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urine proteomics

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https://www.readbyqxmd.com/read/29905074/effects-of-hematuria-on-the-proteomic-profile-of-urinary-extracellular-vesicles-technical-challenges
#1
Francesca Raimondo, Clizia Chinello, Martina Stella, Lucia Santorelli, Fulvio Magni, Marina Pitto
Hematuria is a common sign of many renal and urologic pathologic conditions and it may affect the proteomic analysis of urinary extracellular vesicles (UEv), nanovesicles released from all cells in contact with the urinary space. This condition hinders UEv based proteomic studies aiming to discover biomarkers. Therefore, we studied the effects of hematuria on the proteome of UEv, and introduced a possible solution to reduce its misleading impact. We mimicked hematuria by adding increasing amount of blood to non-affected urine, and investigated its effects on UEv isolation, purity and proteomic composition...
June 15, 2018: Journal of Proteome Research
https://www.readbyqxmd.com/read/29904612/proteomic-identification-of-potential-markers-of-myosteatosis-in-human-urine
#2
Holger Husi, Alisdair MacDonald, Richard J E Skipworth, Janice Miller, Andrew Cronshaw, Kenneth C H Fearon, James A Ross
Myosteatosis, the infiltration of fat in skeletal muscle, is associated with lower skeletal muscle density (SMD) as detected by computed tomography (CT). It increases with aging and obesity and is thought to play a role in the aetiology of insulin resistance and type II diabetes. The clinical significance of myosteatosis in cancer cachexia, however, remains to be determined. Along with demonstrable subcutaneous and visceral lipolysis, myosteatosis may also be a key component of the syndrome. We aimed to investigate the use of human urine as a non-invasive way to screen for molecular biomarkers of myosteatosis/reduced SMD using SELDI-TOF mass spectrometry...
June 2018: Biomedical Reports
https://www.readbyqxmd.com/read/29904611/urinary-diagnostic-proteomic-markers-for-dynapenia-in-cancer-patients
#3
Holger Husi, Alisdair MacDonald, Richard J E Skipworth, Janice Miller, Andrew Cronshaw, Carolyn Greig, Kenneth C H Fearon, James A Ross
Dynapenia is defined as the age-related loss of muscle strength, and plays a significant role in the loss of physical function and increased risk of disability among older individuals. The need for an early diagnosis supports the search for a biomarker that reflects muscle 'weakening'. This has previously proven difficult due to patient heterogeneity at presentation and lack of understanding of the underlying molecular mechanisms. The aim of the present study was to identify potential urinary biomarkers of dynapenia in patients undergoing potentially curative surgery for upper gastrointestinal cancer...
June 2018: Biomedical Reports
https://www.readbyqxmd.com/read/29903999/high-throughput-identification-of-mammalian-secreted-proteins-using-species-specific-scheme-and-application-to-human-proteome
#4
Jian Zhang, Haiting Chai, Song Guo, Huaping Guo, Yanling Li
Secreted proteins are widely spread in living organisms and cells. Since secreted proteins are easy to be detected in body fluids, urine, and saliva in clinical diagnosis, they play important roles in biomarkers for disease diagnosis and vaccine production. In this study, we propose a novel predictor for accurate high-throughput identification of mammalian secreted proteins that is based on sequence-derived features. We combine the features of amino acid composition, sequence motifs, and physicochemical properties to encode collected proteins...
June 14, 2018: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/29895432/targeted-inhibition-of-axl-receptor-tyrosine-kinase-ameliorates-anti-gbm-induced-lupus-like-nephritis
#5
Yuxuan Zhen, Iris J Lee, Fred D Finkelman, Wen-Hai Shao
Glomerulonephritis (GN) is a typical lesion in autoantibody and immune complex disorders, including SLE. Because the Gas6/Axl pathway has been implicated in the pathogenesis of many types of GN, targeting this pathway might ameliorate GN. Consequently, we have studied the efficacy and mechanism of R428, a potent selective Axl inhibitor, in the prevention of experimental anti-GBM nephritis. Axl upregulation was investigated with Sp1/3 siRNA in the SV40-transformed mesangial cells. For Axl inhibition, a daily dose of R428 (125 mg/kg) or vehicle was administered orally...
