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MALDI matrix

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https://www.readbyqxmd.com/read/29156586/in-depth-glyco-peptidomics-approach-reveals-unexpected-diversity-of-glycosylated-peptides-and-atypical-post-translational-modifications-in-dendroaspis-angusticeps-snake-venom
#1
Michel Degueldre, Julien Echterbille, Nicolas Smargiasso, Christian Damblon, Charlotte Gouin, Gilles Mourier, Nicolas Gilles, Edwin De Pauw, Loïc Quinton
Animal venoms represent a valuable source of bioactive peptides that can be derived into useful pharmacological tools, or even innovative drugs. In this way, the venom of Dendroaspis angusticeps (DA), the Eastern Green Mamba, has been intensively studied during recent years. It mainly contains hundreds of large toxins from 6 to 9 kDa, each displaying several disulfide bridges. These toxins are the main target of venom-based studies due to their valuable activities obtained by selectively targeting membrane receptors, such as ion channels or G-protein coupled receptors...
November 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29153517/rapid-species-and-subspecies-specific-level-classification-and-identification-of-lactobacillus-casei-group-members-using-maldi-biotyper-combined-with-clinprotools
#2
Chien-Hsun Huang, Lina Huang
Using common taxonomic methods such as 16S rDNA sequencing and physiological and biochemical analysis to identify members of the Lactobacillus casei group (LCG) is time-consuming, expensive and inaccurate. In this study, we applied matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) to rapid discriminate LCG strains by creating an analytical in-house database (IHDB) and to develop a classification model for subspecies-level differentiation based on MS biomarkers using ClinProTools bioinformatics software (Bruker Daltonics, Billerica, MA)...
November 15, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/29149729/functionalized-gold-nanoparticles-as-affinity-nanoprobes-for-multiple-lectins
#3
Karuppuchamy Selvaprakash, Yu-Chie Chen
Glycan-lectin interactions are commonly observed in nature. Analytical methods, which are used to detect lectins that rely on the use of glycan ligand-modified nanoprobes as affinity probes, have been developed. Most of the existing methods are focused on the use of synthetic glycan ligands. Nevertheless, naturally available glycoproteins, such as ovalbumin in chicken egg whites, are good sources for fabricating glycan-immobilized nanoprobes. In this study, we generated functionalized gold nanoparticles (Au NPs) from a one-pot reaction by reacting chicken egg white (cew) proteins with aqueous tetrachloroaurate...
November 8, 2017: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/29148919/bacterial-flora-analysis-of-coliforms-in-sewage-river-water-and-ground-water-using-maldi-tof-mass-spectrometry
#4
Yoshihiro Suzuki, Kouki Niina, Tomonori Matsuwaki, Kei Nukazawa, Atsushi Iguchi
The aim of this study was to rapidly and effectively analyze coliforms, which are the most fundamental indicators of water quality for fecal pollution, using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS). Coliform bacteria were isolated from municipal sewage, river water, and groundwater. For each sample, 100 isolates were determined by MALDI-TOF MS. In addition, these same 100 isolates were also identified via 16S rRNA gene sequence analysis. Obtained MALDI-TOF MS data were compared with the 16S rRNA sequencing analysis, and the validity of MALDI-TOF MS for classification of coliform bacteria was examined...
November 17, 2017: Journal of Environmental Science and Health. Part A, Toxic/hazardous Substances & Environmental Engineering
https://www.readbyqxmd.com/read/29148176/differential-proteomic-analysis-reveals-protein-networks-and-pathways-that-may-contribute-to-helicobacter-pylori-fkbp-type-ppiase-associated-gastric-diseases
#5
Yanmei Zhu, Yuehua Gong, Aodi Li, Moye Chen, Dan Kang, Jun Liu, Yuan Yuan
PURPOSE: Though Helicobacter pylori (H. pylori) has been classified as class I carcinogen, key virulence factor generated by H. pylori that causes gastric cancer remains to be fully determined. Recently, we identified a gastric cancer-associated H. pylori gene, peptidylprolyl isomerase-FK506 binding protein (PPIase-FKBP), and showed that PPIase-FKBP was capable of inducing oncogenic transformation of gastric epithelial cells. But its mechanism was unclear. EXPERIMENTAL DESIGN: We carried out a comparative proteomic analysis of human gastric epithelial cells that either express PPIase-FKBP or green fluorescent protein (GFP) using two-dimensional (2-D) gel electrophoresis and then matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF-MS/MS)...
