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Ion Mobility‐Enhanced Data‐Independent Acquisitions Enable a Deep Proteomic Landscape of Oligodendrocytes

Published: Oct 16, 2017

Author(s): Juliana S. Cassoli, Caroline Brandão‐Teles, Aline G. Santana, Gustavo H. M. F. Souza, Daniel Martins‐de‐Souza

Journal: PROTEOMICS

Abstract Oligodendrocytes are a type of neuroglia that provide trophic support and insulation to axons in the central nervous system. The genesis and maturation of oligodendrocytes are essential processes for myelination and the course of CNS development. Using ion mobility‐enhanced, data‐independent acquisitions and 2D‐nanoUPLC fractionation operating at nanoscale flow rates, we established a comprehensive data set of proteins...

Read More thumbnail image: Ion MobilityEnhanced DataIndependent Acquisitions Enable a Deep Proteomic Landscape of Oligodendrocytes

Proteogenomic Insights into the Intestinal Parasite Blastocystis sp. Subtype 4 Isolate WR1

Published: Oct 16, 2017

Author(s): Jean Armengaud, Olivier Pible, Jean‐Charles Gaillard, Amandine Cian, Nausicaa Gantois, Kevin S. W. Tan, Magali Chabé, Eric Viscogliosi

Journal: PROTEOMICS

Abstract Blastocystis sp. is known for years as a highly prevalent anaerobic eukaryotic parasite of humans and animals. Several monophyletic clades have been delineated based on molecular data, and the occurrence of each subtype in humans and/or animal hosts has been documented. The genome of several representatives has been sequenced revealing specific traits such as an intriguing 3'‐end processing of primary transcripts. Here, a...

Read More thumbnail image: Proteogenomic Insights into the Intestinal Parasite Blastocystis sp_ Subtype 4 Isolate WR1

Simultaneous determination of serum propafenone and its metabolites using high‐performance liquid chromatography

Published: Oct 15, 2017

Author(s): Yuki Shirayama, Kosuke Doki, Yukio Sekiguchi, Kazutaka Aonuma, Yukinao Kohda, Masato Homma

Journal: Biomedical Chromatography

Abstract Propafenone, a class Ic antiarrhythmic agent, is metabolized to 5‐hydroxypropafeone (5‐OHP) and N‐depropylpropafenone (NDPP). Simultaneous determination of serum propafenone and its metabolites was performed using HPLC equipped with a conventional octadecylsilyl silica column and ultraviolet detector. The wavelength was set at 250 nm. Propafenone and its metabolites in the serum were extracted using diethyl ether. The mobile phase...

Read More thumbnail image: Simultaneous determination of serum propafenone and its metabolites using highperformance liquid chromatography

Quantification through TLC‐densitometric analysis, repellency and anticholinesterase activity of the homemade extract of Indian cloves

Published: Oct 15, 2017

Author(s): Raphael S. Affonso, Josélia A. Lima, Bruno M. Lessa, João V. O. Caetano, Marcos T. Obara, Andréa B. Nóbrega, Eugenie Nepovimova, Kamil Musilek, Kamil Kuca, Gláucia B. C. A. Slana, Tanos C. C. França

Journal: Biomedical Chromatography

Abstract The rise of the mosquitoes‐transmitted diseases, like dengue, zika and chikungunya in Brazil in the last years has increased concerns on protection against mosquitoes bites. However, the prohibitive prices of the commercially available repellents for the majority of the Brazilian population has provoked a search for cheaper solutions, like the use of the homemade ethanolic extract of Indian clove (Syzygium aromaticum L.) as...

Read More thumbnail image: Quantification through TLCdensitometric analysis repellency and anticholinesterase activity of the homemade extract of Indian cloves

Dynamic residual pattern of azoxystrobin in Swiss chard with contribution to safety evaluation

Published: Oct 15, 2017

Author(s): Waziha Farha, A. M. Abd El‐Aty, Md. Musfiqur Rahman, Md. Humayun Kabir, Hyung Suk Chung, Han Sol Lee, Jong‐Sup Jeon, Jing Wang, Byung‐Joon Chang, Ho‐Chul Shin, Jae‐Han Shim

Journal: Biomedical Chromatography

Abstract This study aimed at quantifying the residual amount of azoxystrobin in Swiss chard samples grown under greenhouse conditions at two different locations (Gwangju and Naju, Republic of Korea). Samples were extracted with acetonitrile, separated by salting out, and subjected to purification by using solid‐phase extraction. The analyte was identified using liquid chromatography–ultraviolet detection. The linearity of the...