June 9, 2018: Journal of Autoimmunity
https://www.readbyqxmd.com/read/29893147/detecting-post-translational-modification-signatures-as-potential-biomarkers-in-clinical-mass-spectrometry
#6
Ruzanna Mnatsakanyan, Gerta Shema, Mark Basik, Gerald Batist, Christoph H Borchers, Albert Sickmann, René P Zahedi
Numerous diseases are caused by changes in post-translational modifications (PTMs). Therefore, the number of clinical proteomics studies that include the analysis of PTMs is increasing. Combining complementary information - e.g., changes in protein abundance, PTM levels, with the genome and transcriptome (proteogenomics) - holds great promise for discovering important drivers and markers of disease, as variations in copy number, expression levels, or mutations without spatial/functional/isoform information is often insufficient or even misleading...
June 12, 2018: Expert Review of Proteomics
https://www.readbyqxmd.com/read/29868523/the-kouncil-consortium-from-genetic-defects-to-therapeutic-development-for-nephronophthisis
#7
Kirsten Y Renkema, Rachel H Giles, Marc R Lilien, Philip L Beales, Ronald Roepman, Machteld M Oud, Heleen H Arts, Nine V A M Knoers
Nephronophthisis (NPH) is the most common monogenic cause of renal failure in children. Treatment options are limited to dialysis and transplantation. Therapeutics to significantly delay or prevent end-stage renal disease (ESRD) in children are currently not available. In the Dutch-Anglo KOUNCIL ( K idney- O riented UN derstanding of correcting CIL iopathies) consortium, several groups and specialties united to perform scientific groundwork with the aim to develop genetic and therapeutic personalized care for NPH patients...
2018: Frontiers in Pediatrics
https://www.readbyqxmd.com/read/29781159/a-comparative-proteomics-analysis-of-five-body-fluids-plasma-urine-cerebrospinal-fluid-amniotic-fluid-and-saliva
#8
Mindi Zhao, Yehong Yang, Zhengguang Guo, Chen Shao, Haidan Sun, Yang Zhang, Ying Sun, Yaoran Liu, Yijun Song, Liwei Zhang, Qian Li, Juntao Liu, Mingxi Li, Youhe Gao, Wei Sun
PURPOSE: Body fluid is considered a rich source of disease biomarkers. Proteins in many body fluids have potential clinical applications for disease diagnostic and prognostic predictions. EXPERIMENTAL DESIGN: To determine differences in the protein components and functional features of body fluids, a proteomic comparison of five body fluids (plasma, urine, cerebrospinal fluid, saliva, and amniotic fluid) was conducted by high-resolution mass spectrometry. RESULTS: A total of 4717 nonredundant proteins were identified, and the concentrations of 3433 proteins were estimated by an intensity-based algorithm quantitation method...
May 21, 2018: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/29760307/identification-of-urinary-biomarkers-for-the-prediction-of-gestational-diabetes-mellitus-in-early-second-trimester-of-young-gravidae-based-on-itraq-quantitative-proteomics
#9
Ying Guo, Zhonghou Han, Li Guo, Yu Liu, Gang Li, Huiqing Li, Jie Zhang, Liwei Bai, Hongli Wu, Biliang Chen
Gestational Diabetes Mellitus (GDM) has brought great harm to maternal and fetus. Up to now, only a few plasma biomarkers for its early diagnosis have been reported; nevertheless, there is no report about identification of urinary biomarkers for prediction of GDM. Thus, it is necessary to correct this deficiency. In our study, urine samples were collected from 889 healthy young gravidae at the early second trimester (15 to 20 weeks), 69 of whom were subsequently diagnosed with GDM at 24 to 28 weeks. iTRAQ (the isobaric tags for relative and absolute quantification) quantitative proteomics was conducted on sixteen GDM (trial group) and an equal number of matched healthy young gravidae (control group)...
May 12, 2018: Endocrine Journal
https://www.readbyqxmd.com/read/29759185/a-fast-sample-processing-strategy-for-large-scale-profiling-of-human-urine-phosphoproteome-by-mass-spectrometry
#10
Xinyuan Zhao, Wanjun Zhang, Tong Liu, Hangyan Dong, Junjie Huang, Changqing Sun, Guangshun Wang, Xiaohong Qian, Weijie Qin
Liquid biopsies using body fluids have gained much attention in recent years due to their multiple advantages in clinical diagnosis, such as less/non-invasive collection, suitability for longitudinal disease monitoring, and better representation of tumor heterogeneity. As an attractive choice for liquid biopsy, urine proteins and their post-translational modifications (PTMs) have the potential to offer significant insights into physiological variations and pathological changes in the human body. However, due to the intrinsically large variability of urine proteins and their PTMs among different individuals, there is a high demand for strategies for high-throughput analysis of a large number of samples to obtain a comprehensive view and a reliable reference interval of the urine proteome...
