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peptide microarrays

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https://www.readbyqxmd.com/read/28644609/galnac-tyrosine-is-a-ligand-of-plant-lectins-antibodies-and-human-and-murine-macrophage-galactose-type-lectins
#1
Ruslan Gibadullin, David Wayne Farnsworth, Joseph J Barchi, Jeffrey C Gildersleeve
In 2011, a new type of protein O-glycosylation was discovered in which N-acetylgalactosamine is attached to the side chain of tyrosine (GalNAc-Tyr). While present on dozens of proteins, the biological roles of GalNAc-Tyr are unknown. To gain insight into this new type of modification, we synthesized a group of GalNAc-Tyr glycopeptides, constructed microarrays, and evaluated potential recognition of GalNAc-Tyr by a series of glycan-binding proteins. Through a series of >150 microarray experiments, we assessed binding properties of a variety of plant lectins, monoclonal antibodies, and endogenous lectins...
June 23, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28643330/muc1-c-is-a-target-in-lenalidomide-resistant-multiple-myeloma
#2
Li Yin, Ashujit Tagde, Reddy Gali, Yu-Tzu Tai, Teru Hideshima, Kenneth Anderson, David Avigan, Donald Kufe
Lenalidomide (LEN) acts directly on multiple myeloma (MM) cells by inducing cereblon-mediated degradation of interferon regulatory factor 4, Ikaros (IKZF)1 and IKZF3, transcription factors that are essential for MM cell survival. The mucin 1 (MUC1) C-terminal transmembrane subunit (MUC1-C) oncoprotein is aberrantly expressed by MM cells and protects against reactive oxygen species (ROS)-mediated MM cell death. The present studies demonstrate that targeting MUC1-C with GO-203, a cell-penetrating peptide inhibitor of MUC1-C homodimerization, is more than additive with LEN in downregulating the WNT/β-catenin pathway, suppressing MYC, and inducing late apoptosis/necrosis...
June 23, 2017: British Journal of Haematology
https://www.readbyqxmd.com/read/28638806/in-vitro-increased-respiratory-activity-of-selected-oral-bacteria-may-explain-competitive-and-collaborative-interactions-in-the-oral-microbiome
#3
Emma Hernandez-Sanabria, Vera Slomka, Esteban R Herrero, Frederiek-Maarten Kerckhof, Lynette Zaidel, Wim Teughels, Nico Boon
Understanding the driving forces behind the shifts in the ecological balance of the oral microbiota will become essential for the future management and treatment of periodontitis. As the use of competitive approaches for modulating bacterial outgrowth is unexplored in the oral ecosystem, our study aimed to investigate both the associations among groups of functional compounds and the impact of individual substrates on selected members of the oral microbiome. We employed the Phenotype Microarray high-throughput technology to analyse the microbial cellular phenotypes of 15 oral bacteria...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/28623379/cathelicidin-deficient-mice-exhibit-increased-survival-and-upregulation-of-key-inflammatory-response-genes-following-cecal-ligation-and-puncture
#4
Patricia Severino, Suely Kubo Ariga, Hermes Vieira Barbeiro, Thais Martins de Lima, Elisangela de Paula Silva, Denise Frediani Barbeiro, Marcel Cerqueira César Machado, Victor Nizet, Fabiano Pinheiro da Silva
Antimicrobial peptides possess a myriad of molecular properties including bacterial killing and the regulation of many aspects of innate immunity. Cathelicidins are a group of antimicrobial peptides widely investigated by the scientific community. Many studies have focused on the bactericidal and pro-inflammatory roles of cathelicidins. Because the role of endogenous cathelicidin expression remains obscure in deep-seated systemic infections, we induced sepsis in cathelicidin knockout and wild-type (WT) mice by cecal ligation and puncture, performing transcriptome screening by DNA microarray in conjunction with other immunologic assays...
June 16, 2017: Journal of Molecular Medicine: Official Organ of the "Gesellschaft Deutscher Naturforscher und Ärzte"
https://www.readbyqxmd.com/read/28618964/role-of-antibodies-to-human-papillomavirus-16-in-prostate-cancer-a-seroscreening-by-peptide-microarray
#5
Xiaojun Zhao, Zheng Zhou, Ye Chen, Wen Chen, Hongwei Ma, Jinxian Pu
Evidence is accumulating in estimating the potential role of human papillomavirus infection in prostate carcinogenesis. However, the results remain inconclusive. We measured the serostatus of antibodies to one of the high-risk human papillomaviruses, human papillomavirus 16, with a newly developed peptide microarray. Serum samples were collected from 75 untreated prostate cancer patients, along with 80 control subjects. We identified 12 peptides with significant differences in prostate cancer samples from all 241 peptides derived from human papillomavirus 16...
