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Proteome Science

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https://www.readbyqxmd.com/read/29983642/correction-to-proteomic-identification-and-characterization-of-hepatic-glyoxalase-1-dysregulation-in-non-alcoholic-fatty-liver-disease
#1
Christos Spanos, Elaina M Maldonado, Ciarán P Fisher, Petchpailin Leenutaphong, Ernesto Oviedo-Orta, David Windridge, Francisco J Salguero, Alexandra Bermúdez-Fajardo, Mark E Weeks, Caroline Evans, Bernard M Corfe, Naila Rabbani, Paul J Thornalley, Michael H Miller, Huan Wang, John F Dillon, Alberto Quaglia, Anil Dhawan, Emer Fitzpatrick, J Bernadette Moore
[This corrects the article DOI: 10.1186/s12953-018-0131-y.].
2018: Proteome Science
https://www.readbyqxmd.com/read/29983641/in-depth-proteomic-analyses-of-haliotis-laevigata-greenlip-abalone-nacre-and-prismatic-organic-shell-matrix
#2
Karlheinz Mann, Nicolas Cerveau, Meike Gummich, Monika Fritz, Matthias Mann, Daniel J Jackson
Background: The shells of various Haliotis species have served as models of invertebrate biomineralization and physical shell properties for more than 20 years. A focus of this research has been the nacreous inner layer of the shell with its conspicuous arrangement of aragonite platelets, resembling in cross-section a brick-and-mortar wall. In comparison, the outer, less stable, calcitic prismatic layer has received much less attention. One of the first molluscan shell proteins to be characterized at the molecular level was Lustrin A, a component of the nacreous organic matrix of Haliotis rufescens ...
2018: Proteome Science
https://www.readbyqxmd.com/read/29950929/itraq-based-proteomic-analysis-reveals-possible-target-related-proteins-and-signal-networks-in-human-osteoblasts-overexpressing-fgfr2
#3
Tianyi Cai, Baojin Wu, Xinjie Tang, Zhaoping Zhou, Junyi Yang, Ronghu Ke, Xiongzheng Mu
Background: Fibroblast growth factor receptor 2 (FGFR2) play a vital role in skeletogenesis. However, the molecular mechanisms triggered by FGFR2 in osteoblasts are still not fully understood. In this study, proteomics and bioinformatics analysis were performed to investigate changes in the protein profiles regulated by FGFR2, with the goal of characterizing the molecular mechanisms of FGFR2 function in osteoblasts. Methods: In this study, FGFR2-overexpression cell line was established using the lentivirus-packaging vector in human osteoblasts (hFOB1...
2018: Proteome Science
https://www.readbyqxmd.com/read/29875618/correction-to-proteomic-characterization-of-adrenal-gland-embryonic-development-reveals-early-initiation-of-steroid-metabolism-and-reduction-of-the-retinoic-acid-pathway
#4
Gry H Dihazi, Gerhard A Mueller, Abdul R Asif, Marwa Eltoweissy, Johannes T Wessels, Hassan Dihazi
[This corrects the article DOI: 10.1186/s12953-015-0063-8.].
2018: Proteome Science
https://www.readbyqxmd.com/read/29796011/proteomic-analysis-of-buccal-gland-secretion-from-fasting-and-feeding-lampreys-lampetra-morii
#5
Bowen Li, Meng Gou, Jianmei Han, Xiaofei Yuan, Yingying Li, Tiesong Li, Qi Jiang, Rong Xiao, Qingwei Li
Background: Previous studies have shown that lamprey buccal glands contain some regulators related to anticoagulation, nociception, and immune responses due to the blood sucking habit. Regrettably, the protein expression profile in the buccal glands of feeding lampreys has never been reported yet. The present study was performed in order to further identify more proteins which are closely associated with lamprey feeding process. Methods: 2D-PAGE, NanoLC-MS/MS with higher resolution, Ensembl lamprey and NCBI protein databases, as well as western blot was used to compare the proteomics of buccal gland secretion from China northeast lampreys ( Lampetra morii ) which had been fed for 0, 10, and 60 min, respectively...
