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At least 1,045 records · Page 58

Mass spectrometry-based proteomics for analysis of hydrophilic phosphopeptides

Protein phosphorylation is a critical post-translational modification (PTM), with cell signaling networks being tightly regulated by protein phosphorylation. Despite recent technological advances in reversed-phase liquid chromatography (RPLC)-mass spectrometry (MS)-based proteomics, comprehensive phosphoproteomic coverage in complex biological systems remains challenging, especially for hydrophilic phosphopeptides that often have multiple phosphorylation sites. Herein we describe an MS-based phosphoproteomics protocol for effective quantitative analysis of hydrophilic phosphopeptides. This protocol was built upon a simple tandem mass tag (TMT)-labeling method for significantly increasing peptide hydrophobicity, thus effectively enhancing RPLC-MS analysis of hydrophilic peptides. Through phosphoproteomic analyses of MCF7 cells, this method was demonstrated to greatly increase the number of identified hydrophilic phosphopeptides and improve MS signal detection. With the TMT labeling method, we were able to identify a previously unreported phosphopeptide from the G protein-coupled receptor (GPCR) CXCR3, QPpSSSR, which is thought to be important in regulating receptor signaling. This protocol is easy to adopt and implement, and thus should have broad utility for effective RPLC-MS analysis of the hydrophilic phosphoproteome as well as other highly hydrophilic analytes.

Hydrophilic phosphopeptide, Phosphoproteomics, TMT↗

Advancing Mass Timber Buildings: Novel Methods Improve Thermal Assessment and Material Use

For nearly a century, thermal demand calculations for buildings have relied on simplified models developed to match the technical constraints of their era. The first standards, introduced in Germany and Austria in 1929, established climate zones and material conductivity coefficients that, with only incremental updates, still underpin many current assessments. Yet, methods such as Hot box testing, originally designed for lightweight insulation, continue to be applied for mass timber buildings, overlooking thermodynamic characteristics confer real-world advantages. Recent research at Oak Ridge National Laboratory incorporates updated methodologies, aligned with ASHRAE Standard 55 (ASHRAE, 2023) accounting for factors such as thermal inertia, inner surface temperatures, emissivity, solar gains, and dynamic outdoor conditions. These factors better reflect observed heating and cooling loads and highlight opportunities for efficient use of materials in mass timber construction. This work provides a framework for designing comfortable, resilient, and resource-efficient buildings while aligning with performance expectations in energy codes.

Pickett, Robert [International Mass Timber Allianc↗

Mass Transfer and Reaction Kinetic Enhanced Electrode for High‐Performance Aqueous Flow Batteries

Abstract A scalable and efficient process to modify electrodes with enhanced mass transfer and reaction kinetics is critical for redox flow batteries (RFBs). For the first time, this work introduces electrochemical exfoliation as a surface modification method of graphite felt (GF) to enhance the mass transfer and reaction kinetics in RFBs. Anion intercalation and subsequent gas evolutions at room temperature for one minute expand the graphite layers that increase the electrode surface area. Meanwhile, sufficient oxygen functional groups are introduced to the electrode, resulting in enhanced reaction kinetics and improved hydrophilicity. Further, spin‐polarized density functional theory is employed to reveal the role of oxygen functional groups in accelerating the vanadium redox reaction. Benefitting from sufficient oxygen groups, larger surface area, and superior wettability, the as‐prepared exfoliated GF (E‐GF) shows exceptional electrocatalytic activity with minimized overpotential, higher volumetric capacity, and improved energy efficiency. The redox flow battery assembled with the E‐GF electrode delivers voltage and energy efficiencies of 89.72% and 86.41% at the current density of 100 mA cm −2 , respectively. Remarkably, compared to the traditional GF treatment method, the elimination of the high temperature and long‐time treatment processes make this approach much more energy and time efficient, scalable, and affordable for large‐scale manufacturing.

Mukhopadhyay, Alolika↗

Regulation of Cathode Mass and Charge Transfer by Structural 3D Engineering for Protonic Ceramic Fuel Cell at 400 °C

Abstract Lowering the operating temperature (ideally below 400 °C) for solid oxide fuel cell (SOFC) technology deployment has been an important transition that introduces the benefit of reduced operational costs and system durability. However, the key technical issue limiting the transition is the sluggish cathodic performance, namely the oxygen reduction reaction (ORR) rate of the conventional sponge‐like cathode dramatically drops as the temperature reduces. In this paper, 3D engineering of a cathode is conducted on a protonic ceramic fuel cell to obtain an enhanced ORR between 400 and 600 °C. Compared with a cell using a conventional sponge‐like cathode, 3D engineering improves the cathode ORR by 41% at 400 °C with a peak power density of 0.410 W cm −2 . A phase field simulation is applied to assist the engineering by understanding the competition between the cathode mass and charge transfer with different cathode porosities. The results show that structural engineering of existing well‐developed cathodes is a simple and effective method to promote cathode ORR for low temperature SOFC by regulating the mass and charge transfer.

