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Proteome Science

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https://www.readbyqxmd.com/read/28503099/water-deficit-mechanisms-in-perennial-shrubs-cerasus-humilis-leaves-revealed-by-physiological-and-proteomic-analyses
#1
Zepeng Yin, Jing Ren, Lijuan Zhou, Lina Sun, Jiewan Wang, Yulong Liu, Xingshun Song
BACKGROUND: Drought (Water deficit, WD) poses a serious threat to extensively economic losses of trees throughout the world. Chinese dwarf cherry (Cerasus humilis) is a good perennial plant for studying the physiological and sophisticated molecular network under WD. The aim of this study is to identify the effect of WD on C. humilis through physiological and global proteomics analysis and improve understanding of the WD resistance of plants. METHODS: Currently, physiological parameters were applied to investigate C...
2016: Proteome Science
https://www.readbyqxmd.com/read/28439209/merging-clinical-chemistry-biomarker-data-with-a-copd-database-building-a-clinical-infrastructure-for-proteomic-studies
#2
Jonatan Eriksson, Simone Andersson, Roger Appelqvist, Elisabet Wieslander, Mikael Truedsson, May Bugge, Johan Malm, Magnus Dahlbäck, Bo Andersson, Thomas E Fehniger, György Marko-Varga
BACKGROUND: Data from biological samples and medical evaluations plays an essential part in clinical decision making. This data is equally important in clinical studies and it is critical to have an infrastructure that ensures that its quality is preserved throughout its entire lifetime. We are running a 5-year longitudinal clinical study, KOL-Örestad, with the objective to identify new COPD (Chronic Obstructive Pulmonary Disease) biomarkers in blood. In the study, clinical data and blood samples are collected from both private and public health-care institutions and stored at our research center in databases and biobanks, respectively...
2016: Proteome Science
https://www.readbyqxmd.com/read/28439208/proteomic-profiling-of-hbv-infected-liver-biopsies-with-different-fibrotic-stages
#3
Seyma Katrinli, Kamil Ozdil, Abdurrahman Sahin, Oguzhan Ozturk, Gozde Kir, Ahmet Tarik Baykal, Emel Akgun, Omer Sinan Sarac, Mehmet Sokmen, H Levent Doğanay, Gizem Dinler Doğanay
BACKGROUND: Hepatitis B virus (HBV) is a global health problem, and infected patients if left untreated may develop cirrhosis and eventually hepatocellular carcinoma. This study aims to enlighten pathways associated with HBV related liver fibrosis for delineation of potential new therapeutic targets and biomarkers. METHODS: Tissue samples from 47 HBV infected patients with different fibrotic stages (F1 to F6) were enrolled for 2D-DIGE proteomic screening. Differentially expressed proteins were identified by mass spectrometry and verified by western blotting...
2016: Proteome Science
https://www.readbyqxmd.com/read/28413359/disulfide-proteomics-of-rice-cultured-cells-in-response-to-osracl-and-probenazole-related-immune-signaling-pathway-in-rice
#4
Kazuko Morino, Mayumi Kimizu, Masayuki Fujiwara
BACKGROUND: Reactive oxygen species (ROS) production is an early event in the immune response of plants. ROS production affects the redox-based modification of cysteine residues in redox proteins, which contribute to protein functions such as enzymatic activity, protein-protein interactions, oligomerization, and intracellular localization. Thus, the sensitivity of cysteine residues to changes in the cellular redox status is critical to the immune response of plants. METHODS: We used disulfide proteomics to identify immune response-related redox proteins...
2016: Proteome Science
https://www.readbyqxmd.com/read/28352210/proteomic-analysis-of-microparticles-isolated-from-malaria-positive-blood-samples
#5
Samuel Antwi-Baffour, Jonathan Kofi Adjei, Francis Agyemang-Yeboah, Max Annani-Akollor, Ransford Kyeremeh, George Awuku Asare, Ben Gyan
BACKGROUND: Malaria continues to be a great public health concern due to the significant mortality and morbidity associated with the disease especially in developing countries. Microparticles (MPs), also called plasma membrane derived extracellular vesicles (PMEVs) are subcellular structures that are generated when they bud off the plasma membrane. They can be found in healthy individuals but the numbers tend to increase in pathological conditions including malaria. Although, various studies have been carried out on the protein content of specific cellular derived MPs, there seems to be paucity of information on the protein content of circulating MPs in malaria and their association with the various signs and symptoms of the disease...
