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Proteome Science

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https://www.readbyqxmd.com/read/27895531/follicular-fluid-biomarkers-for-human-in-vitro-fertilization-outcome-proof-of-principle
#1
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
#2
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
#3
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
#4
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
#5
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
#6
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
#7
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
#8
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
#9
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
#10
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
https://www.readbyqxmd.com/read/27034619/investigation-of-proteome-changes-in-osteoclastogenesis-in-low-serum-culture-system-using-quantitative-proteomics
#11
Qi Xiong, Lihai Zhang, Shaohua Zhan, Wei Ge, Peifu Tang
BACKGROUND: RAW 264.7 cells can differentiate into osteoclasts when cultured in medium supplemented with 1 % FBS. However, the proteomic changes in the development of RAW 264.7 cells into osteoclasts in low serum culture system have not been elucidated. Therefore, we conducted quantitative proteomics analysis to investigate proteomic changes during osteoclastogenesis in low serum culture system. RESULTS: Our study confirmed that mature multinucleated osteoclasts were generated in a low serum culture system, validated by upregulated expression of 15 characteristic marker proteins, including TRAP, CTSK, MMP9, V-ATPase and ITGAV...
2016: Proteome Science
https://www.readbyqxmd.com/read/27019641/the-association-of-plasma-cystatin-c-proteoforms-with-diabetic-chronic-kidney-disease
#12
Hussein N Yassine, Olgica Trenchevska, Zhiwei Dong, Yara Bashawri, Juraj Koska, Peter D Reaven, Randall W Nelson, Dobrin Nedelkov
BACKGROUND: Cystatin C (CysC) is an endogenous cysteine protease inhibitor that can be used to assess the progression of kidney function. Recent studies demonstrate that CysC is a more specific indicator of glomerular filtration rate (GFR) than creatinine. CysC in plasma exists in multiple proteoforms. The goal of this study was to clarify the association of native CysC, CysC missing N-terminal Serine (CysC des-S), and CysC without three N-terminal residues (CysC des-SSP) with diabetic chronic kidney disease (CKD)...
2016: Proteome Science
https://www.readbyqxmd.com/read/26973435/stathmin-involvement-in-the-maternal-embryonic-leucine-zipper-kinase-pathway-in-glioblastoma
#13
Suely Kazue Nagahashi Marie, Sueli Mieko Oba-Shinjo, Roseli da Silva, Marcela Gimenez, Gisele Nunes Reis, Jean-Pierre Tassan, Jose Cesar Rosa, Miyuki Uno
BACKGROUND: Maternal Embryonic Leucine Zipper Kinase (MELK) is a serine/threonine kinase involved in cell cycle, differentiation, proliferation, and apoptosis. These multiple features are consistent with it being a potential anticancer target. Nevertheless, the MELK pathway in tumorigenesis is not yet completely understood. This study aims to identify proteins associated with MELK pathway in astrocytomas. To this end, proteomic data of the human glioma cell line U87MG transfected with siRNA for MELK were compared with non-target transfected control cells and compared with oligonucleotide microarray data...
2016: Proteome Science
https://www.readbyqxmd.com/read/26957948/analysis-of-the-immune-response-of-human-dendritic-cells-to-mycobacterium-tuberculosis-by-quantitative-proteomics
#14
Chiu-Ping Kuo, Kuo-Song Chang, Jue-Liang Hsu, I-Fang Tsai, Andrew Boyd Lin, Tsai-Yin Wei, Chien-Liang Wu, Yen-Ta Lu
BACKGROUND: The cellular immune response for Mycobacterium tuberculosis (M. tuberculosis) infection remained incompletely understood. To uncover membrane proteins involved in this infection mechanism, an integrated approach consisting of an organic solvent-assisted membrane protein digestion, stable-isotope dimethyl labeling and liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis was used to comparatively profile the membrane protein expression of human dendritic cells upon heat-killed M...
2016: Proteome Science
https://www.readbyqxmd.com/read/26924944/label-free-proteomic-methodology-for-the-analysis-of-human-kidney-stone-matrix-composition
#15
Frank A Witzmann, Andrew P Evan, Fredric L Coe, Elaine M Worcester, James E Lingeman, James C Williams
BACKGROUND: Kidney stone matrix protein composition is an important yet poorly understood aspect of nephrolithiasis. We hypothesized that this proteome is considerably more complex than previous reports have indicated and that comprehensive proteomic profiling of the kidney stone matrix may demonstrate relevant constitutive differences between stones. We have analyzed the matrices of two unique human calcium oxalate stones (CaOx-Ia and CaOx-Id) using a simple but effective chaotropic reducing solution for extraction/solubilization combined with label-free quantitative mass spectrometry to generate a comprehensive profile of their proteomes, including physicochemical and bioinformatic analysis...