June 2017: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/28604802/serological-profiling-of-the-ebv-immune-response-in-chronic-fatigue-syndrome-using-a-peptide-microarray
#6
Madlen Loebel, Maren Eckey, Franziska Sotzny, Elisabeth Hahn, Sandra Bauer, Patricia Grabowski, Johannes Zerweck, Pavlo Holenya, Leif G Hanitsch, Kirsten Wittke, Peter Borchmann, Jens-Ulrich Rüffer, Falk Hiepe, Klemens Ruprecht, Uta Behrends, Carola Meindl, Hans-Dieter Volk, Ulf Reimer, Carmen Scheibenbogen
BACKGROUND: Epstein-Barr-Virus (EBV) plays an important role as trigger or cofactor for various autoimmune diseases. In a subset of patients with Chronic Fatigue Syndrome (CFS) disease starts with infectious mononucleosis as late primary EBV-infection, whereby altered levels of EBV-specific antibodies can be observed in another subset of patients. METHODS: We performed a comprehensive mapping of the IgG response against EBV comparing 50 healthy controls with 92 CFS patients using a microarray platform...
2017: PloS One
https://www.readbyqxmd.com/read/28604784/potential-therapeutic-impact-of-cd13-expression-in-non-small-cell-lung-cancer
#7
Lars Henning Schmidt, Caroline Brand, Janine Stucke-Ring, Christoph Schliemann, Torsten Kessler, Saliha Harrach, Michael Mohr, Dennis Görlich, Alessandro Marra, Ludger Hillejan, Carsten Müller-Tidow, Georg Lenz, Eva Wardelmann, Rainer Wiewrodt, Wolfgang E Berdel, Christian Schwöppe, Wolfgang Hartmann
BACKGROUND: Aminopeptidase N (CD13) is a zinc-binding protease that has functional effects on both cancerogenesis and tumor angiogenesis. Since CD13 is an antigen suitable for molecular targeted therapies (e.g. tTF-NGR induced tumor vascular infarction), we evaluated its impact in NSCLC patients, and tested the effects of the CD13-targeted fusion protein tTF-NGR (truncated tissue factor (tTF) containing the NGR motif: asparagine-glycine-arginine) in vivo in nude mice. METHODS: Expression of both CD13 and CD31 was studied in 270 NSCLC patients by immunohistochemistry...
2017: PloS One
https://www.readbyqxmd.com/read/28593811/leptin-induction-following-irradiation-is-a-conserved-feature-in-mammalian-epithelial-cells-and-tissues
#8
V Licursi, M Cestelli Guidi, G Del Vecchio, C Mannironi, C Presutti, R Amendola, R Negri
PURPOSE: Leptin (LEP) is a peptide hormone with multiple physiological functions. Besides its systemic actions it has important peripheral roles such as a mitogen action on keratinocytes following skin lesions. We previously showed that LEP mRNA is significantly induced in response to neutron irradiation in mouse skin and that the protein increases in the irradiated epidermis and in the related subcutaneous adipose tissue. In this work we investigated on post-transcriptional regulation of LEP by miRNAs and on the conservation of LEP role in radiation response in human...
June 8, 2017: International Journal of Radiation Biology
https://www.readbyqxmd.com/read/28593133/the-hfq-regulon-of-neisseria%C3%A2-meningitidis
#9
Robert A G Huis In 't Veld, Gertjan Kramer, Arie van der Ende, Dave Speijer, Yvonne Pannekoek
The conserved RNA-binding protein, Hfq, has multiple regulatory roles within the prokaryotic cell, including promoting stable duplex formation between small RNAs and mRNAs, and thus hfq deletion mutants have pleiotropic phenotypes. Previous proteome and transcriptome studies of Neisseria meningitidis have generated limited insight into differential gene expression due to Hfq loss. In this study, reversed-phase liquid chromatography combined with data-independent alternate scanning mass spectrometry (LC-MS(E)) was utilized for rapid high-resolution quantitative proteomic analysis to further elucidate the differentially expressed proteome of a meningococcal hfq deletion mutant...