Read More thumbnail image: Dynamic residual pattern of azoxystrobin in Swiss chard with contribution to safety evaluation

A rapid and simple HPTLC assay for therapeutic drug monitoring of capecitabine in colorectal cancer patients

Published: Oct 15, 2017

Author(s): Sonali G. Thorat, Rupesh V. Chikhale, Madhukar R. Tajne

Journal: Biomedical Chromatography

Abstract Capecitabine is a prodrug of 5‐flurouracil, employed as a broad spectrum chemotherapeutic agent. It is also used as monotherapy or a combination chemotherapy agent for the treatment of colorectal cancer. Capecitabine is administered in combination with oxaliplatin and hence it is essential to determine that co‐administration does not affect its metabolism. To determine the plasma concentration of capecitabine a simple HPTLC...

Read More thumbnail image: A rapid and simple HPTLC assay for therapeutic drug monitoring of capecitabine in colorectal cancer patients

Plant Proteogenomics: Improvements to the Grapevine Genome Annotation

Published: Oct 13, 2017

Author(s): Brett Chapman, Matthew Bellgard

Journal: PROTEOMICS

Abstract Grapevine is an important perennial fruit to the wine industry, and has implications for the health industry with some causative agents proven to reduce heart disease. Since the sequencing and assembly of grapevine cultivar Pinot Noir, several studies have contributed to its genome annotation. This new study further contributes toward genome annotation efforts by conducting a proteogenomics analysis using the latest genome...

Read More thumbnail image: Plant Proteogenomics Improvements to the Grapevine Genome Annotation

Laser desorption ionization mass spectrometry: Recent progress in matrix‐free and label‐assisted techniques

Published: Oct 13, 2017

Author(s): Arundhoti Mandal, Monisha Singha, Partha Sarathi Addy, Amit Basak

Journal: Mass Spectrometry Reviews

The MALDI‐based mass spectrometry, over the last three decades, has become an important analytical tool. It is a gentle ionization technique, usually applicable to detect and characterize analytes with high molecular weights like proteins and other macromolecules. The earlier difficulty of detection of analytes with low molecular weights like small organic molecules and metal ion complexes with this technique arose...

Read More thumbnail image: Laser desorption ionization mass spectrometry Recent progress in matrixfree and labelassisted techniques

Comparative chemometric analysis for classification of acids and bases via a colorimetric sensor array

Published: Oct 13, 2017

Author(s): Michael J. Kangas, Raychelle M. Burks, Jordyn Atwater, Rachel M. Lukowicz, Billy Garver, Andrea E. Holmes

Journal: Journal of Chemometrics

Abstract With the increasing availability of digital imaging devices, colorimetric sensor arrays are rapidly becoming a simple, yet effective tool for the identification and quantification of various analytes. Colorimetric arrays utilize colorimetric data from many colorimetric sensors, with the multidimensional nature of the resulting data necessitating the use of chemometric analysis. Herein, an 8 sensor colorimetric array was...

Read More thumbnail image: Comparative chemometric analysis for classification of acids and bases via a colorimetric sensor array

Accurate model based on artificial intelligence for prediction of carbon dioxide solubility in aqueous tetra‐ n ‐butylammonium bromide solutions

Published: Oct 13, 2017

Author(s): Seyed‐Ahmad Hoseinpour, Ali Barati‐Harooni, Payam Nadali, Armin Mohebbi, Adel Najafi‐Marghmaleki, Afshin Tatar, Alireza Bahadori

Journal: Journal of Chemometrics

Abstract This study highlights the application of radial basis function (RBF) neural networks, adaptive neuro‐fuzzy inference systems (ANFIS), and gene expression programming (GEP) in the estimation of solubility of CO2 in aqueous solutions of tetra‐n‐butylammonium bromide (TBAB). The experimental data were gathered from a published work in literature. The proposed RBF network was coupled with genetic algorithm (GA) to access a better...