2016: Proteome Science
https://www.readbyqxmd.com/read/28270742/protein-profiles-of-hatchery-egg-shell-membrane
#6
N C Rath, R Liyanage, S K Makkar, J O Lay
BACKGROUND: Eggshells which consist largely of calcareous outer shell and shell membranes, constitute a significant part of poultry hatchery waste. The shell membranes (ESM) not only contain proteins that originate from egg whites but also from the developing embryos and different contaminants of microbial and environmental origins. As feed supplements, during post hatch growth, the hatchery egg shell membranes (HESM) have shown potential for imparting resistance of chickens to endotoxin stress and exert positive health effects...
2016: Proteome Science
https://www.readbyqxmd.com/read/28149202/overgrazing-induces-alterations-in-the-hepatic-proteome-of-sheep-ovis-aries-an-itraq-based-quantitative-proteomic-analysis
#7
Weibo Ren, Xiangyang Hou, Yuqing Wang, Warwick Badgery, Xiliang Li, Yong Ding, Huiqin Guo, Zinian Wu, Ningning Hu, Lingqi Kong, Chun Chang, Chao Jiang, Jize Zhang
BACKGROUND: The degradation of the steppe of Inner Mongolia, due to overgrazing, has resulted in ecosystem damage as well as extensive reductions in sheep production. The growth performance of sheep is greatly reduced because of overgrazing, which triggers massive economic losses every year. The liver is an essential organ that has very important roles in multiple functions, such as nutrient metabolism, immunity and others, which are closely related to animal growth. However, to our knowledge, no detailed studies have evaluated hepatic metabolism adaption in sheep due to overgrazing...
2016: Proteome Science
https://www.readbyqxmd.com/read/28149201/an-interactomics-overview-of-the-human-and-bovine-milk-proteome-over-lactation
#8
Lina Zhang, Aalt D J van Dijk, Kasper Hettinga
BACKGROUND: Milk is the most important food for growth and development of the neonate, because of its nutrient composition and presence of many bioactive proteins. Differences between human and bovine milk in low abundant proteins have not been extensively studied. To better understand the differences between human and bovine milk, the qualitative and quantitative differences in the milk proteome as well as their changes over lactation were compared using both label-free and labelled proteomics techniques...
2016: Proteome Science
https://www.readbyqxmd.com/read/28077931/proteome-changes-in-the-small-intestinal-mucosa-of-growing-pigs-with-dietary-supplementation-of-non-starch-polysaccharide-enzymes
#9
Jize Zhang, Yang Gao, Qingping Lu, Renna Sa, Hongfu Zhang
BACKGROUND: Non-starch polysaccharide enzymes (NSPEs) have long been used in monogastric animal feed production to degrade non-starch polysaccharides (NSPs) to oligosaccharides in order to promote growth performance and gastrointestinal (GI) tract health. However, the precise molecular mechanism of NSPEs in the improvement of the mammalian small intestine remains unknown. METHODS: In this study, isobaric tags were applied to investigate alterations of the small intestinal mucosa proteome of growing pigs after 50 days of supplementation with 0...
2016: Proteome Science
https://www.readbyqxmd.com/read/27980460/informed-baseline-subtraction-of-proteomic-mass-spectrometry-data-aided-by-a-novel-sliding-window-algorithm
#10
Tyman E Stanford, Christopher J Bagley, Patty J Solomon
BACKGROUND: Proteomic matrix-assisted laser desorption/ionisation (MALDI) linear time-of-flight (TOF) mass spectrometry (MS) may be used to produce protein profiles from biological samples with the aim of discovering biomarkers for disease. However, the raw protein profiles suffer from several sources of bias or systematic variation which need to be removed via pre-processing before meaningful downstream analysis of the data can be undertaken. Baseline subtraction, an early pre-processing step that removes the non-peptide signal from the spectra, is complicated by the following: (i) each spectrum has, on average, wider peaks for peptides with higher mass-to-charge ratios (m/z), and (ii) the time-consuming and error-prone trial-and-error process for optimising the baseline subtraction input arguments...