June 2017: FEBS Open Bio
https://www.readbyqxmd.com/read/28581708/optimization-of-d-peptides-for-a%C3%AE-monomer-binding-specificity-enhances-their-potential-to-eliminate-toxic-a%C3%AE-oligomers
#10
Antonia Nicole Klein, Tamar Ziehm, Thomas van Groen, Inga Kadish, Anne Elfgen, Markus Tusche, Maren Thomaier, Kerstin Reiss, Oleksandr Brener, Lothar Gremer, Janine Kutzsche, Dieter Willbold
Amyloid-beta (Aβ) oligomers are thought to be causative for the development and progression of Alzheimer's disease (AD). Starting from the Aβ oligomer eliminating D-enantiomeric peptide D3, we developed and applied a two-step procedure based on peptide microarrays to identify D3 derivatives with increased binding affinity and specificity for monomeric Aβ(1-42) to further enhance the Aβ oligomer elimination efficacy. Out of more than 1,000 D3 derivatives, we selected seven novel D-peptides, named ANK1 to ANK7, and characterized them in more detail in vitro...
June 5, 2017: ACS Chemical Neuroscience
https://www.readbyqxmd.com/read/28581490/assessment-of-tumor-characteristics-based-on-glycoform-analysis-of-membrane-tethered-muc1
#11
Atsushi Matsuda, Michiyo Higashi, Tomomi Nakagawa, Seiya Yokoyama, Atsushi Kuno, Suguru Yonezawa, Hisashi Narimatsu
Clinical tissue specimens are useful for pathological diagnosis, which is, in some cases, supported by visualization of biomolecule localization. In general, diagnostic specificity in molecular pathology is increased by the acquisition of a probe to distinguish the modification of isomers. Although glycosylation is one of the candidate modifications in a protein, comparative glycan analysis of disease-associated proteins derived from a single tissue section is still challenging because of the lack of analytical sensitivity...
June 5, 2017: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://www.readbyqxmd.com/read/28573199/combinatorial-discovery-of-defined-substrates-that-promote-a-stem-cell-state-in-malignant-melanoma
#12
Douglas Zhang, Junmin Lee, Michael B Sun, Yi Pei, James Chu, Martha U Gillette, Timothy M Fan, Kristopher A Kilian
The tumor microenvironment is implicated in orchestrating cancer cell transformation and metastasis. However, specific cell-ligand interactions between cancer cells and the extracellular matrix are difficult to decipher due to a dynamic and multivariate presentation of many signaling molecules. Here we report a versatile peptide microarray platform that is capable of screening for cancer cell phenotypic changes in response to ligand-receptor interactions. Using a screen of 78 peptide combinations derived from proteins present in the melanoma microenvironment, we identify a proteoglycan binding and bone morphogenic protein 7 (BMP7) derived sequence that selectively promotes the expression of several putative melanoma initiating cell markers...
May 24, 2017: ACS Central Science
https://www.readbyqxmd.com/read/28571750/measuring-o-glcnac-cleavage-by-oga-and-cell-lysates-on-a-peptide-microarray
#13
Suhela Sharif, Jie Shi, Mostafa Bourakba, Rob Ruijtenbeek, Roland J Pieters
O-GlcNAcylation is a post-translational modification resulting from the addition of an N-acetylglucosamine moiety to the hydroxyl groups of serine and threonine residues of nuclear and cytoplasmic proteins. In addition, O-GlcNAcylated proteins can be phosphorylated, which suggests the possibility for crosstalk between O-GlcNAcylation and phosphorylation. Dysregulation of O-GlcNAcylation affects cell signaling, transcriptional regulation, cell cycle control and can e.g. lead to tumorigenesis and tumor metastasis...
May 29, 2017: Analytical Biochemistry
https://www.readbyqxmd.com/read/28552814/guiding-recombinant-antivenom-development-by-omics-technologies
#14
REVIEW
Andreas H Laustsen
In this review, the different approaches that have been employed with the aim of developing novel antivenoms against animal envenomings are presented and discussed. Reported efforts have focused on the use of innovative immunization strategies, small molecule inhibitors against enzymatic toxins, endogenous animal proteins with toxin-neutralizing capabilities, and recombinant monoclonal antibodies. Harnessing either of these approaches, antivenom development may benefit from an in-depth understanding of venom compositions and the medical importance of individual venom toxins...
May 24, 2017: New Biotechnology
https://www.readbyqxmd.com/read/28549117/engineering-of-recombinant-wisteria-floribunda-agglutinin-specifically-binding-to-galnac%C3%AE-1-4glcnac-lacdinac
#15
Takashi Sato, Hiroaki Tateno, Hiroyuki Kaji, Yasunori Chiba, Tomomi Kubota, Jun Hirabayashi, Hisashi Narimatsu
Wisteria floribunda agglutinin (WFA) is a useful probe for distinguishing glycan structural alterations in diseases such as intrahepatic bile duct carcinoma and hepatic fibrosis; however, the gene encoding WFA has not been identified. Here, we identified the gene encoding WFA, and recombinant WFA was expressed in Escherichia coli and purified. The natural cDNA sequence obtained from wisteria seeds contained an open reading frame of 861 nucleotides encoding a WFA precursor, which included a hydrophobic signal peptide at the N-terminus, a propeptide at the C-terminus and a single cysteine (Cys) residue for dimer formation...
