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peptide microarrays

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https://www.readbyqxmd.com/read/29338178/dna-damage-and-apoptosis-induction-in-cancer-cells-by-chemically-engineered-thiolated-riboflavin-gold-nanoassembly
#1
Abhishek Sau, Sulagna Sanyal, Kallol Bera, Sabyasachi Sen, Amrit Krishna Mitra, Uttam Pal, Prabal Kumar Chakraborty, Sayantan Ganguly, Biswarup Satpati, Chandrima Das, Samita Basu
Herein we have engineered a smart nuclear targeting thiol-modified riboflavin-gold nano assembly, RfS@AuNPs, which accumulates selectively in nucleus without any nuclear-targeting peptides (NLS/RGD) and shows photophysically in vitro DNA intercalation. A theoretical model using Molecular Dynamics has been developed to probe the mechanism of formation and stability as well as dynamics of the RfS@AuNPs in aqueous solution and within DNA microenvironment. The RfS@AuNPs facilitate the binucleated cell formation that is reflected in the significant increase of DNA damage marker, γ-H2AX as well as the arrest of most of the HeLa cells at pre-G1 phase indicating cell death...
January 16, 2018: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29334733/surface-functionalization-with-carboxylic-acids-by-photochemical-microcontact-printing-and-tetrazole-chemistry
#2
Christoph Buten, Sebastian Lamping, Martin Körsgen, Heinrich F Arlinghaus, Craig Jamieson, Bart Jan Ravoo
In this paper we show that carboxylic acid functionalized molecules can be patterned by photochemical microcontact printing on tetrazole-terminated self-assembled monolayers. Upon irradiation, tetrazoles eliminate nitrogen to form highly reactive nitrile imines, which can be ligated with several different nucleophiles, carboxylic acids being most reactive. As a proof of concept, we immobilized trifluoroacetic acid to monitor the reaction with X-ray photoelectron spectroscopy (XPS). Moreover, we also immobilized peptides and fabricated carbohydrate-lectin as well as biotin-streptavidin microarrays using this method...
January 16, 2018: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/29331514/employment-of-proteomic-and-immunological-based-methods-for-the-identification-of-catalase-as-novel-allergen-from-banana
#3
Jasna Nikolić, Andrijana Nešić, Skadi Kull, Frauke Schocker, Uta Jappe, Marija Gavrović-Jankulović
Diagnostic reagents based on food allergen extracts often lack sufficient sensitivity. The introduction of well characterized food allergens in molecular allergy diagnosis has been recognized as valid approach to circumvent unstandardized allergen extracts. Banana fruit (Musa acuminata) is a well-established allergen source which besides six characterized allergens, contains unidentified IgE reactive proteins whose clinical relevance remains undefined. By employment of a combinatorial peptide ligand library (CPLL) methodology with 2-D PAGE, mass spectrometric and 2-D immunoblot analysis, a novel allergen from banana fruit was detected in banana as catalase...
January 10, 2018: Journal of Proteomics
https://www.readbyqxmd.com/read/29312631/proteomic-approach-toward-determining-the-molecular-background-of-pazopanib-resistance-in-synovial-sarcoma
#4
Zhiwei Qiao, Kumiko Shiozawa, Tadashi Kondo
Pazopanib, a multitarget tyrosine kinase (TK) inhibitor, has been approved for treatment of soft tissue sarcoma. Elucidation of the molecular background of pazopanib resistance should lead to improved clinical outcomes in sarcomas; accordingly, we investigated this in synovial sarcoma using a proteomic approach. Pazopanib sensitivity was examined in four synovial sarcoma cell lines: SYO-1, HS-SYII, 1273/99, and YaFuSS. The 1273/99 cell line showed significantly higher IC50 values than the others for pazopanib...
December 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/29299146/targeting-chaperonin-containing-tcp1-cct-as-a-molecular-therapeutic-for-small-cell-lung-cancer
#5
Ana C Carr, Amr S Khaled, Rania Bassiouni, Orielyz Flores, Daniel Nierenberg, Hammad Bhatti, Priya Vishnubhotla, J Perez Manuel, Santimukul Santra, Annette R Khaled
Identifying new druggable targets is desired to meet the needs for effective cancer treatments. To this end, we previously reported the efficacy of a therapeutic peptide called CT20p that displays selective cytotoxicity through inhibition of a multi-subunit, protein-folding complex called Chaperonin-Containing TCP-1 (CCT). To investigate the role of CCT in cancer progression, we examined protein levels of CCT subunits in liver, prostate, and lung cancer using human tissue microarrays. We found that these cancers expressed higher levels of CCT2 as compared to normal tissues...
