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https://www.readbyqxmd.com/read/28435107/wasp-venomic-unravelling-the-toxins-arsenal-of-polybia-paulista-venom-and-its-potential-pharmaceutical-applications
#1
REVIEW
Amilcar Perez-Riverol, José Roberto Aparecido Dos Santos-Pinto, Alexis Musacchio Lasa, Mario Sergio Palma, Márcia Regina Brochetto-Braga
Polybia paulista (Hymenoptera: Vespidae) is a neotropical social wasp from southeast Brazil. As most social Hymenoptera, venom from P. paulista comprises a complex mixture of bioactive toxins ranging from low molecular weight compounds to peptides and proteins. Several efforts have been made to elucidate the molecular composition of the P. paulista venom. Data derived from proteomic, peptidomic and allergomic analyses has enhanced our understanding of the whole envenoming process caused by the insect sting...
April 18, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28430386/peptidome-analysis-of-human-serum-from-normal-and-preeclamptic-pregnancies
#2
Xiaonan Dai, Xuejing Song, Can Rui, Li Meng, Xuan Xue, Hongjuan Ding, Rong Shen, Jun Li, Jingyun Li, Yuanqing Lu, Wei Long
Preeclampsia is a kind of disease that severely harms the health of pregnant women and infants. To better understand the molecular mechanisms involved in preeclampsia, we used liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS) to construct a comparative peptidomic profiling of human serum between normal and preeclamptic pregnancies. A total of 201 peptides were confidently identified, with 21 up-regulated and 3 down-regulated. Further analysis indicated that these differentially expressed peptides correlate with enzyme regulator activity, biological regulation, and coagulation cascades occurring during pathological changes of preeclampsia...
April 21, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28424255/analysis-of-milk-from-mothers-who-delivered-prematurely-reveals-few-changes-in-proteases-and-protease-inhibitors-across-gestational-age-at-birth-and-infant-postnatal-age
#3
Veronique Demers-Mathieu, Søren Drud Nielsen, Mark A Underwood, Robyn Borghese, David C Dallas
Background: Peptidomics research has demonstrated that protease activity is higher in breast milk from preterm-delivering mothers than from term-delivering mothers. However, to our knowledge, the effect of the degree of prematurity and postnatal age on proteases and protease inhibitors in human milk remains unknown.Objective: We aimed to determine the change of proteases and protease inhibitors in milk from mothers who delivered prematurely across gestational age (GA) and postnatal age.Methods: Milk samples were collected from 18 mothers aged 26-40 y who delivered preterm infants and who lacked mastitis...
April 19, 2017: Journal of Nutrition
https://www.readbyqxmd.com/read/28407976/peptidomics-as-a-tool-for-characterizing-bioactive-milk-peptides
#4
Jasminka Giacometti, Alena Buretić-Tomljanović
Food peptidomics is a sub-field of proteomics that focuses on the composition, interactions, and properties of bioactive peptides present in different food matrices. The milk peptidome is considered a valuable source of a number of biologically active peptides. Increasing use of peptidomic techniques-including the application of high-resolution techniques, such as mass spectrometry-has led to enhancements of our knowledge regarding the health benefits of dairy products, as well as improved monitoring for food control and food safety...
September 1, 2017: Food Chemistry
https://www.readbyqxmd.com/read/28407089/gibbscluster-unsupervised-clustering-and-alignment-of-peptide-sequences
#5
Massimo Andreatta, Bruno Alvarez, Morten Nielsen
Receptor interactions with short linear peptide fragments (ligands) are at the base of many biological signaling processes. Conserved and information-rich amino acid patterns, commonly called sequence motifs, shape and regulate these interactions. Because of the properties of a receptor-ligand system or of the assay used to interrogate it, experimental data often contain multiple sequence motifs. GibbsCluster is a powerful tool for unsupervised motif discovery because it can simultaneously cluster and align peptide data...
April 12, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28396735/clinical-proteomics-in-kidney-disease-as-an-exponential-technology-heading-towards-the-disruptive-phase
#6
Maria Dolores Sanchez-Niño, Ana B Sanz, Adrian M Ramos, Beatriz Fernandez-Fernandez, Alberto Ortiz
Exponential technologies double in power or processing speed every year, whereas their cost halves. Deception and disruption are two key stages in the development of exponential technologies. Deception occurs when, after initial introduction, technologies are dismissed as irrelevant, while they continue to progress, perhaps not as fast or with so many immediate practical applications as initially thought. Twenty years after the first publications, clinical proteomics is still not available in most hospitals and some clinicians have felt deception at unfulfilled promises...