August 1, 2018: Talanta
https://www.readbyqxmd.com/read/29724864/empowering-thyroid-hormone-research-in-human-subjects-using-omics-technologies
#11
Maik Pietzner, Tim Kacprowski, Nele Friedrich
OMICs subsume different physiological layers including the genome, transcriptome, proteome, and metabolome. Recent advances in analytical techniques allow for the exhaustive determination of bio-molecules in all OMICs levels from less invasive human specimens such as blood and urine. Investigating OMICs in deeply characterized population-based or experimental studies has led to seminal improvement of our understanding of genetic determinants of thyroid function, identified putative thyroid hormone target genes and thyroid hormone-induced shifts in the plasma protein and metabolite content...
May 3, 2018: Journal of Endocrinology
https://www.readbyqxmd.com/read/29721020/detection-of-hiv-1-and-human-proteins-in-urinary-extracellular-vesicles-from-hiv-patients
#12
Samuel I Anyanwu, Akins Doherty, Michael D Powell, Chamberlain Obialo, Ming B Huang, Alexander Quarshie, Claudette Mitchell, Khalid Bashir, Gale W Newman
Background: Extracellular vesicles (EVs) are membrane bound, secreted by cells, and detected in bodily fluids, including urine, and contain proteins, RNA, and DNA. Our goal was to identify HIV and human proteins (HPs) in urinary EVs from HIV+ patients and compare them to HIV- samples. Methods: Urine samples were collected from HIV+ ( n = 35) and HIV- ( n = 12) individuals. EVs were isolated by ultrafiltration and characterized using transmission electron microscopy, tandem mass spectrometry (LC/MS/MS), and nanoparticle tracking analysis (NTA)...
2018: Advances in Virology
https://www.readbyqxmd.com/read/29720115/biomarker-enhanced-risk-prediction-for-development-of-aki-after-cardiac-surgery
#13
Michael L Merchant, Michael E Brier, Mark S Slaughter, Jon B Klein, Kenneth R McLeish
BACKGROUND: Acute kidney injury (AKI) is a common post-cardiac surgery complication and influences patient morbidity and prognosis. This study was designed to identify preoperative candidate urine biomarkers in patients undergoing cardiac surgery. METHODS: A prospective cohort study of adults undergoing cardiac surgery at increased risk for AKI at a single hospital between July 2010 and September 2012 was performed. The primary outcome was the development of AKI, defined as an absolute serum creatinine (SCr) level increase ≥ 0...
May 2, 2018: BMC Nephrology
https://www.readbyqxmd.com/read/29701031/-comparison-of-urinary-proteomes-among-rats-guinea-pigs-and-golden-hamsters
#14
Na Ni, Jianqiang Wu, Li Li, Youhe Gao
Biomarkers are the detectable changes associated with physiological or pathological changes. Urine as excreta of the body, without the mechanisms to maintain a homeostatic internal environment, can reflect a variety of changes in the body. Using animal models can simulate human disease processes, monitor disease changes, and provide clues to early diagnosis. Rats as commonly used model animals are not the dominant models for all disease, thus comparing the urinary proteins of rats with other animals to provide clues to the selection of other animal dominant models...
April 25, 2018: Sheng Wu Gong Cheng Xue Bao, Chinese Journal of Biotechnology
https://www.readbyqxmd.com/read/29689304/proteomics-of-liquid-biopsies-depicting-rcc-infiltration-into-the-renal-vein-by-ms-analysis-of-urine-and-plasma
#15
Clizia Chinello, Martina Stella, Isabella Piga, Andrew James Smith, Giorgio Bovo, Marta Varallo, Mariia Ivanova, Vanna Denti, Marco Grasso, Angelica Grasso, Marina Del Puppo, Apostolos Zaravinos, Fulvio Magni
Liquid biopsies, as blood and urine, could offer an invaluable, easily accessible source of biomarkers, and evidences for elucidating the pathological processes. Only few studies integrated the proteomes driven by more than one biofluid. Furthermore, it is not clear which biofluid better mirrors the alterations triggered by disease. Venous infiltrating RCC(Renal Cell Carcinoma) could represent an advantageous model for exploring this aspect. Herein, we investigate how blood and urine "proteomically" reflect the changes occurring during RCC infiltration into renal vein(RV) by label-free nLC-ESI-MS/MS...
