell-derived-ECMs and e

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Clarke, Simon R., Llinos G. Harris, R. Geoff Richards, and Simon J. Foster. "Analysis of Ebh, a 1.1-Megadalton Cell Wall-Associated Fibronectin-Binding Protein of Staphylococcus aureus." Infection and Immunity 70, no. 12 (2002): 6680–87. http://dx.doi.org/10.1128/iai.70.12.6680-6687.2002.

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ABSTRACT In order for Staphylococcus aureus to adhere to host extracellular matrix (ECM) substrates, it elicits a wide range of surface proteins. We have characterized a novel ∼1.1-MDa protein in S. aureus, termed Ebh (for ECM-binding protein homologue), which has homology to other ECM-binding proteins. Ebh consists of several domains, including a large central region with 44 imperfect repeats of 126 amino acids. Expression analysis revealed ebh to be growth phase regulated and repressed by agr. A fragment of the central repeat region of Ebh was cloned, overexpressed, and used in ligand-bindin

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Marin, Davide, and Silvia Marchesan. "Self-Assembled Peptide Nanostructures for ECM Biomimicry." Nanomaterials 12, no. 13 (2022): 2147. http://dx.doi.org/10.3390/nano12132147.

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Proteins are functional building blocks of living organisms that exert a wide variety of functions, but their synthesis and industrial production can be cumbersome and expensive. By contrast, short peptides are very convenient to prepare at a low cost on a large scale, and their self-assembly into nanostructures and gels is a popular avenue for protein biomimicry. In this Review, we will analyze the last 5-year progress on the incorporation of bioactive motifs into self-assembling peptides to mimic functional proteins of the extracellular matrix (ECM) and guide cell fate inside hydrogel scaffo

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Lin, Yi Hsing, Zee-Yong Park, Dayin Lin, et al. "Regulation of cell migration and survival by focal adhesion targeting of Lasp-1." Journal of Cell Biology 165, no. 3 (2004): 421–32. http://dx.doi.org/10.1083/jcb.200311045.

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Large-scale proteomic and functional analysis of isolated pseudopodia revealed the Lim, actin, and SH3 domain protein (Lasp-1) as a novel protein necessary for cell migration, but not adhesion to, the extracellular matrix (ECM). Lasp-1 is a ubiquitously expressed actin-binding protein with a unique domain configuration containing SH3 and LIM domains, and is overexpressed in 8–12% of human breast cancers. We find that stimulation of nonmotile and quiescent cells with growth factors or ECM proteins facilitates Lasp-1 relocalization from the cell periphery to the leading edge of the pseudopodium,

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Guo, Yihe, Cara Martinez-Williams, Clare E. Yellowley, Henry J. Donahue, and D. Eugene Rannels. "Connexin expression by alveolar epithelial cells is regulated by extracellular matrix." American Journal of Physiology-Lung Cellular and Molecular Physiology 280, no. 2 (2001): L191—L202. http://dx.doi.org/10.1152/ajplung.2001.280.2.l191.

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Extracellular matrix (ECM) proteins promote attachment, spreading, and differentiation of cultured alveolar type II epithelial cells. The present studies address the hypothesis that the ECM also regulates expression and function of gap junction proteins, connexins, in this cell population. Expression of cellular fibronectin and connexin (Cx) 43 increase in parallel during early type II cell culture as Cx26 expression declines. Gap junction intercellular communication is established over the same interval. Cells plated on a preformed, type II cell-derived, fibronectin-rich ECM demonstrate accel

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Cortini, Margherita, Francesca Macchi, Francesca Reggiani, et al. "Endogenous Extracellular Matrix Regulates the Response of Osteosarcoma 3D Spheroids to Doxorubicin." Cancers 15, no. 4 (2023): 1221. http://dx.doi.org/10.3390/cancers15041221.

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The extracellular matrix (ECM) modulates cell behavior, shape, and viability as well as mechanical properties. In recent years, ECM disregulation and aberrant remodeling has gained considerable attention in cancer targeting and prevention since it may stimulate tumorigenesis and metastasis. Here, we developed an in vitro model that aims at mimicking the in vivo tumor microenvironment by recapitulating the interactions between osteosarcoma (OS) cells and ECM with respect to cancer progression. We long-term cultured 3D OS spheroids made of metastatic or non-metastatic OS cells mixed with mesench

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