November 16, 2017: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/29143879/comparison-of-analytical-tools-appropriate-for-identification-of-proteinaceous-additives-in-historical-mortars
#6
Iva Krizova, Julia Schultz, Ivan Nemec, Radomir Cabala, Radovan Hynek, Stepanka Kuckova
Natural organic additives such as eggs, lard, resins, and oils have been added to mortars since ancient times, because the ancient builders knew of their positive effect on the mortar quality. The tradition of adding organic materials to mortars was commonly handed down only verbally for thousands years. However, this practice disappeared in the nineteenth century, when the usage of modern materials started. Today, one of the most recent topics in the industry of building materials is the reusing of natural organic materials and searching for the forgotten ancient recipes...
November 16, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/29141403/lipogels-for-encapsulation-of-hydrophilic-proteins-and-hydrophobic-small-molecules
#7
Celia C Homyak, Ann Fernandez, Mollie A Touve, Bo Zhao, Francesca Anson, Jeanne A Hardy, Richard W Vachet, Nathan C Gianneschi, Jennifer L Ross, S Thayumanavan
Lipid-polymer hybrid materials have the potential to exhibit enhanced stability and loading capabilities in comparison to parent liposome or polymer materials. However, complexities lie in formulating and characterizing such complex nanomaterials. Here we describe a lipid-coated polymer gel (lipogel) formulated using a one-pot methodology, where self-assembling liposomes template a UV-curable polymer gel core. Using fluorescently-labeled lipids, protein, and hydrophobic molecules, we have characterized their formation, purification, stability, and encapsulation efficiency via common instrumentation methods such as dynamic light scattering (DLS), matrix-assisted laser desorption ionization-mass spectrometry (MALDI-MS), UV-Visible spectroscopy, fluorescence spectroscopy, and single particle total internal reflection fluorescence (TIRF) microscopy...
November 15, 2017: Biomacromolecules
https://www.readbyqxmd.com/read/29138856/differentially-expressed-proteins-in-the-human-esophageal-cancer-cell-line-eca%C3%A2-109-in-the-presence-and-absence-of-gemcitabine
#8
Zenghuang Ma, Xiaojie Xue
The present study aimed to screen and study the roles of differentially expressed proteins in the human esophageal cancer cell line Eca‑109, in the presence and absence of gemcitabine (GEM). The 3‑(4,5)‑dimethylthiahiazo (-z-y1)-3,5-di-phenytetrazoliumromide (MTT) method was used to assay the vitality of the Eca‑109 cells following treatment with GEM (1‑16 µg/ml). The cell apoptosis was measured by using fluorescence activated cell sorting. The proteins in the treated Eca‑109 cells were extracted, validated, and assayed via two‑dimensional gel electrophoresis combined with matrix‑assisted laser desorption/ionization time of flight mass spectrometry (MALDI‑TOF‑MS)...
November 14, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29138776/photoelectron-spectroscopy-and-density-functional-theory-studies-of-fructose-h2o-n-n-1-5-anionic-clusters
#9
Zhen Zeng, Elliot R Bernstein
Photoelectron spectroscopy (PES) and density functional theory (DFT) based calculations are executed to characterize gas phase, isolated (fructose + (H2O)n)(-) (n = 1-5) anionic species produced using a matrix assisted laser desorption ionization (MALDI) method. Gas phase, isolated (fructose + (H2O)n)(-) (n = 1-5) cluster anions mainly exist as open chain structures with conformational and positional isomers in the present experiments. Some cyclic structures of (fructose + (H2O)n)(-) (n = 3, 4) are apparently present in the experiments and their VDEs can contribute to the lower energy shoulders of PES features observed for (fructose + (H2O)n)(-) (n = 3, 4)...
November 15, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/29138467/bacillus-classification-based-on-matrix-assisted-laser-desorption-ionization-time-of-flight-mass-spectrometry-effects-of-culture-conditions
#10
Lin-Jie Shu, Yu-Liang Yang
Matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) is a reliable and rapid technique applied widely in the identification and classification of microbes. MALDI-TOF MS has been used to identify many endospore-forming Bacillus species; however, endospores affect the identification accuracy when using MALDI-TOF MS because they change the protein composition of samples. Since culture conditions directly influence endospore formation and Bacillus growth, in this study we clarified how culture conditions influence the classification of Bacillus species by using MALDI-TOF MS...
