scholarly journals Trends in the Design of New Isobaric Labeling Reagents for Quantitative Proteomics

Molecules ◽  
2019 ◽  
Vol 24 (4) ◽  
pp. 701 ◽  
Author(s):  
Remigiusz Bąchor ◽  
Mateusz Waliczek ◽  
Piotr Stefanowicz ◽  
Zbigniew Szewczuk
Keyword(s):  
Mass Spectrometry ◽  
Quantitative Proteomics ◽  
Chemical Properties ◽  
High Energy ◽  
Tandem Mass ◽  
Peptide Molecule ◽  
Wide Range ◽  
Potential Applications ◽  
Isobaric Tag ◽  
Modern Mass

Modern mass spectrometry is one of the most frequently used methods of quantitative proteomics, enabling determination of the amount of peptides in a sample. Although mass spectrometry is not inherently a quantitative method due to differences in the ionization efficiency of various analytes, the application of isotope-coded labeling allows relative quantification of proteins and proteins. Over the past decade, a new method for derivatization of tryptic peptides using isobaric labels has been proposed. The labels consist of reporter and balanced groups. They have the same molecular weights and chemical properties, but differ in the distribution of stable heavy isotopes. These tags are designed in such a way that during high energy collision induced dissociation (CID) by tandem mass spectrometry, the isobaric tag is fragmented in the specific linker region, yielding reporter ions with different masses. The mass shifts among the reporter groups are compensated by the balancing groups so that the overall mass is the same for all forms of the reagent. Samples of peptides are labeled with the isobaric mass tags in parallel and combined for analysis. Quantification of individual peptides is achieved by comparing the intensity of reporter ions in the tandem mass (MS/MS) spectra. Isobaric markers have found a wide range of potential applications in proteomics. However, the currently available isobaric labeling reagents have some drawbacks, such as high cost of production, insufficient selectivity of the derivatization, and relatively limited enhancement of sensitivity of the analysis. Therefore, efforts have been devoted to the development of new isobaric markers with increased usability. The search for new isobaric markers is focused on developing a more selective method of introducing a tag into a peptide molecule, increasing the multiplexicity of markers, lowering the cost of synthesis, and increasing the sensitivity of measurement by using ionization tags containing quaternary ammonium salts. Here, the trends in the design of new isobaric labeling reagents for quantitative proteomics isobaric derivatization strategies in proteomics are reviewed, with a particular emphasis on isobaric ionization tags. The presented review focused on different types of isobaric reagents used in quantitative proteomics, their chemistry, and advantages offer by their application.

Developments in mycotoxin analysis: an update for 2012-2013

2014 ◽  
Vol 7 (1) ◽  
pp. 3-33 ◽  
Author(s):  
F. Berthiller ◽  
P.A. Burdaspal ◽  
C. Crews ◽  
M.H. Iha ◽  
R. Krska ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Liquid Chromatography ◽  
Sample Preparation ◽  
Ergot Alkaloids ◽  
Tandem Mass ◽  
Wide Range ◽  
Rapid Spread ◽  
Food And Feed ◽  
Mycotoxin Analysis ◽  
The Individual

This review highlights developments in mycotoxin analysis and sampling over a period between mid-2012 and mid-2013. It covers the major mycotoxins: aflatoxins, Alternaria toxins, ergot alkaloids, fumonisins, ochratoxins, patulin, trichothecenes and zearalenone. A wide range of analytical methods for mycotoxin determination in food and feed were developed last year, in particular immunochemical methods and liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS)-based methods. After a section on sampling and sample preparation, due to the rapid spread and developments in the field of LC-MS/MS multimycotoxin methods, a separate section has been devoted to this area of research. It is followed by a section on mycotoxins in botanicals and spices, before continuing with the format of previous reviews in this series with dedicated sections on method developments for the individual mycotoxins.

