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https://www.readbyqxmd.com/read/28315769/the-regulation-of-lipid-metabolism-by-a-hypothetical-p-loop-ntpase-and-its-impact-on-fecundity-of-the-brown-planthopper
#1
Rui Pang, Jieqi Qiu, Tengchao Li, Pan Yang, Lei Yue, Yixin Pan, Wenqing Zhang
BACKGROUND: Insect fecundity can be regulated by multiple genes in several important signaling pathways which form an extremely complicated regulatory network. However, there are still many genes that have significant impact on insect fecundity but their action mode are still unknown. METHODS: Quantitative real-time PCR (qRT-PCR), immunofluorescence and western blot were used to study the expression profile of Nl23867 in the brown planthopper, Nilaparvata lugens...
March 15, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28315250/multiplexed-protease-specificity-profiling-using-isobaric-labeling
#2
Joanna Tucher, Andreas Tholey
The determination of a protease's cleavage site specificity is one of the major goals in degradomics. In the last years, the use of proteome-derived peptide libraries and liquid chromatography-mass spectrometry (LC-MS) in a proteomic identification of protease cleavage sites (PICS) experiment became popular for that purpose.In this chapter, we offer a step-by-step protocol for the execution of a quantitative proteomic identification of protease cleavage sites (Q-PICS) experiment, which enables the relative quantification of proteolytic events by isobaric labeling, e...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28304171/proteome-analysis-using-itraq-reveals-the-alterations-in-stress-induced-dysfunctional-chicken-muscle
#3
Tong Xing, Chong Wang, Xue Zhao, Chen Dai, Guanghong Zhou, Xinglian Xu
The current study was designed to investigate the changes in the protein profiles of pale, soft and exudative (PSE)-like muscles of broilers subjected to transportation under high temperature conditions, using isobaric tags for relative and absolute analysis quantitation (iTRAQ). Arbor Acres chickens (n = 112) were randomly divided to two treatments: unstressed control (CON) and 0.5 h of transport (T). Birds were transported based on a designed protocol. Pectoralis major (PM) muscle samples in the T group were collected and classified as normal (T-NOR) or PSE-like (T-PSE)...
March 17, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/28304097/improved-screening-test-for-idiopathic-infantile-hypercalcemia-confirms-residual-levels-of-serum-24-25-oh-2-d3-in-affected-patients
#4
Martin Kaufmann, Nicole Morse, Billy Joe Molloy, Donald P Cooper, Karl-Peter Schlingmann, Arnaud Molin, Marie Laure Kottler, J Christopher Gallagher, Laura Armas, Glenville Jones
BACKGROUND: CYP24A1 mutations are now accepted as a cause of idiopathic infantile hypercalcemia (IIH). A rapid LC-MS/MS-based blood test enabling measurement of the 25-OH-D3 :24,25-(OH)2 D3 ratio (R) can identify IIH patients on the basis of reduced C24-hydroxylation of 25-OH-D3 by CYP24A1 in vivo. While values of this ratio are significantly elevated in IIH, somewhat surprisingly, serum 24,25-(OH)2 D3 remains detectable. The current study explores possible explanations for this including: residual CYP24A1 enzyme activity in individuals with certain CYP24A1 genotypes, expression of alternative C24-hydroxylases, and the possibility of isobaric contamination of the 24,25-(OH)2 D3 peak on LC-MS/MS...
March 17, 2017: Journal of Bone and Mineral Research: the Official Journal of the American Society for Bone and Mineral Research
https://www.readbyqxmd.com/read/28299859/analysis-of-maldi-q-tof-cid-spectra-of-simple-precursor-ions-and-isobaric-oligosaccharide-ion-mixtures-based-on-product-ion-intensities-and-pattern-recognition
#5
Marko Jovanović, Richard Tyldesley-Worster
RATIONALE: Qualitative data analysis of glycomic MS/MS data based on m/z values of product ions alone is widely used, and often sufficient for analysis of single analytes. However, most complex glycomic mixtures contain multiple isobaric oligosaccharides, in which case this approach is often limited. Here we show how ion intensity information can be used in order to enhance MS/MS data analysis, and extract both qualitative and semiquantitative information from complex glycomic MS/MS datasets...