Read More thumbnail image: Accurate model based on artificial intelligence for prediction of carbon dioxide solubility in aqueous tetra n butylammonium bromide solutions

Autotransporter Adhesins in Escherichia coli Pathogenesis

Published: Oct 12, 2017

Author(s): Julieanne L. Vo, Gabriela Constanza Martínez Ortiz, Pramod Subedi, Shivakumar Keerthikumar, Suresh Mathivanan, Jason J. Paxman, Begoña Heras

Journal: PROTEOMICS

Abstract Most bacteria produce adhesion molecules to facilitate the interaction with host cells and establish successful infections. An important group of bacterial adhesins belong to the autotransporter (AT) superfamily, the largest group of secreted and outer membrane proteins in Gram‐negative bacteria. AT adhesins possess diverse functions that facilitate bacterial colonisation, survival and persistence, and as such are often...

Read More thumbnail image: Autotransporter Adhesins in Escherichia coli Pathogenesis

Small but Mighty: Functional Peptides Encoded by Small ORFs in Plants

Published: Oct 12, 2017

Author(s): Polly Yingshan Hsu, Philip N. Benfey

Journal: PROTEOMICS

Abstract Peptides encoded by small open reading frames (sORFs, usually <100 codons) play critical regulatory roles in plant development and environmental responses. Despite their importance, only a small number of these peptides have been identified and characterized. Genomic studies have revealed that many plant genomes contain thousands of possible sORFs, which could potentially encode small peptides. The challenge is to...

Read More thumbnail image: Small but Mighty Functional Peptides Encoded by Small ORFs in Plants

Proteomic Response of Human Umbilical Vein Endothelial Cells to Histamine Stimulation

Published: Oct 12, 2017

Author(s): Pelin Esma Emirbayer, Ankit Sinha, Vladimir Ignatchenko, Stefanie Hoyer, Jan Dörrie, Niels Schaft, Monika Pischetsrieder, Thomas Kislinger

Journal: PROTEOMICS

Abstract The histamine receptors (HRs) represent a subclass of G protein‐coupled receptors (GPCRs) and comprise four subtypes. Due to their numerous physiological and pathological effects, HRs are popular drug targets for the treatment of allergic reactions or the regulation of gastric acid secretion. Hence, an understanding of the functional selectivity of HR ligands has gained importance. These ligands can bind to specific GPCRs...

Read More thumbnail image: Proteomic Response of Human Umbilical Vein Endothelial Cells to Histamine Stimulation

A two‐step method for rapid characterization of electroosmotic flows in capillary electrophoresis

Published: Oct 12, 2017

Author(s): Wenjing Zhang, Muyi He, Tao Yuan, Wei Xu

Journal: ELECTROPHORESIS

Abstract The measurement of electroosmotic flow (EOF) is important in a capillary electrophoresis (CE) experiment in terms of performance optimization and stability improvement. Although several methods exist, there are demanding needs to accurately characterize ultra‐low electroosmotic flow rates (EOF rates), such as in coated capillaries used in protein separations. In this work, a new method, called the two‐step method, was...

Read More thumbnail image: A twostep method for rapid characterization of electroosmotic flows in capillary electrophoresis

Modeling and predicting the solute polarity parameter in reversed‐phase liquid chromatography using quantitative structure–property relationship approaches

Published: Oct 12, 2017

Author(s): Hassan Golmohammadi, Zahra Dashtbozorgi, Sajad Khooshechin

Journal: Journal of Separation Science

Abstract A prediction of quantitative structure–property relationships is developed to model the polarity parameter of a set of 146 organic compounds in acetonitrile in reversed‐phase liquid chromatography. Enhanced replacement method and support vector machine regressions were employed to build prediction models based on molecular descriptors calculated from the structure alone. The correlation coefficients between experimental and...