December 15, 2017: Oncotarget
https://www.readbyqxmd.com/read/29297911/non-natural-amino-acid-peptide-microarrays-to-discover-ebola-virus-glycoprotein-ligands
#6
Joshua A Rabinowitz, John C Lainson, Stephen Albert Johnston, Chris W Diehnelt
We demonstrate a platform to screen a virus pseudotyped with Ebola virus glycoprotein (GP) against a library of peptides that contain non-natural amino acids to develop GP affinity ligands. This system could be used for rapid development of peptide-based antivirals for other emerging or neglected tropical infectious diseases.
January 3, 2018: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/29289663/identification-of-the-antigenic-epitopes-of-maternal-autoantibodies-in-autism-spectrum-disorders
#7
Elizabeth Edmiston, Karen L Jones, Tam Vu, Paul Ashwood, Judy Van de Water
Several groups have described the presence of fetal brain-reactive maternal autoantibodies in the plasma of some mothers whose children have autism spectrum disorder (ASD). We previously identified seven autoantigens targeted by these maternal autoantibodies, each of which is expressed at significant levels in the developing brain and has demonstrated roles in typical neurodevelopment. To further understand the binding repertoire of the maternal autoantibodies, as well as the presence of any meaningful differences with respect to the recognition and binding of these ASD- specific autoantibodies to each of these neuronal autoantigens, we utilized overlapping peptide microarrays incubated with maternal plasma samples obtained from the Childhood Autism Risk from Genetics and Environment (CHARGE) Study...
December 28, 2017: Brain, Behavior, and Immunity
https://www.readbyqxmd.com/read/29288233/the-shsp22-heat-shock-protein-requires-the-abi1-protein-phosphatase-to-modulate-polar-auxin-transport-and-downstream-responses
#8
Yan Li Li, Yaqiong Li, Yao Rong Wu, Yongchang Liu, Qi Xie
The phytohormones abscisic acid (ABA) and indole-3-acetic acid (IAA) response pathways interact synergistically or antagonistically to regulate plant development and environmental adaptation. Here, we show that ABI1, a key negative regulator of ABA signaling, is essential for auxin-modulated root development. We performed a microarray analysis using the loss-of-function mutant abi1-3 and Col-0 seedlings treated with IAA. For sHSP22, an endoplasmic reticulum (ER) small heat shock protein-encoding gene, the induction by IAA was dependent on ABI1...
December 29, 2017: Plant Physiology
https://www.readbyqxmd.com/read/29286404/zika-virus-specific-diagnostic-epitope-discovery
#9
Maite Sabalza, Cheryl A Barber, William R Abrams, Richard Montagna, Daniel Malamud
High-density peptide microarrays allow screening of more than six thousand peptides on a single standard microscopy slide. This method can be applied for drug discovery, therapeutic target identification, and developing of diagnostics. Here, we present a protocol to discover specific Zika virus (ZIKV) diagnostic peptides using a high-density peptide microarray. A human serum sample validated for ZIKV infection was incubated with a high-density peptide microarray containing the entire ZIKV protein translated into 3,423 unique 15 linear amino acid (aa) residues with a 14-aa residue overlap printed in duplicate...
December 12, 2017: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/29286160/identification-and-characterization-of-epitopes-from-influenza-a-virus-hemagglutinin-that-induce-broadly-cross-reactive-antibodies
#10
Yuan Li, Hanyu Hu, Zongli Qi, Jingying Sun, Yan Li, Qing Feng, Chunyan Guo, Haifang Wang, Penghua Zhao, Yang Liu, Xiangrong Zhao, Guanghua Wang, Hai Zhang, Libin Liu, Jun Hu
Influenza is the most common infectious disease and is caused by influenza A virus (IAV) infection. Hemagglutinin (HA) is an important viral protein of influenza A and is a major component of current IAV vaccines. The side effects associated with IAV vaccination are well studied; however, the HA‑induced immunopathological changes have remained largely elusive. The primary objective of the present study was to determine the tissue cross‑reactive epitopes of HA proteins. Monoclonal antibodies (McAbs) were generated according to traditional methods using purified HA proteins from influenza vaccine lysates...