2016: Proteome Science
https://www.readbyqxmd.com/read/26843850/quantitative-succinylome-analysis-in-the-liver-of-non-alcoholic-fatty-liver-disease-rat-model
#16
Yang Cheng, Tianlu Hou, Jian Ping, Gaofeng Chen, Jianjie Chen
BACKGROUND: Non-alcoholic fatty liver disease (NAFLD) is a clinical frequent disease. However, its pathogenesis still needs further study, especially the mechanism at the molecular level. The recent identified novel protein post-translational modification, lysine succinylation was reported involved in diverse metabolism and cellular processes. In this study, we performed the quantitative succinylome analysis in the liver of NAFLD model to elucidate the regulatory role of lysine succinylation in NAFLD progression...
2016: Proteome Science
https://www.readbyqxmd.com/read/26839515/secretome-analysis-of-rice-suspension-cultured-cells-infected-by-xanthomonas-oryzae-pv-oryza-xoo
#17
Xian Chen, Zhiping Deng, Chulang Yu, Chengqi Yan, Jianping Chen
BACKGROUND: Rice bacterial blight (BB) caused by Xanthomonas oryzae pv.oryzae (Xoo) is one of the most devastating bacterial diseases in rice-growing regions worldwide. The rice-Xoo interaction is a classical model for studying the interaction between plants and pathogens. Secreted proteins play important roles in plant-bacterial interactions, but are poorly studied in the rice-Xoo system. Rice cv. Nipponbare is highly susceptible to Xoo. Here, we used two-dimensional difference gel electrophoresis (2D-DIGE) coupled with MALDI-TOF/TOF mass spectrometry (MS), to investigate secreted proteins in Nipponbare embryo cell suspension culture infected by Xoo...
2016: Proteome Science
https://www.readbyqxmd.com/read/26770072/isolation-and-characterization-of-bradykinin-potentiating-peptides-from-agkistrodon-bilineatus-venom
#18
Aisha Munawar, Anum Zahid, Amr Negm, Ahmed Akrem, Patrick Spencer, Christian Betzel
BACKGROUND: Snake venom is a source of many pharmacologically important molecules. Agkistrodon bilineatus commonly known as Cantil, is spread over Central America particularly in Mexico and Costa Rica. From the venom of Agkistrodon bilineatus we have isolated and characterised six hypotensive peptides, and two bradykinin inhibitor peptides. The IC-50 value of four synthesized peptides was studied, towards angiotensin converting enzyme, in order to study the structure-function relationship of these peptides...
2016: Proteome Science
https://www.readbyqxmd.com/read/26719749/analysis-of-protein-expression-in-periodontal-pocket-tissue-a-preliminary-study
#19
Emanuela Monari, Aurora Cuoghi, Elisa Bellei, Stefania Bergamini, Andrea Lucchi, Aldo Tomasi, Pierpaolo Cortellini, Davide Zaffe, Carlo Bertoldi
BACKGROUND: The periodontal disease is caused by a set of inflammatory disorders characterized by periodontal pocket formation that lead to tooth loss if untreated. The proteomic profile and related molecular conditions of pocket tissue in periodontally-affected patients are not reported in literature. To characterize the proteomic profile of periodontally-affected patients, their interproximal periodontal pocket tissue was compared with that of periodontally-healthy patients. Pocket-associated and healthy tissue samples, harvested during surgical therapy, were treated to extract the protein content...
2015: Proteome Science
https://www.readbyqxmd.com/read/26633942/gender-specific-effects-of-intrauterine-growth-restriction-on-the-adipose-tissue-of-adult-rats-a-proteomic-approach
#20
Adriana Pereira de Souza, Amanda Paula Pedroso, Regina Lúcia Harumi Watanabe, Ana Paula Segantine Dornellas, Valter Tadeu Boldarine, Helen Julie Laure, Claudia Maria Oller do Nascimento, Lila Missae Oyama, José Cesar Rosa, Eliane Beraldi Ribeiro
BACKGROUND: Intrauterine growth restriction (IUGR) may program metabolic alterations affecting physiological functions and lead to diseases in later life. The adipose tissue is an important organ influencing energy homeostasis. The present study was aimed at exploring the consequences of IUGR on the retroperitoneal adipose tissue of adult male and female rats, using a proteomic approach. METHODS AND RESULTS: Pregnant Wistar rats were fed with balanced chow, either ad libitum (control group) or restricted to 50 % of control intake (restricted group) during the whole gestation...
2015: Proteome Science
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