From Molecular to Cluster Properties: Rotational Spectroscopy of 2-Aminopyridine and of Its Biomimetic Cluster with Water

We report the observation and analysis of the rotational spectrum of a 1:1 cluster between 2-aminopyridine and water (AMW) carried out with supersonic expansion Fourier transform microwave spectroscopy at 4.7–16.5 GHz. Measurements of the 2-aminopyridine monomer (AMP) were also extended up to 333 GHz for the room-temperature rotational spectrum and to resolve hyperfine splitting resulting from the presence of two 14N quadrupolar nuclei. Supersonic expansion measurements for both AMP and AMW were also carried out for two synthesized isotopic species with single deuteration on the phenyl ring. Nuclear quadrupole hyperfine structure has also been resolved for AMW and the derived splitting constants were used as an aid in structural analysis. The structure of the AMW cluster was determined from the three sets of available rotational constants and the hydrogen bonding configuration is compared with those for clusters with water of similarly sized single-ring molecules. Experimental results aided by quantum chemistry computations allow the conclusion that the water molecule is unusually strongly bound by two hydrogen bonds, OH...N and O...HN, to the NCNH atomic chain of AMP with the potential to replace hydrogen bonds to the identical structural segment in cytosine and adenine in CT and AT nucleic acid base pairs.

EXPRESS: Photoacoustic Detection of Weak Absorption Bands in Infrared Spectra of Calcite

Photoacoustic spectroscopic (PAS) detection of infrared absorption often produces spectra with enhanced intensities for weaker peaks, enabling the detection of features due to overtones and combinations, as well as less-abundant isotopic species. To illustrate this phenomenon, we present and discuss PAS infrared spectra of calcite (CaCO₃). We use linearization of rapid-scan spectra, as well as comparing step-scan and rapid-scan spectra, to demonstrate that saturation is not the driving force behind these enhanced intensities. Our results point to a new knowledge gap, since a theoretical basis for the enhancement of these weak bands has not yet been developed.

Rotational spectrum of isotopic methyl mercaptan, 13CH3SH, in the laboratory and towards Sagittarius B2(N2)

Methyl mercaptan (CH3SH) is a known interstellar molecule with abundances high enough that the detection of some of its minor isotopologues is promising. The present study aims to provide accurate spectroscopic parameters for the 13CH3SH isotopologue to facilitate its identification in the interstellar medium at millimetre and submillimetre wavelengths. Through careful analysis of recent CH3SH spectra from 49–510 GHz and 1.1–1.5 THz recorded at natural isotopic composition, extensive assignments were possible not only for the ground torsional state of 13CH3SH, but also in the first and second excited states. The torsion–rotation spectrum displays complex structure due to the large-amplitude internal rotation of the 13CH3 group, similar to the main and other minor isotopic species of methyl mercaptan. The assigned transition frequencies have been fitted to within experimental error with a 52-parameter model employing the RAM36 programme. With predictions based on this fit, 13CH3SH was searched for in spectra from the Atacama Large Millimetre/sub-millimetre Array (ALMA) towards the Galactic centre source Sgr B2(N2). Several transitions were expected to be observable, but all of them turned out to be severely blended with emission from other species, which prevents us from identifying 13CH3SH in this source.

N₂O isotopocule measurements using laser spectroscopy: analyzer characterization and intercomparison