Bian, Wenjuan↗

Investigating the impacts of solid phase extraction on dissolved organic matter optical signatures and the pairing with high‐resolution mass spectrometry data across a freshwater stream network

Abstract Advancing our understanding of dissolved organic matter (DOM) chemistry in aquatic systems necessitates the integration of data streams from multiple analytical platforms. Some measurements require pretreatment with solid phase extraction (SPE), while others are performed directly on whole water samples. Evidence has suggested that SPE will be biased against select DOM fractions, leading to concerns over the ability to establish data linkages across platforms with variable needs for SPE pretreatment, such as those from optical measurements and those that provide high‐resolution molecular information. Here, we directly addressed this concern by assessing the impact of SPE on DOM optical properties through excitation–emission matrices with parallel factor analysis (PARAFAC) for 47 samples across a stream network within a single watershed reflective of variable DOM sources. PARAFAC data was further paired with molecular information obtained by Fourier transform ion cyclotron resonance mass spectrometry (FTICR‐MS). A comparison of PARAFAC models first revealed no systematic qualitative differences in major components between whole water DOM and DOM isolated by SPE (SPE‐DOM); however, quantitative biases against select components were observed. Further linkages with FTICR‐MS data revealed that the molecular fingerprint associated with each PARAFAC component was consistent between the whole water DOM and SPE‐DOM. Our results suggest that bulk scale linkages across these analytical platforms could be inferred irrespective of the observed quantitative biases resulting from SPE for samples within this example watershed. This work represents a key step toward the systematic evaluation of linkages between optical and high‐resolution mass spectrometry datasets in freshwater lotic environments.

59 BASIC BIOLOGICAL SCIENCES↗

Identification of Blue Discoloration in PBX 9404 using Ultrahigh Pressure Liquid Chromatography with Quadrupole Time-of-Flight Mass Spectrometry

PBX 9404, composed of 94 wt% HMX (1,3,5,7-Tetranitro-1,3,5,7-tetrazoctane), 3 wt% NC (nitrocellulose), 2.9 wt% CEF (tris(beta-chloroethyl) phosphate) and 0.1 wt% DPA (diphenylamine), has often been observed with a slight to entire blue discoloration of the manufactured prills. This blue discoloration has been observed since the formulation development of PBX 9404 in the late 1950s. In order to determine the source of the blue discoloration in PBX 9404, ultraviolet/visible (UV/Vis) absorbance of PBX 9404 and two potential candidates for the discoloration, p-nitrosodiphenylamine (p-NDPA) and N-nitrosodiphenylamine (N-NDPA) were evaluated. An absorbance band at 590 nm in PBX 9404 sample was attributed to the blue discoloration while p-NDPA and N-NPDA had different absorbance bands. Using the knowledge gained from the UV/Vis analysis, a semi-targeted approach using ultrahigh pressure liquid chromatography coupled to UV/Vis detector and quadrupole time of flight mass spectrometry (UHPLC-UV/Vis-QTOF) was implemented. Investigating the UHPLC-UV/Vis-QTOF chromatograms at a wavelength of 590 nm, a single compound was tentatively identified as being the source of the blue discoloration. Targeted tandem mass spectrometry (MS/MS) on the compound and subsequent analysis indicated that 4,4 -{[4-(Phenylimino)-2,5-cyclohexadien-1-ylidene]methylene}bis(N-phenylaniline), also known as Spirit Blue Base, was the source of the blue discoloration, which was confirmed using a standard. Here, a theory on the formation of Spirit Blue Base in PBX 9404 involving DPA, nitric acid (HNO 3 ) / nitrogen oxide(s) NO x , and formaldehyde is proposed.