2018: Proteome Science
https://www.readbyqxmd.com/read/29760588/in-vitro-gentamicin-exposure-alters-caveolae-protein-profile-in-cochlear-spiral-ligament-pericytes
#6
Elisa Ghelfi, Yohann Grondin, Emil J Millet, Adam Bartos, Magda Bortoni, Clara Oliveira Gomes Dos Santos, Humberto J Trevino-Villarreal, Rosalinda Sepulveda, Rick Rogers
Background: The aminoglycoside antibiotic gentamicin is an ototoxic drug and has been used experimentally to investigate cochlear damage induced by noise.We have investigated the changes in the protein profile associated with caveolae in gentamicin treated and untreated spiral ligament (SL) pericytes, specialized cells in the blood labyrinth barrier of the inner ear microvasculature. Pericytes from various microvascular beds express caveolae, protein and cholesterol rich microdomains, which can undergo endocytosis and transcytosis to transport small molecules in and out the cells...
2018: Proteome Science
https://www.readbyqxmd.com/read/29692685/itraq-based-quantitative-proteomic-analysis-of-processed-euphorbia-lathyris-l-for-reducing-the-intestinal-toxicity
#7
Yu Zhang, Yingzi Wang, Shaojing Li, Xiuting Zhang, Wenhua Li, Shengxiu Luo, Zhenyang Sun, Ruijie Nie
Background: Euphorbia lathyris L., a Traditional Chinese medicine (TCM), is commonly used for the treatment of hydropsy, ascites, constipation, amenorrhea, and scabies. Semen Euphorbiae Pulveratum, which is another type of Euphorbia lathyris that is commonly used in TCM practice and is obtained by removing the oil from the seed that is called paozhi, has been known to ease diarrhea. Whereas, the mechanisms of reducing intestinal toxicity have not been clearly investigated yet. Methods: In this study, the isobaric tags for relative and absolute quantitation (iTRAQ) in combination with the liquid chromatography-tandem mass spectrometry (LC-MS/MS) proteomic method was applied to investigate the effects of Euphorbia lathyris L...
2018: Proteome Science
https://www.readbyqxmd.com/read/29568239/effects-of-the-complete-replacement-of-fish-oil-with-linseed-oil-on-growth-fatty-acid-composition-and-protein-expression-in-the-chinese-mitten-crab-eriocheir-sinensis
#8
Banghong Wei, Zhigang Yang, Yongxu Cheng, Jianyi Wang, Junyu Zhou
Background: The finite marine resources make it difficult for us to obtain enough fish oil (FO) used in aquatic feeds. Another sustainable ingredients should be found to substitute FO. The effects of replacing FO with vegetable oil have been studied in a variety of crustaceans, but most studies have focused on the phenotypic effects. Little is known about the mechanisms of the effects. Methods: To understand the molecular responses during the replacement of FO in Eriocheir sinensis , we investigated the effects of feeding FO or linseed oil (LO) on growth performance, digestive enzyme activity, fatty acid composition and protein expression in E...
2018: Proteome Science
https://www.readbyqxmd.com/read/29491746/profiling-the-interactome-of-protein-kinase-c-%C3%AE-by-proteomics-and-bioinformatics
#9
Chunyu Hou, Yuan Li, Huiqin Liu, Mengjiao Dang, Guoxuan Qin, Ning Zhang, Ruibing Chen
Background: Protein kinase C ζ (PKCζ), an isoform of the atypical protein kinase C, is a pivotal regulator in cancer. However, the molecular and cellular mechanisms whereby PKCζ regulates tumorigenesis and metastasis are still not fully understood. In this study, proteomics and bioinformatics analyses were performed to establish a protein-protein interaction (PPI) network associated with PKCζ, laying a stepping stone to further understand the diverse biological roles of PKCζ. Methods: Protein complexes associated with PKCζ were purified by co-immunoprecipitation from breast cancer cell MDA-MB-231 and identified by LC-MS/MS...
