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urine proteomics

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https://www.readbyqxmd.com/read/29208969/association-of-kidney-fibrosis-with-urinary-peptides-a-path-towards-non-invasive-liquid-biopsies
#1
Pedro Magalhães, Martin Pejchinovski, Katerina Markoska, Miroslaw Banasik, Marian Klinger, Dominika Švec-Billá, Ivan Rychlík, Merita Rroji, Arianna Restivo, Giovambattista Capasso, Flaviu Bob, Adalbert Schiller, Alberto Ortiz, Maria Vanessa Perez-Gomez, Pablo Cannata, Maria Dolores Sanchez-Niño, Radomir Naumovic, Voin Brkovic, Momir Polenakovic, William Mullen, Antonia Vlahou, Petra Zürbig, Lars Pape, Franco Ferrario, Colette Denis, Goce Spasovski, Harald Mischak, Joost P Schanstra
Chronic kidney disease (CKD) is a prevalent cause of morbidity and mortality worldwide. A hallmark of CKD progression is renal fibrosis characterized by excessive accumulation of extracellular matrix (ECM) proteins. In this study, we aimed to investigate the correlation of the urinary proteome classifier CKD273 and individual urinary peptides with the degree of fibrosis. In total, 42 kidney biopsies and urine samples were examined. The percentage of fibrosis per total tissue area was assessed in Masson trichrome stained kidney tissues...
December 5, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29193311/proteomics-analysis-of-human-breast-milk-to-assess-breast-cancer-risk
#2
Roshanak Aslebagh, Devika Channaveerappa, Kathleen F Arcaro, Costel C Darie
Detection of breast cancer (BC) in young women is challenging because mammography, the most common tool for detecting BC, is not effective on the dense breast tissue characteristic of young women. In addition to the limited means for detecting their BC, young women face a transient increased risk of pregnancy-associated BC. As a consequence, reproductively active women could benefit significantly from a tool that provides them with accurate risk assessment and early detection of BC. One potential method for detection of BC is biochemical monitoring of proteins and other molecules in bodily fluids such as serum, nipple aspirate, ductal lavage, tear, urine, saliva and breast milk...
November 29, 2017: Electrophoresis
https://www.readbyqxmd.com/read/29164064/quantitative-mass-spectrometry-based-proteomic-profiling-for-precision-medicine-in-prostate-cancer
#3
REVIEW
Amilcar Flores-Morales, Diego Iglesias-Gato
Prostate cancer (PCa) is one of the most frequently diagnosed cancer among men in the western societies. Many PCa patients bear tumors that will not threat their lives if left untreated or if treatment is delayed. Our inability for early identification of these patients has resulted in massive overtreatment. Therefore, there is a great need of finding biomarkers for patient stratification according to prognostic risk; as well as there is a need for novel targets that can allow the development of effective treatments for patients that progress to castration-resistant PCa...
2017: Frontiers in Oncology
https://www.readbyqxmd.com/read/29147916/integrative-analysis-of-proteomics-data-to-obtain-clinically-relevant-markers
#4
Nathan Salomonis
The analysis of proteomics data can be significantly challenging. Beyond the technical challenges of accurately identifying and quantifying peptides, identifying the most biologically coherent set of biomarkers can be a particularly daunting step. In this chapter, we will review a series of methods implemented in the software AltAnalyze that can be used to normalize proteomics peptide counts, identify a minimal set of the most distinguishing morbidity-associated biomarkers, and connect up these results to known pathways and interacting protein and regulatory networks...
November 18, 2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29136907/ultrasonic-based-membrane-aided-sample-preparation-of-urine-proteomes
#5
Jemmyson Romário Jesus, Hugo M Santos, H López-Fernández, Carlos Lodeiro, Marco Aurélio Zezzi Arruda, J L Capelo
A new ultrafast ultrasonic-based method for shotgun proteomics as well as label-free protein quantification in urine samples is developed. The method first separates the urine proteins using nitrocellulose-based membranes and then proteins are in-membrane digested using trypsin. The enzymatic digestion process is accelerated from overnight to four minutes using a sonoreactor ultrasonic device. Overall, the sample treatment pipeline comprising protein separation, digestion and identification is done in just 3h...
