Determination of the Signal-To-Noise Ratio Enhancement in Comprehensive Three-Dimensional Gas Chromatography

Enabling cuboid-based fisher ratio analysis using total-transfer comprehensive three-dimensional gas chromatography with time-of-flight mass spectrometry

Comprehensive three-dimensional (3D) gas chromatography with time-of-flight mass spectrometry (GC3-TOFMS) is a promising instrumental platform for the separation of volatiles and semi-volatiles due to its increased peak capacity and selectivity relative to comprehensive two-dimensional gas chromatography with TOFMS (GC×GC-TOFMS). Given the recent advances in GC3-TOFMS instrumentation, new data analysis methods are now required to analyze its complex data structure efficiently and effectively. This report highlights the development of a cuboid-based Fisher ratio (F-ratio) analysis for supervised, non-targeted studies. This approach builds upon the previously reported tile-based F-ratio software for GC×GC-TOFMS data. Cuboid-based F-ratio analysis is enabled by constructing 3D cuboids within the GC3-TOFMS chromatogram and calculating F-ratios for every cuboid on a per-mass channel basis. This methodology is evaluated using a GC3-TOFMS data set of jet fuel spiked with both non-native and native components. The neat and spiked jet fuels were collected on a total-transfer (100 % duty cycle) GC3-TOFMS instrument, employing thermal modulation between the first (1D) and second dimension (2D) columns and dynamic pressure gradient modulation between the 2D and third dimension (3D) columns. In total, cuboid-based F-ratio analysis discovered 32 spiked analytes in the top 50 hits at concentration ratios as low as 1.1. In contrast, tile-based F-ratio analysis of the corresponding GC×GC-TOFMS data only discovered 28 of the spiked analytes total, with only 25 of them in the top 50 hits. Along with discovering more analytes, cuboid-based F-ratio analysis of GC3-TOFMS data resulted in fewer false positives. The increased discoverability is due to the added peak capacity and selectivity provided by the 3D column with GC3-TOFMS resulting in improved chromatographic resolution.

Organochlorine pesticides in vegetable oils: An overview of occurrence, toxicity, and chromatographic determination in the past twenty-two years (2000-2022)

Organochlorine pesticides (OCPs) are used globally to control pests in the food industry. However, some have been banned due to their toxicity. Although they have been banned, OCPs are still discharged into the environment and persist for long periods of time. Therefore, this review focused on the occurrence, toxicity, and chromatographic determination of OCPs in vegetable oils over the last 22 years (2000-2022) (111 references).Literature search shows that OCPs kill pests by destroying endocrine, teratogenic, neuroendocrine, immune, and reproductive systems. However, only five studies investigated the fate of OCPs in vegetable oils and the outcome revealed that some of the steps involved during oil processing introduce more OCPs. Moreover, direct chromatographic determination of OCPs was mostly performed using online LC-GC methods fitted with oven transfer adsorption desorption interface. While indirect chromatographic determination was favored by QuEChERS extraction technique, gas chromatography frequently coupled to electron capture detection (ECD), gas chromatography in selective ion monitoring mode (SIM), and gas chromatography tandem mass spectrometry (GC-MS/MS) were the most common techniques used for detection. However, the greatest challenge still faced by analytical chemists is to obtain clean extracts with acceptable extraction recoveries (70-120%). Hence, more research is still required to develop greener and selective extraction methods toward OCPs, thus improving extraction recoveries. Moreover, advanced techniques like gas chromatography high resolution mass spectrometry (GC-HRMS) must also be explored. OCPs prevalence in vegetable oils varied greatly in various countries, and concentrations of up to 1500 µg/kg were reported. Additionally, the percentage of positive samples ranged from 1.1 to 97.5% for endosulfan sulfate.

A method for the determination of 70 pesticides in extra virgin olive oil based on a limited-volume solvent extraction step prior to comprehensive two-dimensional gas chromatography-tandem mass spectrometry

The goal of the present research was to develop a method based on a miniaturized solvent extraction step (using only 500 μL of acetonitrile, with no further clean-up or concentration processes) prior to cryogenic-modulation comprehensive two-dimensional gas chromatography-tandem mass spectrometry for the determination of seventy pesticides in extra virgin olive oil, exploiting the enhanced specificity and sensitivity of this technique. Limits of quantification were always below European legislation residue limits, intra-day precision was between 0.3 and 4.9% (at the 50 and 100 μg kg^-1 concentration levels), inter-day precision was between 1.6 and 6.1% (at the 100 μg kg^-1 concentration level), recovery (at the 20, 50, and 100 μg kg^-1 concentration levels) was in the 14-120% range, accuracy at the initial stage of the work (within repeatability conditions) was between 79 and 110%, while accuracy after 3 months (within intermediate precision conditions) was between 91 and 121% (at the 50 and 100 μg kg^-1 concentration levels). Finally, the matrix effect was always positive, between 16 and 197%. The method was applied to the investigation of twenty samples, and eleven of these were found to be contaminated.

Quantification of substoichiometric modification reveals global tsRNA hypomodification, preferences for angiogenin-mediated tRNA cleavage, and idiosyncratic epitranscriptomes of human neuronal cell-lines

Modification of tRNA is an integral part of the epitranscriptome with a particularly pronounced potential to generate diversity in RNA expression. Eukaryotic tRNA contains modifications in up to 20% of their nucleotides, but not all sites are always fully modified. Combinations and permutations of partially modified sites in tRNAs can generate a plethora of tRNA isoforms, termed modivariants. Here, we investigate the stoichiometry of incompletely modified sites in tRNAs from human cell lines for their information content. Using a panel of RNA modification mapping methods, we assess the stoichiometry of sites that contain the modifications 5-methylcytidine (m5C), 2'-O-ribose methylation (Nm), 3-methylcytidine (m3C), 7-methylguanosine (m7G), and Dihydrouridine (D). We discovered that up to 75% of sites can be incompletely modified and that the differential modification status of a cellular tRNA population holds information that allows to discriminate e.g. different cell lines. As a further aspect, we investigated potential causal connectivity between tRNA modification and its processing into tRNA fragments (tiRNAs and tRFs). Upon exposure of cultured living cells to cell-penetrating angiogenin, the modification patterns of the corresponding RNA populations was changed. Importantly, we also found that tsRNAs were significantly less modified than their parent tRNAs at numerous sites, suggesting that tsRNAs might derive chiefly from hypomodified tRNAs.