April 2017: Clinical Kidney Journal
https://www.readbyqxmd.com/read/28368494/multi-omics-based-identification-of-specific-biochemical-changes-associated-with-pfkelch13-mutant-artemisinin-resistant-plasmodium-falciparum
#7
Ghizal Siddiqui, Anubhav Srivastava, Adrian S Russell, Darren J Creek
Background.: The emergence of artemisinin resistance in the malaria parasite, Plasmodium falciparum, poses a major threat to the control and elimination of malaria. Certain point mutations in the propeller domain of PfKelch13 are associated with resistance, but PfKelch13 mutations do not always result in clinical resistance. The underlying mechanisms associated with artemisinin resistance are poorly understood and the impact of PfKelch13 mutations on cellular biochemistry is not defined...
March 27, 2017: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28367149/major-histocompatibility-complex-mhc-class-i-and-mhc-class-ii-proteins-conformational-plasticity-in-antigen-presentation
#8
REVIEW
Marek Wieczorek, Esam T Abualrous, Jana Sticht, Miguel Álvaro-Benito, Sebastian Stolzenberg, Frank Noé, Christian Freund
Antigen presentation by major histocompatibility complex (MHC) proteins is essential for adaptive immunity. Prior to presentation, peptides need to be generated from proteins that are either produced by the cell's own translational machinery or that are funneled into the endo-lysosomal vesicular system. The prolonged interaction between a T cell receptor and specific pMHC complexes, after an extensive search process in secondary lymphatic organs, eventually triggers T cells to proliferate and to mount a specific cellular immune response...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28362475/the-genetic-basis-of-obesity-complications
#9
Katarzyna Skrypnik, Joanna Suliburska, Damian Skrypnik, Łukasz Pilarski, Julita Reguła, Paweł Bogdański
Intensive research is currently being performed into the genetic background of excess body mass compli- cations such as diabetes, cardiovascular disorders, especially atherosclerosis and coronary heart disease. Chronic inflammation is an important process in the pathogenesis of obesity, wherein there is an aberrant ex- pression of genes encoding adipokines. Visceral tissue is characterized by a higher expression and secretion of interleukin-8, interleukin-1ß and plasminogen activator inhibitor 1 in the subcutaneous tissue secretion of leptin prevails...
January 2017: Acta Scientiarum Polonorum. Technologia Alimentaria
https://www.readbyqxmd.com/read/28356487/a-structural-and-functional-analogue-of-a-bowman-birk-type-protease-inhibitor-from-odorranaschmackeri
#10
Yuxin Wu, Qilin Long, Ying Xu, Shaodong Guo, Tianbao Chen, Lei Wang, Mei Zhou, Yingqi Zhang, Chris Shaw, Brian Walker
Frog skin secretions contain complex peptidomes and peptidic protease inhibitors are one of the biologically- and structurally-described groups of components. In this study, by use of molecular "shotgun" cloning and LC MS/MS fractionation sequencing, a novel Bowman Birk-type heptadecapeptide (AALKGCWTKSIPPKPCF-amide), named OSTI, with a canonical Cys(6)-Cys(16) disulfide bridge, was isolated and identified in Piebald Odorous Frog ( Odorrana schmackeri ) skin secretion. A synthetic replicate of OSTI exhibited trypsin inhibitory activity with a Ki value of 0...
March 29, 2017: Bioscience Reports
https://www.readbyqxmd.com/read/28348009/polymerization-incompetent-uromodulin-in-the-pregnant-stroke-prone-spontaneously-hypertensive-rat
#11
Sheon Mary, Heather Yvonne Small, Justyna Siwy, William Mullen, Ashok Giri, Christian Delles
The kidney is centrally involved in blood pressure regulation and undergoes extensive changes during pregnancy. Hypertension during pregnancy may result in an altered urinary peptidome that could be used to indicate new targets of therapeutic or diagnostic interest. The stroke-prone spontaneously hypertensive rat (SHRSP) is a model of maternal chronic hypertension. Capillary electrophoresis-mass spectrometry was conducted to interrogate the urinary peptidome in SHRSP and the control Wistar-Kyoto strain at three time points: prepregnancy and gestational days 12 and 18...