November 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29137652/characterization-of-streptococcus-pneumoniae-isolates-from-austrian-companion-animals-and-horses
#11
Maximilian Ginders, Michael Leschnik, Frank Künzel, Doris Kampner, Claudia Mikula, Georg Steindl, Inga Eichhorn, Andrea T Feßler, Stefan Schwarz, Joachim Spergser, Igor Loncaric
BACKGROUND: The aim of the present study was to investigate the genetic relatedness and the antimicrobial resistance profiles of a collection of Austrian Streptococcus pneumoniae isolates from companion animals and horses. A total of 12 non-repetitive isolates presumptively identified as S. pneumoniae were obtained during routinely diagnostic activities between March 2009 and January 2017. RESULTS: Isolates were confirmed as S. pneumoniae by bile solubility and optochin susceptibility testing, matrix-assisted laser desorption-ionization-time of flight (MALDI-TOF) mass spectrometry and sequence analysis of a part recA and the 16S rRNA genes...
November 14, 2017: Acta Veterinaria Scandinavica
https://www.readbyqxmd.com/read/29137123/proteomic-characterization-of-the-venom-of-five-bombus-thoracobombus-species
#12
Nezahat Pınar Barkan, Mustafa Bilal Bayazit, Duygu Ozel Demiralp
Venomous animals use venom, a complex biofluid composed of unique mixtures of proteins and peptides, to act on vital systems of the prey or predator. In bees, venom is solely used for defense against predators. However, the venom composition of bumble bees (Bombus sp.) is largely unknown. The Thoracobombus subgenus of Bombus sp. is a diverse subgenus represented by 14 members across Turkey. In this study, we sought out to proteomically characterize the venom of five Thoracobombus species by using bottom-up proteomic techniques...
November 11, 2017: Toxins
https://www.readbyqxmd.com/read/29134938/short-term-incubation-of-positive-blood-cultures-in-brain-heart-infusion-broth-accelerates-identification-of-bacteria-by-matrix-assisted-laser-desorption-ionization-time-of-flight-mass-spectrometry
#13
Ignacio Torres, Estela Gimenez, Tania Pascual, Felipe Bueno, Dixie Huntley, Mireia Martínez, David Navarro
PURPOSE: Fast identification of bacteria directly from positive blood cultures (BCs) by matrix-assisted laser desorption/ionization time-of-flight mass-spectrometry (MALDI-TOF MS) can be achieved either using the MALDI Sepsityper kit (protein extraction method) or after a short-term pre-cultivation step on solid medium. We developed a new method that involves short-term enrichment of positive BCs in brain-heart infusion broth (BHI) prior to MALDI-TOF MS analysis. METHODOLOGY: Eighty-four BCs flagged as positive were included in this study; these were processed in parallel either directly using the MALDI Sepsityper kit or following a short-term culture either in BHI or on Columbia blood agar with 5 % sheep blood (CBA)...
November 14, 2017: Journal of Medical Microbiology
https://www.readbyqxmd.com/read/29133088/fructose-human-serum-albumin-interaction-undergoes-numerous-biophysical-and-biochemical-changes-before-forming-ages-and-aggregates
#14
Asif Zaman, Zarina Arif, Moinuddin, Khursheed Alam
Fructose is a reducing and highly lipogenic sugar that has unique metabolic effects in the liver. Non-enzymatic fructosylation of proteins generates advanced glycation end products (AGEs). Human serum albumin (HSA) may undergo fructosylation vis-à-vis AGEs formation. High fructose consumption may lead to structurally altered and functionally compromised fructosylated-HSA-AGEs, which can cause damage to hepatocytes resulting in hepatic macro- and microvesicular steatosis. In this study, HSA was incubated with varying concentrations of fructose for 10days and the induced changes were studied...
November 10, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/29130149/is-lipidomic-the-answer-to-the-search-of-a-biomarker-for-organ-preservation-protocol-in-head-and-neck-squamous-cell-carcinoma
#15
Ana Carolina Laus, Ismael Dale Cotrim Guerreiro da Silva, Fernanda Bertuccez Cordeiro, Edson Guimarães Lo Turco, Luciano de Souza Viana, André Lopes Carvalho
In the last decade organ preservation protocols based on chemoradiotherapy (CRT) has been showing the possibility of preserving function without jeopardizing survival for locally advanced head and neck squamous cell carcinoma (HNSCC). Still, only a percentage of the patients will benefit from this approach and, to date, no biomarkers are known to correctly predict these patients. More recently, modern mass spectrometry method has been used to determine metabolic profiles, and lipidomics, in particular, emerged as a new field of study in oncology and other diseases...
