Gas-phase fragmentation studies of biotinylated oligomannuronopyranosides under conditions of collisionally activated dissociation

2017 ◽  
Vol 66 (9) ◽  
pp. 1686-1690
Author(s):  
A. O. Chizhov ◽  
E. A. Khatuntseva ◽  
V. B. Krylov ◽  
M. I. Petruk ◽  
N. E. Nifantiev
2020 ◽  
Vol 22 (9) ◽  
pp. 5057-5069 ◽  
Author(s):  
Jae-ung Lee ◽  
Yeonjoon Kim ◽  
Woo Youn Kim ◽  
Han Bin Oh

A new approach for elucidating gas-phase fragmentation mechanisms is proposed: graph theory-based reaction pathway searches (ACE-Reaction program) and density functional theory (DFT) calculations.


2016 ◽  
Vol 30 ◽  
pp. 20-23 ◽  
Author(s):  
Xiaoping Zhang ◽  
Kezhi Jiang ◽  
Jingfeng Zou ◽  
Zuguang Li ◽  
Mawrong Lee

2009 ◽  
Vol 48 (2) ◽  
pp. 598-606 ◽  
Author(s):  
Michelle T. Ma ◽  
Tom Waters ◽  
Karin Beyer ◽  
Rosemary Palamarczuk ◽  
Peter J. S. Richardt ◽  
...  

2013 ◽  
Vol 2 (Special_Issue) ◽  
pp. S0015-S0015 ◽  
Author(s):  
Cassie J. Fhaner ◽  
Sichang Liu ◽  
Xiao Zhou ◽  
Gavin E. Reid

2018 ◽  
Author(s):  
Anna L. Hodshire ◽  
Brett B. Palm ◽  
M. Lizabeth Alexander ◽  
Qijing Bian ◽  
Pedro Campuzano-Jost ◽  
...  

Abstract. Oxidation flow reactors (OFRs) allow the concentration of a given atmospheric oxidant to be increased beyond ambient levels in order to study secondary organic aerosol (SOA) formation and aging over varying periods of equivalent aging by that oxidant. Previous studies have used these reactors to determine the bulk OA mass and chemical evolution. To our knowledge, no OFR study has focused on the interpretation of the evolving aerosol size distributions. In this study, we use size distribution measurements of the OFR and an aerosol microphysics model to learn about size-dependent processes in the OFR. Specifically, we use OFR exposures between 0.09–0.9 equivalent days of OH aging from the 2011 BEACHON-RoMBAS and the GoAmazon2014/5 field campaigns. We use simulations in the TOMAS (TwO-Moment Aerosol Sectional) microphysics box model to constrain the following parameters in the OFR: (1) the rate constant of gas-phase functionalization reactions of organic compounds with OH, (2) the rate constant of gas-phase fragmentation reactions of organic compounds with OH, (3) the reactive uptake coefficient for heterogeneous fragmentation reactions with OH, (4) the nucleation rate constants for three different nucleation schemes, and (5) an effective accommodation coefficient that accounts for possible particle diffusion limitations of particles larger than 60 nm in diameter. We find the best model-to-measurement agreement when the accommodation coefficient of the larger particles (Dp > 60 nm) was 0.1 or lower (with an accommodation coefficient of 1 for smaller particles), which suggests a diffusion limitation in the larger particles. When using these low accommodation-coefficient values, the model agrees with measurements when using a published H2SO4-organics nucleation mechanism and previously published values of rate constants for gas-phase oxidation reactions. Further, gas-phase fragmentation was found to have a significant impact upon the size distribution, and including fragmentation was necessary for accurately simulating the distributions in the OFR. The model was insensitive to the value of the reactive uptake coefficient on these aging timescales. Monoterpenes and isoprene could explain 24–95 % of the observed change in total volume of aerosol in the OFR, with ambient semivolatile and intermediate-volatility organic compounds (S/IVOCs) appearing to explain the remainder of the change in total volume. These results provide support to the mass-based findings of previous OFR studies, give insight to important size-distribution dynamics in the OFR, and enable the design of future OFR studies focused on new particle formation and/or microphysical processes.


2019 ◽  
Vol 91 (16) ◽  
pp. 10413-10423 ◽  
Author(s):  
Alan Cesar Pilon ◽  
Haiwei Gu ◽  
Daniel Raftery ◽  
Vanderlan da Silva Bolzani ◽  
Norberto Peporine Lopes ◽  
...  

2019 ◽  
Vol 47 (14) ◽  
pp. 7223-7234 ◽  
Author(s):  
Elisabeth Fuchs ◽  
Christoph Falschlunger ◽  
Ronald Micura ◽  
Kathrin Breuker

Abstract The catalytic strategies of small self-cleaving ribozymes often involve interactions between nucleobases and the ribonucleic acid (RNA) backbone. Here we show that multiply protonated, gaseous RNA has an intrinsic preference for the formation of ionic hydrogen bonds between adenine protonated at N3 and the phosphodiester backbone moiety on its 5′-side that facilitates preferential phosphodiester backbone bond cleavage upon vibrational excitation by low-energy collisionally activated dissociation. Removal of the basic N3 site by deaza-modification of adenine was found to abrogate preferential phosphodiester backbone bond cleavage. No such effects were observed for N1 or N7 of adenine. Importantly, we found that the pH of the solution used for generation of the multiply protonated, gaseous RNA ions by electrospray ionization affects phosphodiester backbone bond cleavage next to adenine, which implies that the protonation patterns in solution are at least in part preserved during and after transfer into the gas phase. Our study suggests that interactions between protonated adenine and phosphodiester moieties of RNA may play a more important mechanistic role in biological processes than considered until now.


Molecules ◽  
2019 ◽  
Vol 24 (12) ◽  
pp. 2226 ◽  
Author(s):  
Alexander O. Chizhov ◽  
Yury E. Tsvetkov ◽  
Nikolay E. Nifantiev

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.


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