For the past two decades, the measurement of nitrous oxide (N2O) isotopocules – isotopically substituted molecules 14N15N16O, 15N14N16O and 14N14N18O of the main isotopic species 14N14N16O – has been a promising technique for understanding N2O production and consumption pathways. The coupling of non-cryogenic and tuneable light sources with different detection schemes, such as direct absorption quantum cascade laser absorption spectroscopy (QCLAS), cavity ring-down spectroscopy (CRDS) and off-axis integrated cavity output spectroscopy (OA-ICOS), has enabled the production of commercially available and field-deployable N2O isotopic analyzers. In contrast to traditional isotope-ratio mass spectrometry (IRMS), these instruments are inherently selective for position-specific 15N substitution and provide real-time data, with minimal or no sample pretreatment, which is highly attractive for process studies. Here, we compared the performance of N2O isotope laser spectrometers with the three most common detection schemes: OA-ICOS (N2OIA-30e-EP, ABB – Los Gatos Research Inc.), CRDS (G5131-i, Picarro Inc.) and QCLAS (dual QCLAS and preconcentration, trace gas extractor (TREX)-mini QCLAS, Aerodyne Research Inc.). For each instrument, the precision, drift and repeatability of N2O mole fraction [N2O] and isotope data were tested. The analyzers were then characterized for their dependence on [N2O], gas matrix composition (O2, Ar) and spectral interferences caused by H2O, CO2, CH4 and CO to develop analyzer-specific correction functions. Subsequently, a simulated two-end-member mixing experiment was used to compare the accuracy and repeatability of corrected and calibrated isotope measurements that could be acquired using the different laser spectrometers. Our results show that N2O isotope laser spectrometer performance is governed by an interplay between instrumental precision, drift, matrix effects and spectral interferences. To retrieve compatible and accurate results, it is necessary to include appropriate reference materials following the identical treatment (IT) principle during every measurement. Remaining differences between sample and reference gas compositions have to be corrected by applying analyzer-specific correction algorithms. These matrix and trace gas correction equations vary considerably according to N2O mole fraction, complicating the procedure further. Thus, researchers should strive to minimize differences in composition between sample and reference gases. In closing, we provide a calibration workflow to guide researchers in the operation of N2O isotope laser spectrometers in order to acquire accurate N2O isotope analyses. We anticipate that this workflow will assist in applications where matrix and trace gas compositions vary considerably (e.g., laboratory incubations, N2O liberated from wastewater or groundwater), as well as extend to future analyzer models and instruments focusing on isotopic species of other molecules.

N₂O isotopocule measurements using laser spectroscopy: analyzer characterization and intercomparison

For the past two decades, the measurement of N2O isotopocules – isotopically substituted molecules 14N15N16O, 15N14N16O and 14N14N18O of the main isotopic species 14N14N16O – has been a promising technique for understanding N2O production and consumption pathways. The coupling of non-cryogenic and tuneable light sources with different detection schemes, such as direct absorption quantum cascade laser absorption spectroscopy (QCLAS), cavity ring-down spectroscopy (CRDS) and off-axis integrated cavity output spectroscopy (OA-ICOS), has enabled the production of commercially-available and field-deployable N2O isotopic analyzers. In contrast to traditional isotope-ratio mass-spectrometry (IRMS), these instruments are inherently selective for position-specific 15N substitution and provide real-time data, with minimal or no sample pretreatment, which is highly attractive for process studies. Here, we compared the performance of N2O isotope laser spectrometers with the three most common detection schemes: OA-ICOS (N2OIA-30e-EP, ABB-Los Gatos Research Inc.), CRDS (G5131-i, Picarro Inc.) and QCLAS (dual QCLAS and preconcentration (TREX)–mini QCLAS, Aerodyne Research Inc.). For each instrument, the precision, drift and repeatability of N2O mole fraction [N2O] and isotope data were tested. The analyzers were then characterized for their dependence on [N2O], gas matrix composition (O2, Ar) and spectral interferences caused by H2O, CO2, CH4 and CO to develop analyzer-specific correction functions. Subsequently, a simulated two end-member mixing experiment was used to compare the accuracy and repeatability of corrected and calibrated isotope measurements that could be acquired using the different laser spectrometers. Our results show that N2O isotope laser spectrometer performance is governed by an interplay between instrumental precision, drift, matrix effects and spectral interferences. To retrieve compatible and accurate results, it is necessary to include appropriate reference materials following the identical treatment (IT) principle during every measurement. Remaining differences between sample and reference gas compositions have to be corrected by applying analyzer-specific correction algorithms. These matrix and trace gas correction equations vary considerably according to N2O mole fraction, complicating the procedure further. Thus, researchers should strive to minimize differences in composition between sample and reference gases. In closing, we provide a calibration workflow to guide researchers in the operation of N2O isotope laser spectrometers in order to acquire accurate N2O isotope analyses. We anticipate that this workflow will assist in applications where matrix and trace gas compositions vary considerably (e.g. laboratory incubations, N2O liberated from wastewater or groundwater), as well as extending to future analyzer models and instruments focusing on isotopic species of other molecules.