March 27, 2017: Hypertension
https://www.readbyqxmd.com/read/28339802/alterations-in-urinary-collagen-peptides-in-lupus-nephritis-subjects-correlate-with-renal-dysfunction-and-renal-histopathology
#12
Ru Wei, Benbo Gao, Fei Shih, Ann Ranger, Andrea Dearth, Harald Mischak, Justyna Siwy, Nicolas Wisniacki, Michelle Petri, Linda C Burkly
Background.: The excessive accumulation of extracellular matrix (ECM) in the renal tubulointerstitium is a key component of chronic renal damage in lupus nephritis (LN) and a critical determinant of the disease progression to renal failure. Detection of fibrosis requires renal biopsy and is therefore limited by high risks associated with an invasive procedure. This study explores whether a unique LN urinary peptidome can be identified and whether LN-specific alteration reflects the underlying fibrogenic process of altered ECM turnover...
February 23, 2017: Nephrology, Dialysis, Transplantation
https://www.readbyqxmd.com/read/28306751/peptidomic-and-transcriptomic-profiling-of-four-distinct-spider-venoms
#13
Vera Oldrati, Dominique Koua, Pierre-Marie Allard, Nicolas Hulo, Miriam Arrell, Wolfgang Nentwig, Frédérique Lisacek, Jean-Luc Wolfender, Lucia Kuhn-Nentwig, Reto Stöcklin
Venom based research is exploited to find novel candidates for the development of innovative pharmacological tools, drug candidates and new ingredients for cosmetic and agrochemical industries. Moreover, venomics, as a well-established approach in systems biology, helps to elucidate the genetic mechanisms of the production of such a great molecular biodiversity. Today the advances made in the proteomics, transcriptomics and bioinformatics fields, favor venomics, allowing the in depth study of complex matrices and the elucidation even of minor compounds present in minute biological samples...
2017: PloS One
https://www.readbyqxmd.com/read/28304193/peptidomic-analysis-of-fetal-heart-tissue-for-identification-of-endogenous-peptides-involved-in-tetralogy-of-fallot
#14
Jingjing Zhang, Dong Liang, Qing Cheng, Li Cao, Yun Wu, Yan Wang, Shuping Han, Zhangbin Yu, Xianwei Cui, Tianhui Xu, Dingyuan Ma, Ping Hu, Zhengfeng Xu
Tetralogy of fallot (TOF) is one of the most prevalent types of congenital heart diseases. As a category of bioactive molecules, peptides have been proved to participate in various biological processes. However, the role of endogenous peptides in the pathogenesis of TOF has not been studied. In this study, we performed a comparative peptidomic profile in the fetal heart of TOF and the control group for the first time by liquid chromatography-tandem mass spectrometry. Our data demonstrated that a total of 201 peptides derived from 176 precursor proteins were differentially expressed in the heart tissues of TOF fetuses compared with normal controls, including 41 upregulated peptides and 160 downregulated peptides...
March 17, 2017: DNA and Cell Biology
https://www.readbyqxmd.com/read/28289514/modern-trends-in-animal-venom-research-omics-and-nanomaterials
#15
EDITORIAL
Yuri N Utkin
Animal venom research is a specialized investigation field, in which a number of different methods are used and this array is constantly expanding. Thus, recently emerged omics and nanotechnologies have already been successfully applied to venom research. Animal venoms have been studied for quite a long time. The traditional reductionist approach has been to isolate individual toxins and then study their structure and function. Unfortunately, the characterization of the venom as a whole system and its multiple effects on an entire organism were not possible until recent times...
February 26, 2017: World Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28254676/unveiling-antimicrobial-peptide-generating-human-proteases-using-proteasix
#16
Paulo Bastos, Fábio Trindade, Rita Ferreira, Mercedes Arguello Casteleiro, Robert Stevens, Julie Klein, Rui Vitorino
Extracting information from peptidomics data is a major current challenge, as endogenous peptides can result from the activity of multiple enzymes. Proteolytic enzymes can display overlapping or complementary specificity. The activity spectrum of human endogenous peptide-generating proteases is not fully known. Hence, the indirect study of proteolytic enzymes through the analysis of its substrates is largely hampered. Antimicrobial peptides (AMPs) represent a primordial set of immune defense molecules generated by proteolytic cleavage of precursor proteins...