March 15, 2017: Rapid Communications in Mass Spectrometry: RCM
https://www.readbyqxmd.com/read/28299713/isobar-separation-in-a-multiple-reflection-time-of-flight-mass-spectrometer-by-mass-selective-re-trapping
#6
Timo Dickel, Wolfgang R Plaß, Wayne Lippert, Johannes Lang, Mikhail I Yavor, Hans Geissel, Christoph Scheidenberger
A novel method for (ultra-)high-resolution spatial mass separation in time-of-flight mass spectrometers is presented. Ions are injected into a time-of-flight analyzer from a radio frequency (rf) trap, dispersed in time-of-flight according to their mass-to-charge ratios and then re-trapped dynamically in the same rf trap. This re-trapping technique is highly mass-selective and after sufficiently long flight times can provide even isobaric separation. A theoretical treatment of the method is presented and the conditions for optimum performance of the method are derived...
March 15, 2017: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/28299440/itraq-ms-ms-proteomic-analysis-reveals-differentially-expressed-proteins-during-post-harvest-maturation-of-the-white-button-mushroom-agaricus-bisporus
#7
Meiyuan Chen, Jianhua Liao, Hongrong Li, Zhixin Cai, Zhongjie Guo, Mark P Wach, Zesheng Wang
Agaricus bisporus (J. E. Lange) Imbach, well known as the common cultivated mushroom or white button mushroom, is widely cultivated all over the world. We used iTRAQ-MS/MS (i.e., isobaric tags for relative and absolute quantification-coupled two-dimensional liquid chromatography-tandem mass spectrometry) to identify protein expression changes that occur during the post-harvest maturation of Agaricus bisporus fruitbodies at 0, 6, 12, and 48 h after harvest. A total of 5878 unique peptides, representing 1063 proteins, were identified...
March 16, 2017: Current Microbiology
https://www.readbyqxmd.com/read/28298786/comparison-of-dexmedetomidine-and-magnesium-sulfate-as-adjuvants-with-ropivacaine-for-spinal-anesthesia-in-infraumbilical-surgeries-and-postoperative-analgesia
#8
Reena Makhni, Joginder Pal Attri, Payal Jain, Veena Chatrath
INTRODUCTION: Postoperative pain is a major cause of fear and anxiety in hospitalized patients and so if patients remain pain-free during this period, they can cooperate with the circumstances well, leading to early recovery. Over the last two decades, there has been considerable revival of interest in the use of regional anesthesia techniques for surgery and pain management. As very few studies have been conducted using ropivacaine with dexmedetomidine and magnesium sulfate (MgSO4) as adjuvants, the present study was undertaken with primary aims to compare the hemodynamic stability, onset and duration of sensory and motor block and with secondary aims of the postoperative analgesic effect of dexmedetomidine and MgSO4 along with ropivacaine...
January 2017: Anesthesia, Essays and Researches
https://www.readbyqxmd.com/read/28297982/configurational-and-energy-landscape-in-one-dimensional-coulomb-systems
#9
Lucas Varela, Gabriel Téllez, Emmanuel Trizac
We study a one-dimensional Coulomb system, where two charged colloids are neutralized by a collection of point counterions, with global neutrality. With temperature being given, two situations are addressed: Either the colloids are kept at fixed positions (canonical ensemble) or the force acting on the colloids is fixed (isobaric-isothermal ensemble). The corresponding partition functions are worked out exactly, in view of determining which arrangement of counterions is optimal. How many counterions should be in the confined segment between the colloids? For the remaining ions outside, is there a left-right symmetry breakdown? We evidence a cascade of transitions as system size is varied in the canonical treatment or as pressure is increased in the isobaric formulation...
February 2017: Physical Review. E
https://www.readbyqxmd.com/read/28296953/a-numerical-investigation-of-intrathecal-isobaric-drug-dispersion-within-the-cervical-subarachnoid-space
#10
Per Thomas Haga, Giulia Pizzichelli, Mikael Mortensen, Miroslav Kuchta, Soroush Heidari Pahlavian, Edoardo Sinibaldi, Bryn A Martin, Kent-Andre Mardal
Intrathecal drug and gene vector delivery is a procedure to release a solute within the cerebrospinal fluid. This procedure is currently used in clinical practice and shows promise for treatment of several central nervous system pathologies. However, intrathecal delivery protocols and systems are not yet optimized. The aim of this study was to investigate the effects of injection parameters on solute distribution within the cervical subarachnoid space using a numerical platform. We developed a numerical model based on a patient-specific three dimensional geometry of the cervical subarachnoid space with idealized dorsal and ventral nerve roots and denticulate ligament anatomy...