Read More thumbnail image: Modeling and predicting the solute polarity parameter in reversedphase liquid chromatography using quantitative structureproperty relationship approaches

Qualitative and quantitative analysis of chemical constituents in Ardisiae Japonicae Herba

Published: Oct 11, 2017

Author(s): Ke‐Yun Yu, Wen Gao, Shang‐Zhen Li, Wei Wu, Pei Li, Li‐Li Dou, Yuan‐Zhong Wang, E‐Hu Liu

Journal: Journal of Separation Science

Abstract Ardisiae Japonicae Herba is a well‐known traditional Chinese medicine for the treatment of bronchitis conjunctivitis, pneumonia, and trauma. In this work, a high‐performance liquid chromatography coupled with quadrupole time‐of‐flight mass spectrometry method was first established for the separation and structural identification of the chemical constituents in Ardisiae Japonicae Herba. A total of 15 compounds including...

Read More thumbnail image: Qualitative and quantitative analysis of chemical constituents in Ardisiae Japonicae Herba

Combined endogenous MR biomarkers to predict basal tumor oxygenation and response to hyperoxic challenge

Published: Oct 11, 2017

Author(s): Thanh‐Trang Cao‐Pham, Nicolas Joudiou, Matthias Van Hul, Caroline Bouzin, Patrice D. Cani, Bernard Gallez, Bénédicte F. Jordan

Journal: NMR in Biomedicine

Hypoxia is a common feature of solid tumors, which translates into increased angiogenesis, malignant phenotype cell selection, change in gene expression and greater resistance to radiotherapy and chemotherapy. Therefore, there is a need for markers of hypoxia to stratify patients, in order to personalize treatment to improve therapeutic outcome. However, no modality has yet been validated for the screening of hypoxia in routine clinical...

Read More thumbnail image: Combined endogenous MR biomarkers to predict basal tumor oxygenation and response to hyperoxic challenge

Ultrafine grain formation and coating mechanism arising from a blast coating process: A transmission electron microscopy analysis

Published: Oct 11, 2017

Author(s): Conor F. Dunne, Kevin Roche, Arne Janssen, Xiangli Zhong, M.G. Burke, Barry Twomey, Kenneth T. Stanton

Journal: Surface and Interface Analysis

This article examines the substrate/coating interface of a coating deposited onto mild steel and stainless steel substrates using an ambient temperature blast coating technique known as CoBlast. The process uses a coincident stream of an abrasive blast medium and coating medium particles to modify the substrate surface. The hypothesis for the high bond strength is that the abrasive medium roughens the surface while simultaneously...

Read More thumbnail image: Ultrafine grain formation and coating mechanism arising from a blast coating process A transmission electron microscopy analysis

Effect of thicknesses of InP epilayers on InP/GaAs heterostructure

Published: Oct 11, 2017

Author(s): Jingjuan Li, Zuoxing Guo, Liang Zhao, Zhengquan Jia, Min Zhang, Lei Zhao

Journal: Surface and Interface Analysis

InP epilayers with different thicknesses were grown on GaAs substrates at a low temperature by using metalorganic chemical vapor deposition. Atom force microscope and double‐crystal X‐ray were carried out to investigate the morphology and the crystal quality. Transmission electron microscopy was performed to characterize the microstructure and morphology. It was found that with the epilayer thicknesses increased, the crystal quality was...

Read More thumbnail image: Effect of thicknesses of InP epilayers on InPGaAs heterostructure

Small Proteins Encoded by Unannotated ORFs are Rising Stars of the Proteome, Confirming Shortcomings in Genome Annotations and Current Vision of an mRNA

Published: Oct 11, 2017

Author(s): Vivian Delcourt, Antanas Staskevicius, Michel Salzet, Isabelle Fournier, Xavier Roucou

Journal: PROTEOMICS

Abstract Short ORF‐encoded peptides and small proteins in eukaryotes have been hiding in the shadow of large proteins for a long time. Recently, improved identifications in MS‐based proteomics and ribosome profiling resulted in the detection of large numbers of small proteins. The variety of functions of small proteins is also emerging. It seems to be the right time to reflect on why small proteins remained invisible. In addition to...

Read More thumbnail image: Small Proteins Encoded by Unannotated ORFs are Rising Stars of the Proteome Confirming Shortcomings in Genome Annotations and Current Vision of an mRNA
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