December 22, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/29273450/helicobacter-pylori-depletes-cholesterol-in-gastric-glands-to-prevent-interferon-gamma-signaling-and-escape-the-inflammatory-response
#11
Pau Morey, Lennart Pfannkuch, Ervinna Pang, Francesco Boccellato, Michael Sigal, Aki Imai-Matsushima, Victoria Dyer, Manuel Koch, Hans-Joachim Mollenkopf, Philipp Schlaermann, Thomas F Meyer
BACKGROUND & AIMS: Despite inducing an inflammatory response, Helicobacter pylori can persist in the gastric mucosa for decades. H pylori expression of cholesterol-α-glucosyltransferase (encoded by cgt) is required for gastric colonization and T-cell activation. We investigated how cgt affects gastric epithelial cells and the host immune response. METHODS: MKN45 gastric epithelial cells, AGS cells, and human primary gastric epithelial cells (obtained from patients undergoing gastrectomy or sleeve resection or gastric antral organoids) were incubated with interferon gamma (IFNG) or IFNB and exposed to H pylori, including cagPAI and cgt mutant strains...
December 19, 2017: Gastroenterology
https://www.readbyqxmd.com/read/29246980/savings-memory-is-accompanied-by-transcriptional-changes-that-persist-beyond-the-decay-of-recall
#12
Leticia Perez, Ushma Patel, Marissa Rivota, Irina E Calin-Jageman, Robert J Calin-Jageman
Most long-term memories are forgotten. What happens, then, to the changes in neuronal gene expression that were initially required to encode and maintain the memory? Here we show that the decay of recall for long-term sensitization memory in Aplysia is accompanied both by a form of savings memory (easier relearning) and by persistent transcriptional regulation. A behavioral experiment (N = 14) shows that sensitization training produces a robust long-term sensitization memory, but that recall fades completely within 1 wk...
January 2018: Learning & Memory
https://www.readbyqxmd.com/read/29234579/strategy-to-discover-full-length-amyloid-beta-peptide-ligands-using-high-efficiency-microarray-technology
#13
Clelia Galati, Natalia Spinella, Lucio Renna, Danilo Milardi, Francesco Attanasio, Michele Francesco Maria Sciacca, Corrado Bongiorno
Although the formation of β-amyloid (Aβ) fibrils in neuronal tissues is a hallmark of Alzheimer disease (AD), small-sized Aβ oligomers rather than mature fibrils have been identified as the most neurotoxic species. Therefore, the design of new inhibitors, able to prevent the aggregation of Aβ, is believed to be a promising therapeutic approach to AD. Unfortunately, the short-lived intermediate structures that occur in a solution along the Aβ aggregation pathway escape conventional experimental investigations and there is urgent need of new tools aimed at the discovery of agents targeting monomeric Aβ and blocking the early steps of amyloid aggregation...
2017: Beilstein Journal of Nanotechnology
https://www.readbyqxmd.com/read/29234032/heat-failure-phenotypes-induced-by-knockdown-of-dapit-in-zebrafish-a-new-insight-into-mechanism-of-dilated-cardiomyopathy
#14
Yoji Nagata, Masakazu Yamagishi, Tetsuo Konno, Chiaki Nakanishi, Yoshihiro Asano, Shin Ito, Yuri Nakajima, Osamu Seguchi, Noboru Fujino, Masa-Aki Kawashiri, Seiji Takashima, Masafumi Kitakaze, Kenshi Hayashi
The pathogenesis of heart failure associated with dilated cardiomyopathy (DCM) may result in part from adenosine triphosphate (ATP) dysregulation in the myocardium. Under these conditions, diabetes-associated protein in insulin-sensitive tissue (DAPIT), which is encoded by the upregulated during skeletal muscle growth 5 (USMG5) gene, plays a crucial role in energy production by mitochondrial ATP synthase. To determine whether USMG5 is related to the development of heart failure, we performed clinical and experimental studies...
December 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29221127/long-noncoding-rnas-expression-profile-and-functional-networks-in-rheumatoid-arthritis
#15
Donghua Xu, Ye Jiang, Lu Yang, Xixing Hou, Jihong Wang, Weijun Gu, Xiaodong Wang, Lanyu Liu, Juan Zhang, Hongying Lu
The modifying effects of long noncoding RNAs (lncRNAs) in rheumatoid arthritis (RA) recently have drawn much attention; however, the underlying mechanisms remain largely unknown. Herein, we aim to investigate the expression profile of lncRNAs in RA and identify promising targets for RA diagnosis and treatment. Microarray screening and real-time PCR of lncRNAs were performed by use of serum samples from 3 RA patients and 3 healthy controls. Significantly differentially expressed lncRNAs were verified in serum samples from 43 RA patients and 40 healthy controls by real-time PCR...