2016: Proteome Science
https://www.readbyqxmd.com/read/27895531/follicular-fluid-biomarkers-for-human-in-vitro-fertilization-outcome-proof-of-principle
#11
Fang Chen, Carl Spiessens, Thomas D'Hooghe, Karen Peeraer, Sebastien Carpentier
BACKGROUND: Human follicular fluid (FF) is a unique biological fluid in which the oocyte develops in vivo, and presents an optimal source for non-invasive biochemical predictors. Oocyte quality directly influences the embryo development and hence, may be used as a predictor of embryo quality. Peptide profiling of FF and its potential use as a biomarker for oocyte quality has never been reported. METHODS: This study screened FF for peptide biomarkers that predict the outcome of in vitro fertilization (IVF)...
2016: Proteome Science
https://www.readbyqxmd.com/read/27891064/proteomic-based-approach-for-characterizing-4-hydroxy-2-nonenal-induced-oxidation-of-buffalo-bubalus-bubalis-and-goat-capra-hircus-meat-myoglobins
#12
Naveena B Maheswarappa, K Usha Rani, Y Praveen Kumar, Vinayak V Kulkarni, Srikanth Rapole
BACKGROUND: Myoglobin (Mb) is a sarcoplasmic heme protein primarily responsible for meat color and its chemistry is species specific. 4-hydroxy-2-nonenal (HNE) is a cytotoxic lipid derived aldehyde detected in meat and was reported to covalently adduct with nucleophilic histidine residues of Mb and predispose it to greater oxidation. However, no literature is available on characterization of lipid oxidation induced oxidation of Indian water buffalo (Bubalus bubalis) and goat (Capra hircus) myoglobins...
2016: Proteome Science
https://www.readbyqxmd.com/read/27833457/itraq-based-proteomic-analysis-of-myofibrillar-contents-and-relevant-synthesis-and-proteolytic-proteins-in-soleus-muscle-of-hibernating-daurian-ground-squirrels-spermophilus-dauricus
#13
Hui Chang, Shan-Feng Jiang, Kai Dang, Hui-Ping Wang, Shen-Hui Xu, Yun-Fang Gao
BACKGROUND: Daurian ground squirrels (Spermophilus dauricus) deviate from significant increase of protein catabolism and loss of myofibrillar contents during long period of hibernation inactivity. METHODS: Here we use iTRAQ based quantitative analysis to examine proteomic changes in the soleus of squirrels in pre-hibernation, hibernation and post-hibernation states. The total proteolysis rate of soleus was measured by the release of the essential amino acid tyrosine from isolated muscles...
2016: Proteome Science
https://www.readbyqxmd.com/read/27777513/multi-omics-analysis-on-the-pathogenicity-of-enterobacter-cloacae-enhku01-isolated-from-sewage-outfalls-along-the-ningbo-coastline
#14
Dijun Zhang, Weina He, Qianqian Tong, Jun Zhou, Xiurong Su
BACKGROUND: The acquisition of iron is important for the pathogenicity of bacteria and blood. Three different culture environments (Fe stimulation, blood agar plate and normal plate) were used to stimulate Enterobacter cloacae, and their respective pathogenicities were compared at the proteomic, mRNA and metabolomic levels. METHODS: 2D-DIGE combined with MALDI-TOF-MS/MS, RT-PCR and (1)H NMR were used to analyze the differential expression levels of proteins, mRNA and metabolites...
2016: Proteome Science
https://www.readbyqxmd.com/read/27761102/proteome-profiling-reveals-insights-into-cold-tolerant-growth-in-sea-buckthorn
#15
Caiyun He, Guori Gao, Jianguo Zhang, Aiguo Duan, Hongmei Luo
BACKGROUND: Low temperature is one of the crucial environmental factors limiting the productivity and distribution of plants. Sea buckthorn (Hippophae rhamnoides L.), a well recognized multipurpose plant species, live successfully in in cold desert regions. But their molecular mechanisms underlying cold tolerance are not well understood. METHODS: Physiological and biochemical responses to low-temperature stress were studied in seedlings of sea buckthorn. Differentially expressed protein spots were analyzed using multiplexing fluorescent two-dimensional fluorescence difference gel electrophoresis (2D-DIGE) coupled with matrix-assisted laser desorption/ionization (MALDI) time-of-flight/time-of-flight (TOF/TOF) mass spectrometry (MS), the concentration of phytohormone was measured using enzyme-linked immunosorbent assay, and a spectrophotometric assay was used to measure enzymatic reactions...
