Two-dimensional LC-MS fractioning and cross-matching of mass spectrometric data for rational identification of bioactive compounds in crude extracts

2011 ◽  
Vol 34 (23) ◽  
pp. 3359-3363 ◽  
Author(s):  
Geir Klinkenberg ◽  
Håvard Sletta ◽  
Espen Fjaervik ◽  
Kolbjørn Zahlsen ◽  
Per Bruheim
Keyword(s):  
Bioactive Compounds ◽  
Mass Spectrometric ◽  
Two Dimensional ◽  
Mass Spectrometric Data ◽  
Spectrometric Data ◽  
Crude Extracts ◽  
Cross Matching

scholarly journals Proteomics of Chlamydomonas reinhardtii Light-Harvesting Proteins

2003 ◽  
Vol 2 (5) ◽  
pp. 978-994 ◽  
Author(s):  
Einar J. Stauber ◽  
Andreas Fink ◽  
Christine Markert ◽  
Olaf Kruse ◽  
Udo Johanningmeier ◽  
...  
Keyword(s):  
Chlamydomonas Reinhardtii ◽  
Protein Level ◽  
Light Harvesting ◽  
Phosphorylation Site ◽  
Mass Spectrometric ◽  
Gene Products ◽  
Two Dimensional ◽  
Mass Spectrometric Data ◽  
Spectrometric Data ◽  
Tandem Mass Spectrometric

ABSTRACT With the recent development of techniques for analyzing transmembrane thylakoid proteins by two-dimensional gel electrophoresis, systematic approaches for proteomic analyses of membrane proteins became feasible. In this study, we established detailed two-dimensional protein maps of Chlamydomonas reinhardtii light-harvesting proteins (Lhca and Lhcb) by extensive tandem mass spectrometric analysis. We predicted eight distinct Lhcb proteins. Although the major Lhcb proteins were highly similar, we identified peptides which were unique for specific lhcbm gene products. Interestingly, lhcbm6 gene products were resolved as multiple spots with different masses and isoelectric points. Gene tagging experiments confirmed the presence of differentially N-terminally processed Lhcbm6 proteins. The mass spectrometric data also revealed differentially N-terminally processed forms of Lhcbm3 and phosphorylation of a threonine residue in the N terminus. The N-terminal processing of Lhcbm3 leads to the removal of the phosphorylation site, indicating a potential novel regulatory mechanism. At least nine different lhca-related gene products were predicted by comparison of the mass spectrometric data against Chlamydomonas expressed sequence tag and genomic databases, demonstrating the extensive variability of the C. reinhardtii Lhca antenna system. Out of these nine, three were identified for the first time at the protein level. This proteomic study demonstrates the complexity of the light-harvesting proteins at the protein level in C. reinhardtii and will be an important basis of future functional studies addressing this diversity.

Application of Factor Analysis in Imaging Mass Spectrometric Data Analysis

2014 ◽  
Vol 42 (8) ◽  
pp. 1099-1103 ◽  
Author(s):  
Yi CHEN ◽  
Fei TANG ◽  
Tie-Gang LI ◽  
Jiu-Ming HE ◽  
Zeper ABLIZ ◽  
...  
Keyword(s):  
Factor Analysis ◽  
Data Analysis ◽  
Mass Spectrometric ◽  
Mass Spectrometric Data ◽  
Spectrometric Data

scholarly journals Constructing a data-driven receptor model for organic and inorganic aerosol – a synthesis analysis of eight mass spectrometric data sets from a boreal forest site

2019 ◽  
Vol 19 (6) ◽  
pp. 3645-3672 ◽  
Author(s):  
Mikko Äijälä ◽  
Kaspar R. Daellenbach ◽  
Francesco Canonaco ◽  
Liine Heikkinen ◽  
Heikki Junninen ◽  
...  
Keyword(s):  
Boreal Forest ◽  
Organic Aerosol ◽  
Mass Spectrometric ◽  
Chemical Components ◽  
Forest Site ◽  
Aerosol Composition ◽  
Mass Spectrometric Data ◽  
Spectrometric Data ◽  
Aerosol Mass ◽  
Inorganic Aerosol