2017: PloS One
https://www.readbyqxmd.com/read/28296203/high-throughput-quantification-of-apolipoproteins-a-i-and-b-100-by-isotope-dilution-mass-spectrometry-targeting-fast-trypsin-releasable-peptides-without-reduction-and-alkylation
#11
Bryan A Parks, David M Schieltz, Michael L Andrews, Michael S Gardner, Jon C Rees, Christopher A Toth, Jeffrey I Jones, Lisa G McWilliams, Zsuzsanna Kuklenyik, James L Pirkle, John R Barr
PURPOSE: Apolipoprotein A-I (ApoA-I) and Apolipoprotein B-100 (ApoB-100) are amphipathic proteins that are strong predictors of cardiovascular disease risk. The traceable calibration of apolipoprotein assays is a persistent challenge, especially for ApoB-100, which cannot be solubilized in purified form. EXPERIMENTAL DESIGN: Simultaneous quantitation method for ApoA-I and ApoB-100 was developed using tryptic digestion without pre-digestion reduction and alkylation, followed by liquid chromatography separation coupled with isotope dilution mass spectrometry (IDMS) analysis...
March 10, 2017: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/28293193/isobaric-tags-for-relative-and-absolute-quantitation-itraq-based-proteomic-analysis-of-hugan-qingzhi-and-its-protective-properties-against-free-fatty-acid-induced-l02-hepatocyte-injury
#12
Fan Xia, Xiaorui Yao, Waijiao Tang, Chunxin Xiao, Miaoting Yang, Benjie Zhou
In previous research, Hugan Qingzhi, a traditional Chinese medicine, was shown to have protective effects against hepatic steatosis. However, its activity against non-alcoholic fatty liver disease (NAFLD) and the mechanisms by which it exerts its effects remain unknown. In the present study, the effects of Hugan Qingzhi on free fatty acid (FFA)-induced L02 cells were examined. The techniques of iTRAQ labeling, together with strong cation exchange-non-liquid chromatography-tandem mass spectrometry (SCX-non-LC-MS/MS) analysis and serum pharmacology, were used to evaluate the effects of Hugan Qingzhi-medicated serum on FFA-induced L02 hepatocyte injury...
2017: Frontiers in Pharmacology
https://www.readbyqxmd.com/read/28291813/metabolomic-mechanisms-of-gypenoside-against-liver-fibrosis-in-rats-an-integrative-analysis-of-proteomics-and-metabolomics-data
#13
Ya-Nan Song, Shu Dong, Bin Wei, Ping Liu, Yong-Yu Zhang, Shi-Bing Su
AIMS: To investigate mechanisms and altered pathways of gypenoside against carbon tetrachloride (CCl4)-induced liver fibrosis based on integrative analysis of proteomics and metabolomics data. METHODS: CCl4-induced liver fibrosis rats were administrated gypenoside. The anti-fibrosis effects were evaluated by histomorphology and liver hydroxyproline (Hyp) content. Protein profiling and metabolite profiling of rats liver tissues were examined by isobaric tags for relative and absolute quantitation (iTRAQ) approach and gas chromatography-mass spectrometer (GC-MS) technology...
2017: PloS One
https://www.readbyqxmd.com/read/28287737/large-scale-srm-screen-of-urothelial-bladder-cancer-candidate-biomarkers-in-urine
#14
Elodie Duriez, Christophe D Masselon, Cédric Mesmin, Magali Court, Kevin Demeure, Yves Allory, Nuria Malats, Mariette Matondo, François Radvanyi, Jérôme Garin, Bruno Domon
Urothelial bladder cancer is a condition associated with high recurrence and substantial morbidity and mortality. Non-invasive urinary tests that would detect bladder cancer and tumor recurrence are required to significantly improve patient care. Over the last decade, numerous bladder cancer candidate biomarkers have been identified in the context of extensive proteomics or transcriptomics studies. To translate these findings in clinically useful biomarkers, the systematic evaluation of these candidates remains the bottleneck...
March 13, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28286574/nontargeted-homologue-series-extraction-from-hyphenated-high-resolution-mass-spectrometry-data
#15
Martin Loos, Heinz Singer
BACKGROUND: A large proportion of polar anthropogenic compounds routinely released into the environment comprises homologue series, i.e., sets of chemicals differing in a repeating chemical unit. Using analytical techniques such as liquid chromatography coupled to high-resolution mass spectrometry (LC-HRMS), these compounds are readily measurable as signal sets with characteristic differences in mass and typically retention time. However, and despite such distinct characteristics, no computational approach for the direct, simultaneous and untargeted detection of all such signal sets comprising both LC and HRMS information has to date been presented...