February 27, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28228285/mass-spectrometry-profiling-of-hla-associated-peptidomes-in-mono-allelic-cells-enables-more-accurate-epitope-prediction
#17
Jennifer G Abelin, Derin B Keskin, Siranush Sarkizova, Christina R Hartigan, Wandi Zhang, John Sidney, Jonathan Stevens, William Lane, Guang Lan Zhang, Thomas M Eisenhaure, Karl R Clauser, Nir Hacohen, Michael S Rooney, Steven A Carr, Catherine J Wu
Identification of human leukocyte antigen (HLA)-bound peptides by liquid chromatography-tandem mass spectrometry (LC-MS/MS) is poised to provide a deep understanding of rules underlying antigen presentation. However, a key obstacle is the ambiguity that arises from the co-expression of multiple HLA alleles. Here, we have implemented a scalable mono-allelic strategy for profiling the HLA peptidome. By using cell lines expressing a single HLA allele, optimizing immunopurifications, and developing an application-specific spectral search algorithm, we identified thousands of peptides bound to 16 different HLA class I alleles...
February 21, 2017: Immunity
https://www.readbyqxmd.com/read/28198139/peptidomics-analysis-of-transient-regeneration-in-the-neonatal-mouse-heart
#18
Yi Fan, Qijun Zhang, Hua Li, Zijie Cheng, Xing Li, Yumei Chen, Yahui Shen, Guixian Song, Lingmei Qian
Neonatal mouse hearts have completely regenerative capability after birth, but the ability to regenerate rapidly lost after 7 days, the mechanism has not been clarified. Previous studies have shown that mRNA profile of adult mouse changed greatly compared to neonatal mouse. So far, there is no research of peptidomics related to heart regeneration. In order to explore the changes of proteins, enzymes and peptides related to the transient regeneration, we used comparative petidomics technique to compare the endogenous peptides in the mouse heart of postnatal 1 and 7 days...
February 15, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28188862/the-ascites-n-glycome-of-epithelial-ovarian-cancer-patients
#19
Karina Biskup, Elena I Braicu, Jalid Sehouli, Rudolf Tauber, Véronique Blanchard
Epithelial ovarian cancer (EOC) is worldwide the sixth most lethal form of cancer occurring in women. More than one third of ovarian patients have ascites at the time of diagnosis and almost all of them have it when recurrence occurs. Although its effect on tumor cell microenvironment remains poorly understood, its presence is correlated with bad diagnosis. In previous studies, we proposed a novel glycan-based biomarker for the diagnosis of EOC, which showed an improved sensitivity and specificity at any stage of the disease and an improved discrimination between malignant and benign ovarian tumors...
March 22, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28188227/the-human-leukocyte-antigen-hla-b27-peptidome-in-vivo-in-spondyloarthritis-susceptible-hla-b27-transgenic-rats-and-the-effect-of-erap1-deletion
#20
Eilon Barnea, Dganit Melamed Kadosh, Yael Haimovich, Nimman Satumtira, Martha L Dorris, Mylinh T Nguyen, Robert E Hammer, Tri M Tran, Robert A Colbert, Joel D Taurog, Arie Admon
HLA-B27 is a class I major histocompatibility (MHC-I) allele that confers susceptibility to the rheumatic disease ankylosing spondylitis (AS) by an unknown mechanism. ERAP1 is an aminopeptidase that trims peptides in the endoplasmic reticulum for binding to MHC-I molecules. ERAP1 shows genetic epistasis with HLA-B27 in conferring susceptibility to AS. Male HLA-B27 transgenic rats develop arthritis and serve as an animal model of AS, whereas female B27 transgenic rats remain healthy. We used large scale quantitative mass spectrometry to identify over 15,000 unique HLA-B27 peptide ligands, isolated after immunoaffinity purification of the B27 molecules from the spleens of HLA-B27 transgenic rats...
April 2017: Molecular & Cellular Proteomics: MCP
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