November 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/29217616/interactome-mapping-uncovers-a-general-role-for-numb-in-protein-kinase-regulation
#16
Ran Wei, Tomonori Kaneko, Xuguang Liu, Huadong Liu, Lei Li, Courtney Voss, Eric Liu, Ningning He, Shawn S C Li
Cellular functions are frequently regulated by protein-protein interactions involving the binding of a modular domain in one protein to a specific peptide sequence in another.  This mechanism may be explored to identify binding partners for proteins harboring a peptide-recognition domain. Here we report a proteomic strategy combining peptide and protein microarray screening with biochemical and cellular assays to identify modular domain-mediated protein-protein interactions in a systematic manner. We applied this strategy to Numb, a multi-functional protein containing a phosphotyrosine-binding (PTB) domain...
December 7, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/29190077/evaluation-of-matrix-metalloproteinase-inhibition-by-peptide-microarray-based-fluorescence-assay-on-polymer-brush-substrate-and-in-vivo-assessment
#17
Zhen Lei, Hongda Chen, Hua Zhang, Yaoqi Wang, Xianying Meng, Zhenxin Wang
Matrix metalloproteinases (MMPs) are important biomarkers and potential therapeutic targets of tumor. In this report, a peptide microarray-based fluorescence assay is developed for MMPs inhibitors evaluation through immobilization of biotin-modified peptides on the poly(glycidyl methacrylate-co-2-hydroxyethyl methacrylate) (P(GMA-HEMA)) brush modified glass slides. After biotin is recognized with Cy3 modified avidin (Cy3-avidin), the microarrays can produce strong fluorescence signal. The biotin moieties detach from microarray while the biotin-modified peptide substrates are specially cleaved by a MMP, resulting in decreased fluorescence intensity of microarray...
November 30, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29187897/glycan-and-peptide-ige-epitopes-of-the-tnf-alpha-blockers-infliximab-and-adalimumab-precision-diagnostics-by-cross-reactivity-immune-profiling-of-patient-sera
#18
Arne Homann, Niels Röckendorf, Arno Kromminga, Andreas Frey, Thomas A Platts-Mills, Uta Jappe
Biological drugs like therapeutic antibodies are widely used for the treatment of various diseases like inflammatory disorders and cancer. A drawback of these novel treatments is the substantial proportion of patients experiencing adverse reactions such as loss-of-drug effect or hypersensitivity reactions. These reactions are associated with pre-existing and/or developing anti-drug antibodies. Especially IgE development is a risk factor for life-threatening systemic anaphylaxis. METHODS: In order to characterize the individual drug-specific serum IgE, an IgE cross-reactivity immune profiling (ICRIP) assay was developed...
2017: Theranostics
https://www.readbyqxmd.com/read/29177536/novel-biotechnological-platform-based-on-baculovirus-occlusion-bodies-carrying-babesia-bovis-small-antigenic-peptides-for-the-design-of-a-diagnostic-enzyme-linked-immunosorbent-assay-elisa
#19
M G López, H M Pallarés, V Alfonso, S J Carmona, M Farber, O Taboga, S E Wilkowsky
Baculoviruses are large DNA virus of insects principally employed in recombinant protein expression. Its ability to form occlusion bodies (OBs), which are composed mainly of polyhedrin protein (POLH), makes them biotechnologically attractive, as these crystals (polyhedra) can incorporate foreign peptides and can be easily isolated. On the other hand, peptide microarrays allow rapid and inexpensive high-throughput serological screening of new candidates to be incorporated to OBs. To integrate these 2 biotechnological approaches, we worked on Babesia bovis, one of the causative agents of bovine babesiosis...
November 27, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29156833/targeting-aggressive-prostate-cancer-associated-cd44v6-using-phage-display-selected-peptides
#20
Ying Peng, Austin R Prater, Susan L Deutscher
There is a crucial need to identify new biomarkers associated with aggressive prostate cancer (PCa) including those associated with cancer stem cells (CSCs). CD44v6, generated by alternative splicing of CD44, has been proposed as a CSC biomarker due to its correlation with aggressive PCa disease. We hypothesized that phage display selected peptides that target CD44v6 may serve as theranostic agents for aggressive PCa. Here, a 15 amino acid peptide ("PFT") was identified by affinity selection against a peptide derived from the v6 region of CD44v6...
October 17, 2017: Oncotarget
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