February 1, 2018: Talanta
https://www.readbyqxmd.com/read/29121996/production-and-characterization-of-monoclonal-antibodies-against-encephalitozoon-intestinalis-and-encephalitozoon-sp-spores-and-their-developmental-stages
#6
Fernando Izquierdo, Hercules Moura, Fernando Jorge Bornay-Llinares, Rama Sriram, Carolina Hurtado, Ángela Magnet, Soledad Fenoy, Govinda Visvesvara, Carmen Del Aguila
BACKGROUND: Microsporidia are intracellular obligate parasites traditionally associated with immunosuppressed patients; their detection in immunocompetent patients has increased, highlighting their possible importance as emerging pathogens. Detection of spores in stools, urine, body fluids and tissues is difficult and immunological techniques such as immunofluorescence have proved to be a useful and reliable tool in the diagnosis of human microsporidiosis. For this reason, we have produced and characterized monoclonal antibodies (MAbs) specific for Encephalitozoon intestinalis (the second most frequent microsporidian infecting humans), and other Encephalitozoon species, that can be used in different diagnostic techniques...
November 9, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/29117212/quantitative-label-free-proteomic-analysis-of-human-urine-to-identify-novel-candidate-protein-biomarkers-for-schistosomiasis
#7
Olugbenga Samson Onile, Bridget Calder, Nelson C Soares, Chiaka I Anumudu, Jonathan M Blackburn
BACKGROUND: Schistosomiasis is a chronic neglected tropical disease that is characterized by continued inflammatory challenges to the exposed population and it has been established as a possible risk factor in the aetiology of bladder cancer. Improved diagnosis of schistosomiasis and its associated pathology is possible through mass spectrometry to identify biomarkers among the infected population, which will influence early detection of the disease and its subtle morbidity. METHODOLOGY: A high-throughput proteomic approach was used to analyse human urine samples for 49 volunteers from Eggua, a schistosomiasis endemic community in South-West, Nigeria...
November 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/29109428/serial-omics-of-p53-brca1-mouse-breast-tumor-and-normal-mammary-gland
#8
Susanne B Breitkopf, Mateus De Oliveira Taveira, Min Yuan, Gerburg M Wulf, John M Asara
This study demonstrates a liquid-liquid extraction for the sequential tandem mass spectrometry (LC-MS/MS) analysis of non-polar lipids, polar metabolites, proteins and phosphorylation sites from a single piece of tissue. Extraction of 10 mg BRCA-/-, p53-/- breast tumor tissue or normal mammary gland tissue with methyl-tert-butyl ether (MTBE) results in three phases: an upper non-polar phase containing 1,382 lipids, a lower polar phase with 805 metabolites and a precipitated protein pellet with 4,792 proteins with 1,072 phosphorylation sites...
November 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29084249/the-effect-of-sodium-glucose-cotransporter-2-sglt2-inhibition-on-the-urinary-proteome
#9
David Cherney, Bruce A Perkins, Yuliya Lytvyn, Hiddo Heerspink, María E Rodríguez-Ortiz, Harald Mischak
Treatment with empagliflozin, an inhibitor of the sodium/glucose cotransporter 2 (SGLT2), is associated with slower progression of diabetic kidney disease. In this analysis, we explored the hypothesis that empagliflozin may have an impact on urinary peptides associated with chronic kidney disease (CKD). In this post-hoc, exploratory analysis, we investigated urine samples obtained from 40 patients with uncomplicated type 1 diabetes (T1D) before and after treatment with empagliflozin for 8 weeks to for significant post-therapy changes in urinary peptides...
2017: PloS One
https://www.readbyqxmd.com/read/29078359/reverse-chemical-ecology-olfactory-proteins-from-the-giant-panda-and-their-interactions-with-putative-pheromones-and-bamboo-volatiles
#10
Jiao Zhu, Simona Arena, Silvia Spinelli, Dingzhen Liu, Guiquan Zhang, Rongping Wei, Christian Cambillau, Andrea Scaloni, Guirong Wang, Paolo Pelosi
The giant panda Ailuropoda melanoleuca belongs to the family of Ursidae; however, it is not carnivorous, feeding almost exclusively on bamboo. Being equipped with a typical carnivorous digestive apparatus, the giant panda cannot get enough energy for an active life and spends most of its time digesting food or sleeping. Feeding and mating are both regulated by odors and pheromones; therefore, a better knowledge of olfaction at the molecular level can help in designing strategies for the conservation of this species...