Abstract. The interactions between organic and inorganic aerosol chemical components are integral to understanding and modelling climate and health-relevant aerosol physicochemical properties, such as volatility, hygroscopicity, light scattering and toxicity. This study presents a synthesis analysis for eight data sets, of non-refractory aerosol composition, measured at a boreal forest site. The measurements, performed with an aerosol mass spectrometer, cover in total around 9 months over the course of 3 years. In our statistical analysis, we use the complete organic and inorganic unit-resolution mass spectra, as opposed to the more common approach of only including the organic fraction. The analysis is based on iterative, combined use of (1) data reduction, (2) classification and (3) scaling tools, producing a data-driven chemical mass balance type of model capable of describing site-specific aerosol composition. The receptor model we constructed was able to explain 83±8 % of variation in data, which increased to 96±3 % when signals from low signal-to-noise variables were not considered. The resulting interpretation of an extensive set of aerosol mass spectrometric data infers seven distinct aerosol chemical components for a rural boreal forest site: ammonium sulfate (35±7 % of mass), low and semi-volatile oxidised organic aerosols (27±8 % and 12±7 %), biomass burning organic aerosol (11±7 %), a nitrate-containing organic aerosol type (7±2 %), ammonium nitrate (5±2 %), and hydrocarbon-like organic aerosol (3±1 %). Some of the additionally observed, rare outlier aerosol types likely emerge due to surface ionisation effects and likely represent amine compounds from an unknown source and alkaline metals from emissions of a nearby district heating plant. Compared to traditional, ion-balance-based inorganics apportionment schemes for aerosol mass spectrometer data, our statistics-based method provides an improved, more robust approach, yielding readily useful information for the modelling of submicron atmospheric aerosols physical and chemical properties. The results also shed light on the division between organic and inorganic aerosol types and dynamics of salt formation in aerosol. Equally importantly, the combined methodology exemplifies an iterative analysis, using consequent analysis steps by a combination of statistical methods. Such an approach offers new ways to home in on physicochemically sensible solutions with minimal need for a priori information or analyst interference. We therefore suggest that similar statistics-based approaches offer significant potential for un- or semi-supervised machine-learning applications in future analyses of aerosol mass spectrometric data.

scholarly journals Lecythomycin, a New Macrolactone Glycoside from the Endophytic Fungus Lecythophora sp

2011 ◽  
Vol 6 (5) ◽  
pp. 1934578X1100600 ◽  
Author(s):  
Noor Erma Sugijanto ◽  
Arnulf Diesel ◽  
Mostafa Rateb ◽  
Alexander Pretsch ◽  
Selma Gogalic ◽  
...  
Keyword(s):  
Antifungal Activity ◽  
Aspergillus Fumigatus ◽  
Endophytic Fungus ◽  
Mass Spectrometric ◽  
Mass Spectrometric Data ◽  
Minimal Inhibitory Concentrations ◽  
Spectrometric Data ◽  
Isolated Compound

A new macrolactone glycoside, lecythomycin (1), 23-methyl-3-(1- O-mannosyl)-oxacyclotetracosan-1-one, was isolated from the endophytic fungus Lecythophora sp. (code 30.1), an endopyte of the Indonesian plant Alyxia reinwardtii. The structure of 1 was elucidated on the basis of NMR spectroscopic and mass spectrometric data. The isolated compound displayed antifungal activity against strains of Aspergillus fumigatus and Candida kruzei at minimal inhibitory concentrations (MIC) of 62.5 – 125 μg/mL.

scholarly journals Antibacterial Triterpenoids from the Bark of Sonneratia alba (Lythraceae)

2015 ◽  
Vol 10 (2) ◽  
pp. 1934578X1501000
Author(s):  
Harizon ◽  
Betry Pujiastuti ◽  
Dikdik Kurnia ◽  
Dadan Sumiarsa ◽  
Yoshihito Shiono ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Antibacterial Activity ◽  
Mass Spectrometric ◽  
Broth Microdilution ◽  
Mass Spectrometric Data ◽  
Spectrometric Data ◽  
Gram Positive Bacteria ◽  
Microdilution Method ◽  
Sonneratia Alba ◽  
Broth Microdilution Method

The new lupane-type triterpenoid, 3β-hydroxy-lup-9(11), 12-diene, 28-oic acid (1), along with two known lupane-type triterpenoids, lupeol (2) and lupan-3p-ol (3), were isolated from the bark of Sonnetaria alba. The structure of the new compound was elucidated on the basis of spectroscopic and mass spectrometric data analysis. Using the broth microdilution method, all compounds exhibited antibacterial activity against the Gram-positive bacteria Staphylococcus aureus ATCC 6538 and Streptococcus mutans ATCC 25175, with minimum inhibitory concentrations ranging from 15-33 to 35-55 ng/mL, respectively.

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