April 22, 2018: Journal of Proteomics
https://www.readbyqxmd.com/read/29655463/proteomics-for-biomarker-identification-and-clinical-application-in-kidney-disease
#16
Lin Chen, Wei Su, Hua Chen, Dan-Qian Chen, Ming Wang, Yan Guo, Ying-Yong Zhao
Treatment effectiveness for kidney disease is limited by lack of accuracy, sensitivity, specificity of diagnostic, prognostic, and therapeutic biomarkers. The gold standard test renal biopsy along with serum creatinine and proteinuria is often necessary to establish a diagnosis, particularly in glomerular disease. Proteomics has become a powerful tool for novel biomarker discovery in kidney disease. Novel proteomics offer earlier and more accurate diagnosis of renal pathology than possible with traditional biomarkers such as serum creatinine and urine protein...
2018: Advances in Clinical Chemistry
https://www.readbyqxmd.com/read/29625564/urinary-proteomics-for-prediction-of-mortality-in-patients-with-type-2-diabetes-and-microalbuminuria
#17
Gemma E Currie, Bernt Johan von Scholten, Sheon Mary, Jose-Luis Flores Guerrero, Morten Lindhardt, Henrik Reinhard, Peter K Jacobsen, William Mullen, Hans-Henrik Parving, Harald Mischak, Peter Rossing, Christian Delles
BACKGROUND: The urinary proteomic classifier CKD273 has shown promise for prediction of progressive diabetic nephropathy (DN). Whether it is also a determinant of mortality and cardiovascular disease in patients with microalbuminuria (MA) is unknown. METHODS: Urine samples were obtained from 155 patients with type 2 diabetes and confirmed microalbuminuria. Proteomic analysis was undertaken using capillary electrophoresis coupled to mass spectrometry to determine the CKD273 classifier score...
April 6, 2018: Cardiovascular Diabetology
https://www.readbyqxmd.com/read/29576497/urine-proteome-profiling-predicts-lung-cancer-from-control-cases-and-other-tumors
#18
Chunchao Zhang, Wenchuan Leng, Changqing Sun, Tianyuan Lu, Zhengang Chen, Xuebo Men, Yi Wang, Guangshun Wang, Bei Zhen, Jun Qin
Development of noninvasive, reliable biomarkers for lung cancer diagnosis has many clinical benefits knowing that most of lung cancer patients are diagnosed at the late stage. For this purpose, we conducted proteomic analyses of 231 human urine samples in healthy individuals (n=33), benign pulmonary diseases (n=40), lung cancer (n=33), bladder cancer (n=17), cervical cancer (n=25), colorectal cancer (n=22), esophageal cancer (n=14), and gastric cancer (n=47) patients collected from multiple medical centers...
April 2018: EBioMedicine
https://www.readbyqxmd.com/read/29573172/quantification-of-urinary-protein-biomarkers-of-autosomal-dominant-polycystic-kidney-disease-by-parallel-reaction-monitoring
#19
Navin Rauniyar, Xiaoqing Yu, Jennifer Cantley, Edward Z Voss, Justin Belcher, Christopher M Colangelo, Kathryn L Stone, Neera Dahl, Chirag Parikh, TuKiet T Lam, Lloyd G Cantley
PURPOSE: Autosomal dominant polycystic kidney disease (ADPKD) is a life-long disease in which the genes responsible are known, but the pathogenesis of cyst formation and cyst growth are not understood. Cyst growth ultimately leads to end-stage renal failure in most patients. Analysis of the urinary proteome offers the potential to identify proteins that indicate the presence of cysts (and thus provides diagnosis) as well as the rates of cyst growth (providing prognostic information). EXPERIMENTAL DESIGN: A scheduled parallel reaction monitoring (sPRM) assay is performed on urine samples from 14 patients and 18 normal controls...
March 23, 2018: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/29572871/a-preliminary-origin-tracking-study-of-different-densities-urinary-exosomes
#20
Tao Lan, Xingjun Xi, Qiao Chu, Liang Zhao, Apeng Chen, Joann J Lu, Fenghe Wang, Weibing Zhang
Based on density differences of different subpopulations of exosomes, two kinds of micro-vesicles with different densities were captured from urine by a modified sucrose density gradient ultracentrifuge separation method. Verified by transmission electron microscope (TEM) and western blot, the results showed these two kinds of micro-vesicles were all exosomes. And these two kinds of exosomes were analyzed by TEM, 2D electrophoresis (2DE), and capillary zone electrophoresis (CZE), respectively. The results of TEM showed these two exosomes with different densities have different morphological characteristics, and some tiny proteomic differences were shown in the results of 2DE of these two exosomes...
March 23, 2018: Electrophoresis
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