2017: Journal of Cheminformatics
https://www.readbyqxmd.com/read/28285833/integrative-proteomics-and-phosphoproteomics-profiling-reveals-dynamic-signaling-networks-and-bioenergetics-pathways-underlying-t-cell-activation
#16
Haiyan Tan, Kai Yang, Yuxin Li, Timothy I Shaw, Yanyan Wang, Daniel Bastardo Blanco, Xusheng Wang, Ji-Hoon Cho, Hong Wang, Sherri Rankin, Cliff Guy, Junmin Peng, Hongbo Chi
The molecular circuits by which antigens activate quiescent T cells remain poorly understood. We combined temporal profiling of the whole proteome and phosphoproteome via multiplexed isobaric labeling proteomics technology, computational pipelines for integrating multi-omics datasets, and functional perturbation to systemically reconstruct regulatory networks underlying T cell activation. T cell receptors activated the T cell proteome and phosphoproteome with discrete kinetics, marked by early dynamics of phosphorylation and delayed ribosome biogenesis and mitochondrial activation...
March 3, 2017: Immunity
https://www.readbyqxmd.com/read/28284755/itraq-based-quantitative-proteomic-analysis-reveals-potential-virulence-factors-of-erysipelothrix-rhusiopathiae
#17
Ya Wang, Jingtao Li, Anding Zhang, Weifeng Zhu, Qiang Zhang, Zhongmin Xu, Shuxian Yan, Xiaomei Sun, Huanchun Chen, Meilin Jin
Erysipelothrix rhusiopathiae is a ubiquitous pathogen that has caused considerable economic losses to pig farmers. However, the mechanisms of E. rhusiopathiae pathogenesis remain unclear. To identify new virulence-associated factors, the differentially abundant cell wall-associated proteins (CWPs) between high- and low-virulence strains were investigated through isobaric Tags for Relative and Absolute Quantitation (iTRAQ) combined with liquid chromatography-quadrupole mass spectrometry (LC-MS/MS). In total, 100 CWPs showed significant differences in abundance...
March 8, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28282148/alterations-in-the-salivary-proteome-and-n-glycome-of-sj%C3%A3-gren-s-syndrome-patients
#18
Steven C Hall, Maria E Hassis, Katherine E Williams, Matthew E Albertolle, Akraporn Prakobphol, Andrew B Dykstra, Megan Laurance, Katherine Ona, Richard K Niles, Namrata Prasad, Matthew Gormley, Caroline H Shiboski, Lindsey A Criswell, H Ewa Witkowska, Susan J Fisher
We used isobaric mass tagging (iTRAQ) and lectin affinity capture mass spectrometry (MS)-based workflows for global analyses of parotid saliva (PS) and whole saliva (WS) samples obtained from patients diagnosed with primary Sjögren's Syndrome (pSS) who were enrolled in the Sjögren's International Collaborative Clinical Alliance (SICCA) as compared to two control groups. The iTRAQ analyses revealed up- and down-regulation of numerous proteins that could be involved in the disease process (e.g., histones) or attempts to mitigate the ensuing damage [e...
March 10, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28276902/comparative-proteomic-exploration-of-whey-proteins-in-human-and-bovine-colostrum-and-mature-milk-using-itraq-coupled-lc-ms-ms
#19
Mei Yang, Xueyan Cao, Rina Wu, Biao Liu, Wenhui Ye, Xiqing Yue, Junrui Wu
Whey, an essential source of dietary nutrients, is widely used in dairy foods for infants. A total of 584 whey proteins in human and bovine colostrum and mature milk were identified and quantified by the isobaric tag for relative and absolute quantification (iTRAQ) proteomic method. The 424 differentially expressed whey proteins were identified and analyzed according to gene ontology (GO) annotation, Kyoto encyclopedia of genes and genomes (KEGG) pathway, and multivariate statistical analysis. Biological processes principally involved biological regulation and response to stimulus...
February 20, 2017: International Journal of Food Sciences and Nutrition
https://www.readbyqxmd.com/read/28271383/global-protein-expression-profile-response-of-planktonic-aeromonas-hydrophila-exposed-to-chlortetracycline
#20
Wanxin Li, Zujie Yao, Xiangyu Zhang, Fang Huang, Wenxiong Lin, Xiangmin Lin
The antibiotics resistance phenomena of Aeromonas hydrophila has become serious economic and public health problems for the world aquaculture industry and human health care. In this study, to investigate the instinct antibiotics adaptive mechanism of this pathogen, iTRAQ (Isobaric Tags for Relative and Absolute Quantitation) based quantitative proteomics technologies were performed to compare the differential expression of A. hydrophila in planktonic status in response to chlortetracycline (CTC) stress and then identified total 1552 proteins including 285 altered proteins with 90 increasing and 195 decreasing abundance proteins...
April 2017: World Journal of Microbiology & Biotechnology
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