2016: Proteome Science
https://www.readbyqxmd.com/read/27610046/comparative-proteomic-analyses-of-asian-cotton-ovules-with-attached-fibers-in-the-early-stages-of-fiber-elongation-process
#16
Bing Zhang, Shao-Jun Du, Jue Hu, Di Miao, Jin-Yuan Liu
BACKGROUND: Plenty of proteomic studies were performed to characterize the allotetraploid upland cotton fiber elongation process, whereas little is known about the elongating diploid cotton fiber proteome. METHODS: In this study, we used a two-dimensional electrophoresis-based comparative proteomic approach to profile dynamic proteomes of diploid Asian cotton ovules with attached fibers in the early stages of fiber elongation process. One-way ANOVA and Student-Newman-Keuls test were used to find the differentially displayed protein (DDP) spots...
2016: Proteome Science
https://www.readbyqxmd.com/read/27610045/identifying-egfr-mutation-induced-drug-resistance-based-on-alpha-shape-model-analysis-of-the-dynamics
#17
Lichun Ma, Bin Zou, Hong Yan
BACKGROUND: Epidermal growth factor receptor (EGFR) mutation-induced drug resistance is a difficult problem in lung cancer treatment. Studying the molecular mechanisms of drug resistance can help to develop corresponding treatment strategies and benefit new drug design. METHODS: In this study, Rosetta was employed to model the EGFR mutant structures. Then Amber was carried out to conduct molecular dynamics (MD) simulation. Afterwards, we used Computational Geometry Algorithms Library (CGAL) to compute the alpha shape model of the mutants...
2016: Proteome Science
https://www.readbyqxmd.com/read/27601941/removal-of-sds-from-biological-protein-digests-for-proteomic-analysis-by-mass-spectrometry
#18
Soundharrajan Ilavenil, Naif Abdullah Al-Dhabi, Srisesharam Srigopalram, Young Ock Kim, Paul Agastian, Rajasekhar Baaru, Ki Choon Choi, Mariadhas Valan Arasu, Chun Geon Park, Kyung Hun Park
BACKGROUND: Metal-organic frameworks (MOFs - MIL-101) are the most exciting, high profiled developments in nanotechnology in the last ten years, and it attracted considerable attention owing to their uniform nanoporosity, large surface area, outer-surface modification and in-pore functionality for tailoring the chemical properties of the material for anchoring specific guest moieties. MOF's have been particularly highlighted for their excellent gas storage and separation properties. Recently biomolecules-based MOF's were used as nanoencapsulators for antitumor and antiretroviral controlled drug delivery studies...
2016: Proteome Science
https://www.readbyqxmd.com/read/27601940/differential-proteins-among-normal-cervix-cells-and-cervical-cancer-cells-with-hpv-16-infection-through-mass-spectrometry-based-proteomics-2d-dige-in-women-from-southern-m%C3%A3-xico
#19
Idanya Serafín-Higuera, Olga Lilia Garibay-Cerdenares, Berenice Illades-Aguiar, Eugenia Flores-Alfaro, Marco Antonio Jiménez-López, Pavel Sierra-Martínez, Luz Del Carmen Alarcón-Romero
BACKGROUND: Cervical cancer (CC) is the fourth most common cancer in women worldwide with an estimated 528,000 new cases in 2012. The same year México had an incidence of 13,960 and a mortality of 4769 cases. There are several diagnosis methods of CC; among the most frequents are the conventional Pap cytology (Pap), colposcopy, and visual inspection with acetic acid (VIA), histopathological examination, tests of imaging and detection of high-risk papilloma virus (HR-HPV) with molecular tests (PCR, hybridization, sequencing)...
2016: Proteome Science
https://www.readbyqxmd.com/read/27594807/comparative-proteome-analysis-of-abdominal-adipose-tissues-between-fat-and-lean-broilers
#20
Chun-Yan Wu, Yuan-Yuan Wu, Chun-Dong Liu, Yu-Xiang Wang, Wei Na, Ning Wang, Hui Li
BACKGROUND: The molecular mechanism underlying broiler fat deposition is still poorly understood. METHOD: Currently, we used two-dimensional gel electrophoresis (2DE) to identify differentially expressed proteins in abdominal adipose tissues of birds at 4 week of age derived from Northeast Agricultural University broiler lines divergently selected for abdominal fat content (NEAUHLF). RESULTS: Thirteen differentially expressed protein spots were screened out and identified by matrix-assisted laser desorption-ionization time-of-flight mass spectrometry (MALDI-TOF-MS)...
2016: Proteome Science
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