Adsorption–Desorption Characteristics of ss-DNA on 2D TpTta-COF Studied by Fluorescently Labeled Oligonucleotides

NANO ◽  
2021 ◽  
pp. 2150050
Author(s):  
Zhaoyu Han ◽  
Sen Li ◽  
Shaoxian Yin ◽  
Zhi-Qin Wang ◽  
Yanfei Cai ◽  
...  
Keyword(s):  
Chemical Properties ◽  
Kinetic Mechanism ◽  
Optical Biosensors ◽  
Desorption Kinetic ◽  
Wide Range ◽  
Potential Applications ◽  
Fluorescently Labeled Oligonucleotides ◽  
Adsorption Desorption ◽  
Physical And Chemical ◽  
And Chemical Properties

Being the newest member of the 2D materials family, 2D-nanosheet possesses many distinctive physical and chemical properties resulting in a wide range of potential applications. Recently, it was discovered that 2D COF can adsorb single-stranded DNA (ss-DNA) efficiently as well as usefully to quench fluorophores. These properties make it possible to prepare DNA-based optical biosensors using 2D COF. While practical analytical applications are being demonstrated, the fundamental understanding of binding between 2D COF and DNA in solution received relatively less attention. In this work, we carried out a systematic study to understand the adsorption and desorption kinetic, mechanism, and influencing factors of ss-DNA on the surface of 2D COF. We demonstrated that shorter DNAs are adsorbed more rapidly and bind more tightly to the surface of 2D COF. The adsorption is favored by a higher pH. The different buffer types also can affect the adsorption. In Tris-HCl solution, the adsorption reached highest efficiency. By adding the complementary DNA (cDNA), desorption of the absorbed DNA on 2D COF can be achieved. Further, desorption efficiency can also be exchanged by various surfactant in solution. These findings are important for further understanding of the interactions between DNA and COFs and for the optimization of DNA and COF-based devices and sensors.

212 Fatty Acid Analysis and Composition in Meat by Mass Spectrometry

2021 ◽  
Vol 99 (Supplement_3) ◽  
pp. 111-112
Author(s):  
Thu Dinh
Keyword(s):  
Mass Spectrometry ◽  
Fatty Acids ◽  
Fatty Acid ◽  
Methyl Esters ◽  
Meat Products ◽  
Chemical Properties ◽  
Fatty Acid Analysis ◽  
Animal Fats ◽  
Wide Range ◽  
Mass Spectrometry Technology

Abstract Fatty acids determine the physical and chemical properties of fats. Animal fats, regardless of species, have more saturated and monounsaturated than polyunsaturated fatty acids. The major fatty acids in meat are palmitic (16:0), stearic (18:0), palmitoleic (16:1), oleic (18:1), linoleic (18:2), and linolenic (18:3) acids, among which oleic acid is the most predominant. Arachidonic acid (20:4 cis 5,8,11,14) is an essential fatty acid only found in animal fats and can be used as a quality control indicator in the fatty acid analysis. Fatty acid analysis has been traditionally performed by gas chromatography (GC) of volatile fatty acid derivatives, prominently the methyl esters, and flame ionization detection (FID), in which the carbon chain of fatty acids is degraded to the formylium ion CHO+. The FID is very sensitive and is the most widely used detection method for GC, providing a linear response, i.e., peak area, over a wide range of concentrations. Researchers have been used the FID peak area to calculate the percentages of fatty acids. However, the FID is a “carbon counter” and relies on the “equal per carbon” rule; therefore, at the same molar concentration, fatty acids with a different number of carbons produce different peak areas. The recent development of mass spectrometry technology has improved the specificity of fatty acid detection. Specific target and qualifier ions provide better identification and more accurate quantification of fatty acid concentrations. Although fatty acids can be identified through comparing ion fragmentation with various databases, authentic standards are needed for quantification purposes. Using mass spectrometry, more than 50 fatty acids have been identified in meat samples. Some branched-chain fatty acids may have flavor, safety, and shelf life implications in meat products.

scholarly journals Transfer of a Multiclass Method for over 60 Antibiotics in Food from High Resolution to Low Resolution Mass Spectrometry

Molecules ◽  
2019 ◽  
Vol 24 (16) ◽  
pp. 2935 ◽  
Author(s):  
Giusepponi ◽  
Paoletti ◽  
Barola ◽  
Moretti ◽  
Saluti ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Liquid Chromatography ◽  
High Resolution ◽  
Development Process ◽  
Tandem Mass ◽  
Laboratory Studies ◽  
Low Resolution ◽  
Method Transfer ◽  
Wide Range ◽  
Microbial Residues