October 23, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29055723/proteomics-and-metabolomics-characterizing-the-pathophysiology-of-adaptive-reactions-to-the-metabolic-challenges-during-the-transition-from-late-pregnancy-to-early-lactation-in-dairy-cows
#11
Fabrizio Ceciliani, Cristina Lecchi, Christiane Urh, Helga Sauerwein
The transition from late pregnancy to early lactation is a critical period in a dairy cow's life due to the rapidly increasing drain of nutrients from the maternal organism towards the foetus and into colostrum and milk. In order to cope with the challenges of parturition and lactation, comprehensive adaptive reactions comprising the endocrine and the immune system need to be accomplished. There is high variation in this coping ability and both metabolic and infectious diseases, summarized as "production diseases", such as hypocalcaemia (milk fever), fatty liver syndrome, laminitis and ketosis, may occur and impact welfare, productive lifespan and economic outcomes...
October 18, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/29041828/urine-protein-biomarkers-for-detection-of-cardiovascular-disease-and-their-use-for-the-clinic
#12
Sarah Röthlisberger, Johanna Pedroza-Diaz
Cardiovascular disease (CVD) is the leading noncommunicable disease and main cause of death worldwide. Traditionally, blood has been the sample of choice for biomarker discovery, however, urine has roused great interest in recent years as a source of biomarkers. Sample collection is simple, non-invasive, and there is the possibility of implementing minimal cost tests in primary care settings. Areas covered: In this review, we systematically searched PubMed for proteomic studies of CVD, with the criteria that urine was included as a biological sample...
December 2017: Expert Review of Proteomics
https://www.readbyqxmd.com/read/29028400/label-free-study-of-cosmonaut-s-urinary-proteome-changes-after-long-duration-spaceflights
#13
A Brzhozovskiy, A Kononikhin, M Indeykina, LKh Pastushkova, I A Popov, E N Nikolaev, I M Larina
During the entire time that cosmonauts stay on board the international space station, different extreme space flight factors affect their bodies. In order to find out what physiological changes occur under the influence of spaceflight, different parameters of the human body before and after flights are monitored. Analysis of the urine proteome is one of the most perspective non-invasive methods of condition monitoring. The aim of the study was to perform a comparative semi-quantitative label-free urine proteome analysis of samples collected from 21 cosmonauts before and after long-duration spaceflight at the international space station...
August 2017: European Journal of Mass Spectrometry
https://www.readbyqxmd.com/read/29028163/early-detection-of-urinary-proteome-biomarkers-for-effective-early-treatment-of-pulmonary-fibrosis-in-a-rat-model
#14
Jianqiang Wu, Xundou Li, Mindi Zhao, He Huang, Wei Sun, Youhe Gao
PURPOSE: Pulmonary fibrosis (PF) is a progressive and devastating lung disease. With limited effective treatments available in the late stage, PF has a very poor prognosis. Molecular biomarkers are highly desired for PF, especially for its early phase. MATERIAL AND METHODS: Urine is a good biomarker source, and accumulates systemic changes in the body especially in the early-stage of diseases. In this study, a bleomycin (BLM)-induced rat model was used to mimic PF...
October 13, 2017: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/28994030/gelc-ms-a-sample-preparation-method-for-proteomics-analysis-of-minimal-amount-of-tissue
#15
Manousos Makridakis, Antonia Vlahou
Application of various proteomics methodologies have been implemented for the global and targeted proteome analysis of many different types of biological samples such as tissue, urine, plasma, serum, blood, and cell lines. Among the aforementioned biological samples, tissue has an exceptional role into clinical research and practice. Disease initiation and progression is usually located at the tissue level of different organs, making the analysis of this material very important for the understanding of the disease pathophysiology...