36 MATERIALS SCIENCE↗

Trocylation of 3-quinuclidinol, a key marker for the chemical warfare agent 3-quinuclidinyl benzilate, for its enhanced detection at low levels in complex soil matrices by electron ionization gas chromatography–mass spectrometry

Detection of 3-quinuclidinol (3Q), a marker for the chemical warfare agent 3-quinuclidinyl benzilate, is very difficult by gas chromatography–mass spectrometry (GC/MS), providing low, broad signals even when analyzed in isolated form. Therefore, a method that can convert 3Q into a substrate with enhanced detectability by GC/MS would be an important tool for its analysis. 2,2,2-Trichloroethoxycarbonyl chloride (TrocCl) was used in the derivatization of 3Q in three different soils of varying composition and total organic content (Virginia type A soil, Nebraska EPA standard soil and Ottawa sand) when present at a 10 μg g -1 concentration in each. A direct derivatization protocol and one involving the pre-extraction of the analyte were evaluated for their individual efficiencies and subsequent analysis using electron ionization GC/MS. The practical derivatization of 3Q, when present at low levels (10 μg g -1 ) in three different soil matrices, was found to be rapid (1 h) and to take place smoothly at ambient temperature (and as low as 4°C). The method detection limit was determined to be 30 ng mL -1 for the Virginia type A soil, 49 ng mL -1 for the Nebraska EPA standard soil and 72 ng mL -1 for the Ottawa sand sample. An expedient and practical derivatization method for 3Q, a chemical warfare degradation product difficult to detect by GC/MS, has been realized using trichloroethyl chloroformate. The reaction provides 3Q-Troc, a derivative with better detectability than 3Q by electron ionization GC/MS such as peak sharpness and a unique mass spectrum for its unambiguous identification.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Carbonate clumped isotope analysis (Δ 47 ) of 21 carbonate standards determined via gas‐source isotope‐ratio mass spectrometry on four instrumental configurations using carbonate‐based standardization and multiyear data sets

Rationale Clumped isotope geochemistry examines the pairing or clumping of heavy isotopes in molecules and provides information about the thermodynamic and kinetic controls on their formation. The first clumped isotope measurements of carbonate minerals were first published 15 years ago, and since then, interlaboratory offsets have been observed, and laboratory and community practices for measurement, data analysis, and instrumentation have evolved. Here we briefly review historical and recent developments for measurements, share Tripati Lab practices for four different instrument configurations, test a recently published proposal for carbonate‐based standardization on multiple instruments using multi‐year data sets, and report values for 21 different carbonate standards that allow for recalculations of previously published data sets. Methods We examine data from 4628 standard measurements on Thermo MAT 253 and Nu Perspective IS mass spectrometers, using a common acid bath (90°C) and small‐sample (70°C) individual reaction vessels. Each configuration was investigated by treating some standards as anchors (working standards) and the remainder as unknowns (consistency standards). Results We show that different acid digestion systems and mass spectrometer models yield indistinguishable results when instrument drift is well characterized. For linearity correction, mixed gas‐and‐carbonate standardization or carbonate‐only standardization yields similar results. No difference is observed in the use of three or eight working standards for the construction of transfer functions. Conclusions We show that all configurations yield similar results if instrument drift is robustly characterized and validate a recent proposal for carbonate‐based standardization using large multiyear data sets. Δ 47 values are reported for 21 carbonate standards on both the absolute reference frame (ARF; also refered to as the Carbon Dioxide Equilibrated Scale or CDES) and the new InterCarb‐Carbon Dioxide Equilibrium Scale (I‐CDES) reference frame, facilitating intercomparison of data from a diversity of labs and instrument configurations and restandardization of a broad range of sample sets between 2006, when the first carbonate measurements were published, and the present.

58 GEOSCIENCES↗

Position-specific carbon isotope analysis of serine by gas chromatography/Orbitrap mass spectrometry, and an application to plant metabolism