A multiclass method has been developed to screen and confirm a wide range of anti-microbial residues in muscle and milk, and validated using liquid-chromatography coupled to (low-resolution, LR) tandem mass spectrometry (LC-QqQ). Over sixty antibiotics, belonging to ten distinct families, were included in the method scope. The development process was rapidly concluded as a result of two previously implemented methods. This consisted of identical sample treatments, followed by liquid chromatography, and coupled with high-resolution (HR) mass spectrometry (LC-Q-Orbitrap). The validation study was performed in the range between 10–1500 μg·kg−1 for muscles and 2–333 μg·kg−1 for milk. The main performance characteristics were estimated and, then, compared to those previously obtained with HR technique. The validity of the method transfer was ascertained also through inter-laboratory studies.

scholarly journals Gas-Phase Fragmentation of Cyclic Oligosaccharides in Tandem Mass Spectrometry

Molecules ◽  
2019 ◽  
Vol 24 (12) ◽  
pp. 2226 ◽  
Author(s):  
Alexander O. Chizhov ◽  
Yury E. Tsvetkov ◽  
Nikolay E. Nifantiev
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
Gas Phase ◽  
Structure Elucidation ◽  
Mass Spectra ◽  
Food Additives ◽  
Tandem Mass ◽  
Modern Mass ◽  
Gas Phase Fragmentation ◽  
Different Sources

Modern mass spectrometry, including electrospray and MALDI, is applied for analysis and structure elucidation of carbohydrates. Cyclic oligosaccharides isolated from different sources (bacteria and plants) have been known for decades and some of them (cyclodextrins and their derivatives) are widely used in drug design, as food additives, in the construction of nanomaterials, etc. The peculiarities of the first- and second-order mass spectra of cyclic oligosaccharides (natural, synthetic and their derivatives and modifications: cyclodextrins, cycloglucans, cyclofructans, cyclooligoglucosamines, etc.) are discussed in this minireview.

scholarly journals LC-MS/MS Analysis of Flavonoid Compounds from Zanthoxylum zanthoxyloides Extracts and Their Antioxidant Activities

2017 ◽  
Vol 12 (12) ◽  
pp. 1934578X1701201
Author(s):  
Yoro Tine ◽  
Yin Yang ◽  
Franck Renucci ◽  
Jean Costa ◽  
Alassane Wélé ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Antioxidant Activities ◽  
Antioxidant Properties ◽  
Tandem Mass ◽  
Pharmacological Effects ◽  
Leaf Extracts ◽  
Fruit Extract ◽  
Wide Range ◽  
Fruit Samples ◽  
Zanthoxylum Zanthoxyloides

Flavonoids are a large group of phenolic secondary metabolites having a wide range of biochemical and pharmacological effects. In this work, a targeted liquid chromatography (LC) coupled with tandem mass spectrometry (MS2) was used to characterize the flavonoid compositions of methanolic plant extracts from separated parts (fruits, leaves, stems, trunk barks, and root barks) of Zanthoxylum zanthoxyloides. Nine flavonoids were reported in this species, including three flavanones, five flavonols and one flavone. Quantitative analysis of flavonoid profiles from Z. zanthoxyloides extracts is useful to a better understanding of the pattern and distribution of metabolites in extract samples. The concentrations of two glycosylated flavanones (neohesperidin and hesperidin) and one flavonol (quercetin) were higher in root and trunk samples compared to fruit samples. These compounds were reported in small amounts in the stem and leaf samples. In contrast, four flavonols (hyperoside, quercetin-3- O-glucopyranoside, datiscin and quercitrin) were present in significant levels only in the leaf extracts. The presence of glycosylated flavanone (eriocitrin) has been reported only in fruit extract. The antioxidant properties of different extracts were tested regarding their scavenging activities on ABTS•+ radical. Leaf and trunk bark extracts exhibited antioxidant activities, while the extracts obtained from other organs (fruits, stems, and root barks) showed low antioxidant properties.

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