May 26, 2017: Glycobiology
https://www.readbyqxmd.com/read/28521850/differential-gene-expression-in-porcine-oviduct-during-the-oestrous-cycle
#16
O S Acuña, M Avilés, R López-Úbeda, A Guillén-Martínez, C Soriano-Úbeda, A Torrecillas, P Coy, M J Izquierdo-Rico
The oviduct undergoes changes under the influence of steroid hormones during the oestrous cycle. However, the molecular mechanisms underlying oviductal regulation are not fully understood. The aim of the present study was to identify the gene expression profile of the porcine oviduct in different stages of the cycle using microarray technology. A systematic study was performed on animals at four different stage: prepubertal gilts, and sows in the preovulatory, postovulatory and luteal phase of the oestrous cycle...
May 19, 2017: Reproduction, Fertility, and Development
https://www.readbyqxmd.com/read/28516765/peptide-microarray-based-metal-enhanced-fluorescence-assay-for-multiple-profiling-of-matrix-metalloproteinases-activities
#17
Zhen Lei, Hua Zhang, Yaoqi Wang, Xianying Meng, Zhenxin Wang
Matrix metalloproteinases (MMPs) are closely associated with cancer cell invasion and metastasis. Herein, a fluorescence resonance energy transfer (FRET)-peptide microarray-based metal enhanced fluorescence (MEF) assay is proposed for multiple and sensitive profiling of MMPs activities on a novel Au/Ag@SiO2 substrate. The Au/Ag@SiO2 substrate is prepared by electroless deposition of silver on gold nanoparticle (GNP) seeds, followed by SiO2 shell coating and surface functionalization. The specific FRET peptides are spotted on the Au/Ag@SiO2 substrate to sensitively detect MMPs (MMP-2, -3, -7, -9, -14) via fluorescence recovery by the MMP cleavage of quenched peptide motifs and further enhanced by MEF...
May 26, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28511916/pre-treatment-with-amitriptyline-causes-epigenetic-up-regulation-of-neuroprotection-associated-genes-and-has-anti-apoptotic-effects-in-mouse-neuronal-cells
#18
Nguyen Quoc Vuong Tran, An Nghia Nguyen, Kyoko Takabe, Zentaro Yamagata, Kunio Miyake
Antidepressants, such as imipramine and fluoxetine, are known to alter gene expression patterns by inducing changes in the epigenetic status of neuronal cells. There is also some evidence for the anti-apoptotic effect of various groups of antidepressants; however, this effect is complicated and cell-type dependent. Antidepressants of the tricyclic group, in particular amitriptyline, have been suggested to be beneficial in the treatment of neurodegenerative disorders. We examined whether amitriptyline exerts an anti-apoptotic effect via epigenetic mechanisms...
May 13, 2017: Neurotoxicology and Teratology
https://www.readbyqxmd.com/read/28508359/evolving-relevance-of-neuroproteomics-in-alzheimer-s-disease
#19
Simone Lista, Henrik Zetterberg, Sid E O'Bryant, Kaj Blennow, Harald Hampel
Substantial progress in the understanding of the biology of Alzheimer's disease (AD) has been achieved over the past decades. The early detection and diagnosis of AD and other age-related neurodegenerative diseases, however, remain a challenging scientific frontier. Therefore, the comprehensive discovery (relating to all individual, converging or diverging biochemical disease mechanisms), development, validation, and qualification of standardized biological markers with diagnostic and prognostic functions with a precise performance profile regarding specificity, sensitivity, and positive and negative predictive value are warranted...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28507167/early-activation-of-deleterious-molecular-pathways-in-the-kidney-in-experimental-heart-failure-with-atrial-remodeling
#20
Tomoko Ichiki, Brenda K Huntley, Gail J Harty, S Jeson Sangaralingham, John C Burnett
Heart failure (HF) is a major health problem with worsening outcomes when renal impairment is present. Therapeutics for early phase HF may be effective for cardiorenal protection, however the detailed characteristics of the kidney in early-stage HF (ES-HF), and therefore treatment for potential renal protection, are poorly defined. We sought to determine the gene and protein expression profiles of specific maladaptive pathways of ES-HF in the kidney and heart. Experimental canine ES-HF, characterized by de-novo HF with atrial remodeling but not ventricular fibrosis, was induced by right ventricular pacing for 10 days...
May 2017: Physiological Reports
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