2018: Proteome Science
https://www.readbyqxmd.com/read/29456458/proteomic-identification-and-characterization-of-hepatic-glyoxalase-1-dysregulation-in-non-alcoholic-fatty-liver-disease
#10
Christos Spanos, Elaina M Maldonado, Ciarán P Fisher, Petchpailin Leenutaphong, Ernesto Oviedo-Orta, David Windridge, Francisco J Salguero, Alexandra Bermúdez-Fajardo, Mark E Weeks, Caroline Evans, Bernard M Corfe, Naila Rabbani, Paul J Thornalley, Michael H Miller, Huan Wang, John F Dillon, Alberto Quaglia, Anil Dhawan, Emer Fitzpatrick, J Bernadette Moore
Background: Non-alcoholic fatty liver disease (NAFLD) is the most common liver disease worldwide. However, its molecular pathogenesis is incompletely characterized and clinical biomarkers remain scarce. The aims of these experiments were to identify and characterize liver protein alterations in an animal model of early, diet-related, liver injury and to assess novel candidate biomarkers in NAFLD patients. Methods: Liver membrane and cytosolic protein fractions from high fat fed apolipoprotein E knockout (ApoE-/- ) animals were analyzed by quantitative proteomics, utilizing isobaric tags for relative and absolute quantitation (iTRAQ) combined with nano-liquid chromatography and tandem mass spectrometry (nLC-MS/MS)...
2018: Proteome Science
https://www.readbyqxmd.com/read/29456457/effect-of-ovarian-cancer-ascites-on-skov-3-cells-proteome-new-proteins-associated-with-aggressive-phenotype-in-epithelial-ovarian-cancer
#11
Alfredo Toledo-Leyva, Julio César Villegas-Pineda, Sergio Encarnación-Guevara, Dolores Gallardo-Rincón, Patricia Talamás-Rohana
Background: Epithelial ovarian cancer is the second most lethal gynecological cancer worldwide. Ascites can be found in all clinical stages, however in advanced disease stages IIIC and IV it is more frequent and could be massive, associated with worse prognosis. Due to the above, it was our interest to understanding how the ascites of ovarian cancer patients induces the mechanisms by which the cells present in it acquire a more aggressive phenotype and to know new proteins associated to this process...
2018: Proteome Science
https://www.readbyqxmd.com/read/29375273/proteomic-identification-of-moesin-upon-exposure-to-acrolein
#12
Pureun-Haneul Lee, Byeong-Gon Kim, Sun-Hye Lee, George D Leikauf, An-Soo Jang
Background: Acrolein (allyl Aldehyde) as one of smoke irritant exacerbates chronic airway diseases and increased in sputum of patients with asthma and chronic obstructive lung disease. But underlying mechanism remains unresolved. The aim of study was to identify protein expression in human lung microvascular endothelial cells (HMVEC-L) exposed to acrolein. Methods: A proteomic approach was used to determine the different expression of proteins at 8 h and 24 h after treatment of acrolein 30 nM and 300 nM to HMVEC-L...
2018: Proteome Science
https://www.readbyqxmd.com/read/29339928/chemical-proteomics-an-integrated-research-engine-for-exploring-drug-target-phenotype-interactions
#13
EDITORIAL
Ho Jeong Kwon, Peter Karuso
No abstract text is available yet for this article.
2018: Proteome Science
https://www.readbyqxmd.com/read/29158724/comparative-proteomic-analysis-between-nitrogen-supplemented-and-starved-conditions-in-magnaporthe-oryzae
#14
Yeonyee Oh, Suzanne L Robertson, Jennifer Parker, David C Muddiman, Ralph A Dean
Background: Fungi are constantly exposed to nitrogen limiting environments, and thus the efficient regulation of nitrogen metabolism is essential for their survival, growth, development and pathogenicity. To understand how the rice blast pathogen Magnaporthe oryzae copes with limited nitrogen availability, a global proteome analysis under nitrogen supplemented and nitrogen starved conditions was completed. Methods: M. oryzae strain 70-15 was cultivated in liquid minimal media and transferred to media with nitrate or without a nitrogen source...
2017: Proteome Science
https://www.readbyqxmd.com/read/29093645/proteomic-analysis-of-early-salt-stress-responsive-proteins-in-alfalfa-roots-and-shoots
#15
Junbo Xiong, Yan Sun, Qingchuan Yang, Hong Tian, Heshan Zhang, Yang Liu, Mingxin Chen
Background: Alfalfa ( Medicago sativa ) is the most extensively cultivated forage legume in the world, and salinity stress is the most problematic environmental factors limiting alfalfa production. To evaluate alfalfa tissue variations in response to salt stress, comparative physiological and proteomic analyses were made of salt responses in the roots and shoots of the alfalfa. Method: A two-dimensional gel electrophoresis (2-DE)-based proteomic technique was employed to identify the differentially abundant proteins (DAPs) from salt-treated alfalfa roots and shoots of the salt tolerance cultivars Zhongmu No 1 cultivar, which was subjected to a range of salt stress concentrations for 9 days...