November 13, 2017: Pathology Oncology Research: POR
https://www.readbyqxmd.com/read/29128765/exploring-the-links-between-groundwater-quality-and-bacterial-communities-near-oil-and-gas-extraction-activities
#16
Inês C Santos, Misty S Martin, Michelle L Reyes, Doug D Carlton, Paula Stigler-Granados, Melissa A Valerio, Kristina W Whitworth, Zacariah L Hildenbrand, Kevin A Schug
Bacterial communities in groundwater are very important as they maintain a balanced biogeochemical environment. When subjected to stressful environments, for example, due to anthropogenic contamination, bacterial communities and their dynamics change. Studying the responses of the groundwater microbiome in the face of environmental changes can add to our growing knowledge of microbial ecology, which can be utilized for the development of novel bioremediation strategies. High-throughput and simpler techniques that allow the real-time study of different microbiomes and their dynamics are necessary, especially when examining larger data sets...
November 9, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/29126468/enhancing-carbohydrate-ion-yield-by-controlling-crystalline-structures-in-matrix-assisted-laser-desorption-ionization-mass-spectrometry
#17
Hsun Lee, Yin-Hung Lai, Yu-Meng Ou, Chien-Wei Tsao, Ya-Jin Jheng, Shu-Yun Kuo, Huan-Tsung Chang, Yi-Sheng Wang
Carbohydrate analysis is challenging due to lack of sensitive detection and efficient separation methods. Although matrix-assisted laser desorption/ionization (MALDI) mass spectrometry (MS) is a sensitive tool, the low ionization efficiency of carbohydrates makes mass analyses inefficient. This work systematically examines the correlation between MALDI-MS sensitivity and carbohydrate sample morphology. Depending on the properties of the matrix used, the morphology changes through sample recrystallization after drying or imposition of hydrodynamic flows during droplet drying...
November 22, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/29124930/dual-internal-standards-with-metals-and-molecules-for-maldi-imaging-of-kidney-lipids
#18
Sarah Ahmed Aboulmagd, Diego Esteban-Fernández, Estefania Moreno-Gordaliza, Boris Neumann, Ahmed H El-Khatib, Alberto Lazaro, Alberto Tejedor, M Milagros Gómez-Gómez, Michael W Linscheid
The quest for internal standards useful in MALDI imaging studies goes on to get not only lateral distribution but also reliable abundance of ions, thus quantitative information. We developed a procedure based on application of matrix and dual internal standards to allow intra- and inter-sample normalization of lipids intensities in kidney sections of control and cisplatin-treated Wistar rats. An inkjet printer was used to deposit a custom-prepared ink with DHB as MALDI matrix, a primary lipids-based internal standard, and a spiked lanthanide as a secondary internal standard...
November 10, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29123135/high-yield-matrix-free-ionization-of-biomolecules-by-pulse-heating-ion-source
#19
Xi Luo, Phan-Trong Tue, Kiyotaka Sugiyama, Yuzuru Takamura
Matrix-assisted laser desorption/ionization (MALDI) mass spectrometry has been widely used for biomolecular analysis. However, with conventional MALDI, it is difficult to analyse low-molecular-weight compounds because of the interference of matrix ion signals. Here, we report a matrix-free on-chip pulse-heating desorption/ionization (PHDI) method for a wide range of biomolecules ranging from low molecular-weight substances such as glycine (75.7 Da) to large species such as α-lactalbumin (14.2 kDa). Compared with the conventional MALDI, the matrix-free PHDI method affords high yields of singly charged ions with very less fragmentation and background using only one-pulse without light (laser)...
November 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29123122/identification-of-low-oxygen-tolerating-bacteria-in-prostate-secretions-of-cancer-patients-and-discussion-of-possible-aetiological-significance
#20
Roshni Bhudia, Amar Ahmad, Onyinye Akpenyi, Angela Whiley, Mark Wilks, Tim Oliver
The microaerophylic organism Propionibacterium acnes has shown consistent association with prostate cancer (PC). Studies linking circumcision with reduced PC further support anaerobes involvement as circumcision reduces anaerobe colonisation on the glans penis. A 1988 study linked anaerobes with PC but considered them as opportunists in necrotic tumour. A hypothesis that a "Helicobacter-like" process causes PC justified this pilot study. Active surveillance patients were enrolled. Post-prostate massage urine samples were screened using the Matrix-Assisted Laser Desorption/Ionization Time-of-Flight (MALDI-TOF) technique for bacterial identification after culture in anaerobic and aerobic conditions...
November 9, 2017: Scientific Reports
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