Laboratory rotational spectroscopy of isotopic acetone, CH313C(O)CH3 and 13CH3C(O)CH3, and astronomical search in Sagittarius B2(N2)

Context. Spectral lines of minor isotopic species of molecules that are abundant in space may also be detectable. Their respective isotopic ratios may provide clues about the formation of these molecules. Emission lines of acetone in the hot molecular core Sagittarius B2(N2) are strong enough to warrant a search for its singly substituted 13C isotopologs. Aims. We want to study the rotational spectra of CH313C(O)CH3 and 13CH3C(O)CH3 and search for them in Sagittarius B2(N2). Methods. We investigated the laboratory rotational spectrum of isotopically enriched CH313C(O)CH3 between 40 GHz and 910 GHz and of acetone between 36 GHz and 910 GHz in order to study 13CH3C(O)CH3 in natural isotopic composition. In addition, we searched for emission lines produced by these species in a molecular line survey of Sagittarius B2(N) carried out with the Atacama Large Millimeter/submillimeter Array (ALMA). Discrepancies between predictions of the main isotopic species and the ALMA spectrum prompted us to revisit the rotational spectrum of this isotopolog. Results. We assigned 9711 new transitions of CH313C(O)CH3 and 63 new transitions of 13CH3C(O)CH3 in the laboratory spectra. More than 1000 additional transitions were assigned for the main isotopic species. We modeled the ground state data of all three isotopologs satisfactorily with the ERHAM program. We find that models of the torsionally excited states v12 = 1 and v17 = 1 of CH3C(O)CH3 improve only marginally. No transitrrrion of CH313C(O)CH3 is clearly detected toward the hot molecular core Sgr B2(N2). However, we report a tentative detection of 13CH3C(O)CH3 with a 12C/13C isotopic ratio of 27 that is consistent with the ratio previously measured for alcohols in this source. Several dozens of transitions of both torsional states of the main isotopolog are detected as well. Conclusion. Our predictions of CH313C(O)CH3 and CH3C(O)CH3 are reliable into the terahertz region. The spectrum of 13CH3C(O)CH3 should be revisited in the laboratory with an enriched sample. The torsionally excited states v12 = 1 and v17 = 1 of CH3C(O)CH3 were not reproduced satisfactorily in our models. Nevertheless, transitions pertaining to both states could be identified unambiguously in Sagittarius B2(N2).

IsoCor: isotope correction for high-resolution MS labeling experiments

Summary Mass spectrometry (MS) is widely used for isotopic studies of metabolism and other (bio)chemical processes. Quantitative applications in systems and synthetic biology require to correct the raw MS data for the contribution of naturally occurring isotopes. Several tools are available to correct low-resolution MS data, and recent developments made substantial improvements by introducing resolution-dependent correction methods, hence opening the way to the correction of high-resolution MS (HRMS) data. Nevertheless, current HRMS correction methods partly fail to determine which isotopic species are resolved from the tracer isotopologues and should thus be corrected. We present an updated version of our isotope correction software (IsoCor) with a novel correction algorithm which ensures to accurately exploit any chemical species with any isotopic tracer, at any MS resolution. IsoCor v2 also includes a novel graphical user interface for intuitive use by end-users and a command-line interface to streamline integration into existing pipelines. Availability and implementation IsoCor v2 is implemented in Python 3 and was tested on Windows, Unix and MacOS platforms. The source code and the documentation are freely distributed under GPL3 license at https://github.com/MetaSys-LISBP/IsoCor/ and https://isocor.readthedocs.io/.