2017: Proteome Science
https://www.readbyqxmd.com/read/28785172/iron-overload-down-regulates-the-expression-of-the-hiv-1-rev-cofactor-eif5a-in-infected-t-lymphocytes
#16
Carmine Mancone, Alessio Grimaldi, Giulia Refolo, Isabella Abbate, Gabriella Rozera, Dario Benelli, Gian Maria Fimia, Vincenzo Barnaba, Marco Tripodi, Mauro Piacentini, Fabiola Ciccosanti
BACKGROUND: Changes in iron metabolism frequently accompany HIV-1 infection. However, while many clinical and in vitro studies report iron overload exacerbates the development of infection, many others have found no correlation. Therefore, the multi-faceted role of iron in HIV-1 infection remains enigmatic. METHODS: RT-qPCR targeting the LTR region, gag, Tat and Rev were performed to measure the levels of viral RNAs in response to iron overload. Spike-in SILAC proteomics comparing i) iron-treated, ii) HIV-1-infected and iii) HIV-1-infected/iron treated T lymphocytes was performed to define modifications in the host cell proteome...
2017: Proteome Science
https://www.readbyqxmd.com/read/28725163/examining-the-influence-of-specificity-ligands-and-atp-competitive-ligands-on-the-overall-effectiveness-of-bivalent-kinase-inhibitors
#17
Margaret L Wong, Jason Murphy, Edmund Harrington, Carrie M Gower, Rishi K Jain, Markus Schirle, Jason R Thomas
BACKGROUND: Identifying selective kinase inhibitors remains a major challenge. The design of bivalent inhibitors provides a rational strategy for accessing potent and selective inhibitors. While bivalent kinase inhibitors have been successfully designed, no comprehensive assessment of affinity and selectivity for a series of bivalent inhibitors has been performed. Here, we present an evaluation of the structure activity relationship for bivalent kinase inhibitors targeting ABL1. METHODS: Various SNAPtag constructs bearing different specificity ligands were expressed in vitro...
2016: Proteome Science
https://www.readbyqxmd.com/read/28680364/daptomycin-a-last-resort-antibiotic-binds-ribosomal-protein-s19-in-humans
#18
Michael P Gotsbacher, Sungmin Cho, Ho Jeong Kwon, Peter Karuso
BACKGROUND: Daptomycin is a recently introduced, last-resort antibiotic that displays a unique mode of action against Gram-positive bacteria that is not fully understood. Several bacterial targets have been proposed but no human binding partner is known. METHODS: In the present study we tested daptomycin in cell viability and proliferation assays against six human cell lines, describe the synthesis of biotinylated and fluorescently labeled analogues of daptomycin...
2016: Proteome Science
https://www.readbyqxmd.com/read/28674480/tetrazine-ligation-for-chemical-proteomics
#19
REVIEW
Kyungtae Kang, Jongmin Park, Eunha Kim
Determining small molecule-target protein interaction is essential for the chemical proteomics. One of the most important keys to explore biological system in chemical proteomics field is finding first-class molecular tools. Chemical probes can provide great spatiotemporal control to elucidate biological functions of proteins as well as for interrogating biological pathways. The invention of bioorthogonal chemistry has revolutionized the field of chemical biology by providing superior chemical tools and has been widely used for investigating the dynamics and function of biomolecules in live condition...
2016: Proteome Science
https://www.readbyqxmd.com/read/28652856/photo-affinity-labeling-pal-in-chemical-proteomics-a-handy-tool-to-investigate-protein-protein-interactions-ppis
#20
REVIEW
Dhiraj P Murale, Seong Cheol Hong, Md Mamunul Haque, Jun-Seok Lee
Protein-protein interactions (PPIs) trigger a wide range of biological signaling pathways that are crucial for biomedical research and drug discovery. Various techniques have been used to study specific proteins, including affinity chromatography, activity-based probes, affinity-based probes and photo-affinity labeling (PAL). PAL has become one of the most powerful strategies to study PPIs. Traditional photocrosslinkers are used in PAL, including benzophenone, aryl azide, and diazirine. Upon photoirradiation, these photocrosslinkers (Pls) generate highly reactive species that react with adjacent molecules, resulting in a direct covalent modification...
2016: Proteome Science
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