Position-specific 13 C/ 12 C ratios within amino acids remain largely unexplored in environmental samples due to methodological limitations. We hypothesized that natural-abundance isotope patterns in serine may serve as a proxy for plant metabolic fluxes including photorespiration. Here we describe an Orbitrap method optimized for the position-specific carbon isotope analysis of serine to test our hypothesis and discuss the generalizability of this method to other amino acids. Position-specific carbon isotope ratios of serine were measured using a Thermo Scientific™ Q Exactive™ GC Orbitrap™. Amino acids were hydrolyzed from Arabidopsis biomass, purified from potential matrix interferences, and derivatized alongside standards. Derivatized serine (N,O-bis(trifluoroacetyl)methyl ester) was isolated using gas chromatography, trapped in a reservoir, and purged into the electron ionization source over tens of minutes, producing fragment ions containing different combinations of atoms from the serine-derivative molecule. The 13 C/ 12 C ratios of fragments with monoisotopic masses of 110.0217, 138.0166, and 165.0037 Da were monitored in the mass analyzer and used to calculate position-specific δ 13 C values relative to a working standard. This methodology constrains position-specific δ 13 C values for nanomole amounts of serine isolated from chemically complex mixtures. The δ 13 C values of fragment ions of serine were characterized with ≤1‰ precisions, leading to propagated standard errors of 0.7–5‰ for each carbon position. Position-specific δ 13 C values differed by up to ca 28 ± 5‰ between serine molecules hydrolyzed from plants grown under contrasting pCO 2 , selected to promote different fluxes through photosynthesis and photorespiration. The method was validated using pure serine standards characterized offline. Here this study presents the first Orbitrap-based measurements of natural-abundance, position-specific carbon isotope variation in an amino acid isolated from a biological matrix. We present a method for the precise characterization of isotope ratios in serine and propose applications probing metabolism in plants. We discuss the potential for extending these approaches to other amino acids, paving the way for novel applications.

59 BASIC BIOLOGICAL SCIENCES↗

Heterogeneous Catalysis by Fullerene C 60 : Photocatalytic Dehydro‐Dimerization of Primary Amines and Tetrahydroquinolines Studied Using Thread Spray Mass Spectrometry

Abstract Removal of a catalyst after a catalytic process is a time‐consuming and challenging process. In this paper, a fullerene catalyst coated on cellulose thread is developed and applied it in a heterogeneous photoreaction screening via a thread spray mass spectrometry (MS) platform. The surface of the cellulose thread is modified with NH 2 groups, which subsequently allows immobilization of fullerene C 60 on the thread. The final fullerene functionalized thread is placed in a glass capillary and the solution of the reactant to be interrogated is added. The assembly of thread and glass capillary is placed in front of a mass spectrometer, which serves as an online photoreaction platform after a light source and direct current high voltage are applied. As an ambient ionization approach, the photocatalytic reaction screening platform enabled real‐time MS characterization of products and intermediates and using only nanomole quantities of reactants. Fullerene C 60 is identified to facilitate dehydro‐dimerization reactions from amines. Norharmane shows a unique photo‐oxygenated dimer formation. The functionalized threads immobilized with fullerene C 60 are reusable, confirming the heterogeneous nature of the platform. Thus, this system provided real‐time screening of reactions catalyzed by fullerene C 60 and a means to investigate the reaction mechanism.

Chemistry↗

Development and Application of DropletProbe Mass Spectrometry for Examining Biodistribution of Therapeutics

dropletProbe mass spectrometry is a novel technique for molecular characterization of surfaces. It can be used for rapid ex vivo analysis of therapeutics from thin animal tissue sections and has been shown to improve understanding of a drug’s absorption, distribution, metabolism and excretion (ADME) properties. Here, we describe the tissue distribution analysis of diclofenac from a dosed whole-body mouse thin tissue section using a dropletProbe mass spectrometry system.

Chen, Bingming↗

Discovery of unknown posttranslational modifications by top-down mass spectrometry

Post-translational modifications can be important biomarkers of function within biological systems. Top-down mass spectrometry is a valuable tool for the characterization of combinatorial modifications on proteins such as histones that have a range of complex modifications. In this chapter, we present a top-down liquid chromatography-mass spectrometry experimental and data analysis workflow for the identification of novel modifications on proteins. The data analysis workflow presented here is reliant on the combination of proteoform searching using TopPIC and data visualization and fragment ion spectral confirmation using LcMsSpectator, part of the Informed-Proteomics package of software.

Wilson, Jesse W.↗

Measurement of the W boson mass

The W boson mass is measured using proton-proton collision data at $\sqrt{s}$ = 13 TeV corresponding to an integrated luminosity of 1.7 fb -1 recorded during 2016 by the LHCb experiment. With a simultaneous fit of the muon $q/ρ_T$ distribution of a sample of W →$μv$ decays and the $\phi^*$ distribution of a sample of Z → $μμ$ decays the W boson mass is determined to be $m_w$ =80354±23 stat ±10 exp ±17 theory ±9 PDF MeV, where uncertainties correspond to contributions from statistical, experimental systematic, theoretical and parton distribution function sources. This is an average of results based on three recent global parton distribution function sets. The measurement agrees well with the prediction of the global electroweak fit and with previous measurements.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Ultraviolet running constraints on low mass dark sectors