October 10, 2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28992005/characterization-of-exosomes-from-body-fluids-of-dairy-cows
#16
Y Q Koh, H N Peiris, K Vaswani, S Meier, C R Burke, K A Macdonald, J R Roche, F Almughlliq, B J Arachchige, S Reed, M D Mitchell
Exosomes are a specific subpopulation of extracellular vesicles that are widely released by cells of different origins with divergent functions that make their way into body fluids that can be conveniently sampled. In the current study, we isolated and evaluated exosomes from concurrently collected samples of milk, plasma, saliva, and urine from a group of 6 pregnant Holstein-Friesian dairy cows (aged 7 mo, 174 to 203 d of gestation). The cows had BCS of 3.5 to 5.25 (on a scale of 1 to 10), and the milk production for the season to the time of sampling ranged between 5,118 and 6,959 kg...
September 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28980450/dynamic-changes-of-urine-proteome-in-a-walker-256-tumor-bearing-rat-model
#17
Jianqiang Wu, Zhengguang Guo, Youhe Gao
Despite advances in cancer treatments, early diagnosis of cancer is still the most promising way to improve outcomes. Without homeostatic control, urine reflects systemic changes in the body and can potentially be used for early detection of cancer. In this study, a tumor-bearing rat model was established by subcutaneous injection of Walker 256 cells. Urine samples from tumor-bearing rats were collected at five time points during cancer development. Dynamic urine proteomes were profiled using liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS)...
November 2017: Cancer Medicine
https://www.readbyqxmd.com/read/28979691/fascin-1-is-released-from-proximal-tubular-cells-in-response-to-calcineurin-inhibitors-cnis-and-correlates-with-isometric-vacuolization-in-kidney-transplanted-patients
#18
Conxita Jacobs-Cachá, Irina B Torres, Joan López-Hellín, Carme Cantarell, María A Azancot, Antonio Román, Francesc Moreso, Daniel Serón, Anna Meseguer, Eduard Sarró
Immunosuppression based on calcineurin inhibitors (CNIs) has greatly improved organ transplantation, although subsequent nephrotoxicity significantly hinders treatment success. There are no currently available specific soluble biomarkers for CNI-induced nephrotoxicity and diagnosis relies on renal biopsy, which is costly, invasive and may cause complications. Accordingly, identification of non-invasive biomarkers distinguishing CNI-induced kidney tubular damage from that of other etiologies would greatly improve diagnosis and enable more precise dosage adjustment...
2017: American Journal of Translational Research
https://www.readbyqxmd.com/read/28974115/application-of-proteomics-to-graft-versus-host-disease-from-biomarker-discovery-to-potential-clinical-applications
#19
Richard B Presland
Graft-versus-host disease (GVHD) is a frequent and potentially life-threatening complication that occurs in many patients who undergo hematopoietic stem cell transplantation. In an effort to develop blood and tissue-based biochemical assays for GVHD diagnosis, high throughput proteomic platforms have been widely utilized for the identification and validation of disease biomarkers for both acute and chronic GVHD. Areas covered: This article reviews biomarker research findings on acute and chronic GVHD ascertained by studying peripheral blood, urine and saliva that gives biological information on systemic or localized disease...
November 2017: Expert Review of Proteomics
https://www.readbyqxmd.com/read/28927277/benchmark-dose-modeling-estimates-of-the-concentrations-of-inorganic-arsenic-that-induce-changes-to-the-neonatal-transcriptome-proteome-and-epigenome-in-a-pregnancy-cohort
#20
Julia E Rager, Scott S Auerbach, Grace A Chappell, Elizabeth Martin, Chad M Thompson, Rebecca C Fry
Prenatal inorganic arsenic (iAs) exposure influences the expression of critical genes and proteins associated with adverse outcomes in newborns, in part through epigenetic mediators. The doses at which these genomic and epigenomic changes occur have yet to be evaluated in the context of dose-response modeling. The goal of the present study was to estimate iAs doses that correspond to changes in transcriptomic, proteomic, epigenomic, and integrated multi-omic signatures in human cord blood through benchmark dose (BMD) modeling...
October 16, 2017: Chemical Research in Toxicology
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