We analyze the UV breakdown of Sub-GeV dark matter models that live in a new, dark U(1) sector. Many of these models include a scalar field, which is either the dark matter itself or a dark Higgs field that generates mass terms for the dark matter particle via spontaneous symmetry breaking. A quartic self coupling of this scalar field is generically allowed, and we show that its running is largely governed by the strength of the U(1) gauge field, α D . Furthermore, it consistently has a lower Landau pole than the gauge coupling. Link fields, which couple to both the dark sector and the Standard Model (SM), connect these Landau poles to constraints on SM charged particles. Current LHC constraints on link fields are compatible with α D ≲ 0.5 - 1 for most of the mass range in most models, while smaller values, α D ≲ 0.15, are favored for Majorana DM.

new light particles↗

A testable hidden-sector model for Dark Matter and neutrino masses

We consider a minimal extension of the Standard Model with a hidden sector charged under a dark local U(1)' gauge group, accounting simultaneously for light neutrino masses and the observed Dark Matter relic abundance. The model contains two copies of right-handed neutrinos which give rise to light neutrino-masses via an extended seesaw mechanism. The presence of a stable Dark-Matter candidate and a massless state naturally arise by requiring the simplest anomaly-free particle content without introducing any extra symmetries. We investigate the phenomenology of the hidden sector considering the U(1)' breaking scale of the order of the electroweak scale. Confronting the thermal history of this hidden-sector model with existing and future constraints from collider, direct and indirect detection experiments provides various possibilities of probing the model in complementary ways as every particle of the dark sector plays a specific cosmological role. Across the identified viable parameter space, a large region predicts a sizable contribution to the effective relativistic degrees-of-freedom in the early Universe that allows to alleviate the recently reported tension between late and early measurements of the Hubble constant.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Neutrino mass from Affleck-Dine leptogenesis and WIMP dark matter

Affleck-Dine (AD) mechanism for leptogenesis involves the cosmological evolution of a complex scalar field (AD field) that carries non-zero lepton number. We show how explicit lepton number breaking terms, which involve the AD field needed to implement this scenario combined with fermionic WIMP dark matter, can generate neutrino mass at the one loop level, thus providing a unified framework for solving four major puzzles of the standard model i.e. inflation, baryogenesis, dark matter and neutrino mass. We discuss some phenomenological implications of this model.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for low-mass hidden-valley dark showers with non-prompt muon pairs in proton-proton collisions at $\sqrt{s}=13$ TeV

A search for signatures of a dark analog to quantum chromodynamics is performed. The analysis targets long-lived dark mesons that decay into standard-model particles, with a high branching fraction of the dark mesons decaying into muons. The dark mesons are formed by the hadronisation of dark partons, which are produced by a decay of the Higgs boson. The search is performed using a data set corresponding to an integrated luminosity of 41.6 fb −1 , which was collected in proton-proton collisions at $\sqrt{s}=13$ TeV by the CMS experiment at the CERN LHC in 2018 using non-prompt muon triggers. The search is based on resonant muon pair signatures. Machine-learning techniques are employed in the analysis, utilising boosted decision trees to discriminate between signal and background. No significant excess is observed above the standard model expectation. Upper limits on the branching fraction of the Higgs boson decaying to dark partons are determined to be as low as 10−4 at 95% confidence level, surpassing and extending the existing limits on models with dark $\tilde{ω}$ mesons for mean proper decay lengths of less than 500 mm and for $\tilde{ω}$ masses down to 0.3 GeV. First limits are set for extended dark-shower models with two dark flavours that contain dark photons, probing their masses down to 0.33 GeV.

Beyond Standard Model↗

Prospects for strong coupling measurement at hadron colliders using soft-drop jet mass

We compute the soft-drop jet-mass distribution from pp collisions to NNLL accuracy while including nonperturbative corrections through a field-theory based formalism. Using these calculations, we assess the theoretical uncertainties on an αs precision measurement due to higher order perturbative effects, nonperturbative corrections, and PDF uncertainty. We identify which soft-drop parameters are well-suited for measuring αs, and find that higher-logarithmic resummation has a qualitatively important effect on the shape of the jet-mass distribution. We find that quark jets and gluon jets have similar sensitivity to αs, and emphasize that experimentally distinguishing quark and gluon jets is not required for an αs measurement. We conclude that measuring αs to the 10% level is feasible now, and with improvements in theory a 5% level measurement is possible. Getting down to the 1% level to be competitive with other state-of-the-art measurements will be challenging.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