1
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Robles-Lecompte A, Cheng J, McKenna AM, Chang NB. Linking pattern shifts of dissolved organic nitrogen fractional removal with microbial species richness in a cascade upflow biofiltration process. WATER RESEARCH 2024; 264:122130. [PMID: 39146847 DOI: 10.1016/j.watres.2024.122130] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2023] [Revised: 07/16/2024] [Accepted: 07/20/2024] [Indexed: 08/17/2024]
Abstract
Nutrient pollution has become an important issue to solve in stormwater runoff due to the fast population growth and urbanization that impacts water quality and triggers harmful algal blooms. There is an acute need to link the dissolved organic nitrogen (DON) decomposition with the coupled nitrification and denitrification pathways to realize the pattern shifts in the nitrogen cycle. This paper presented a lab-scale cascade upflow biofiltration system for comparison of nitrate and phosphate removal from stormwater matrices through two specialty adsorbents at three influent conditions. The two specialty adsorbents are denoted as biochar iron and perlite integrated green environmental media (BIPGEM) and zero-valent iron and perlite-based green environmental media (ZIPGEM). An initial condition with stormwater runoff, a second condition with spiked nitrate, and a third condition with spiked nitrate and phosphate were used in this study. To differentiate nitrifier and denitrifier population dynamics associated with the decomposition of DON, integrative analysis of quantitative polymerase chain reaction (qPCR) and 21 tesla Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) were performed in association with nitrate removal efficiencies for both media with or without the presence of phosphate. While the qPCR may detect one gene for a single microbe or pathogen and realize the microbial population dynamics in the bioreactors, the 21 T FT-ICR MS can separate and assign elemental compositions to identify organic compounds of DON. Results indicated that ZIPGEM obtained a higher potential for nutrient removal than BIPGEM when the influent was spiked with nitrate and phosphate simultaneously. The sustainable, scalable, and adaptable upflow bioreactors operated in sequence (in a cascade mode) can be expanded flexibly on an as-needed basis to meet the local water quality standards showing process reliability, resilience, and sustainability simultaneously.
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Affiliation(s)
- Alejandra Robles-Lecompte
- Department of Civil, Environmental, and Construction Engineering, University of Central Florida, Orlando, FL, USA
| | - Jinxiang Cheng
- Department of Civil, Environmental, and Construction Engineering, University of Central Florida, Orlando, FL, USA
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, FL, USA; Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO, USA
| | - Ni-Bin Chang
- Department of Civil, Environmental, and Construction Engineering, University of Central Florida, Orlando, FL, USA.
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2
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Weisbrod CR, McKenna AM, Hendrickson CL. Selective Gas-Phase Depletion of Chemical Contaminants in Dissolved Organic Matter Increases Compositional Coverage by FT-ICR Mass Spectrometry. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2024; 35:2465-2471. [PMID: 39292195 DOI: 10.1021/jasms.4c00261] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/19/2024]
Abstract
Fourier transform ion cyclotron resonance mass spectrometry of dissolved organic matter (DOM) extracted from environmental samples provides molecular speciation that enables visualization of compositional trends in the fate and cycling of biogenic and anthropogenic organics. Often, chemical contamination is introduced during field sampling (i.e., remote locations, cannot use glass). Further, preconcentration of DOM by solid-phase extraction often results in chemical contamination. When chemical noise is a dominant fraction of the ion signal, mass spectral performance is degraded by reduction of the ion trap analyte accumulation capacity and enhanced ion cloud dephasing during ICR detection. We have developed gas-phase ion depletion of unwanted chemical contaminants during ion injection into the linear RF ion trap of the hybrid linear ion trap 21 T FT-ICR mass spectrometer that improves detection of analytes by removing unwanted chemical noise. We demonstrate improvements in signal-to-noise ratio, dynamic range, and the number of observed analytes in dissolved organic matter samples that results in a 40-100% increase in the number of identified analytes. In many cases, the number of peaks observed per nominal mass more than doubles over select m/z regions. This gas-phase "clean-up" can salvage precious samples challenged by sampling location, sample volume, or collection protocols that cannot be avoided and maximizes the compositional information obtained. Further, this approach is generalizable and extendable to any hybrid linear ion trap instrument platform (e.g., LTQ-Orbitrap or linear ion trap-TOF). We highlight the power of gas-phase depletion with electrospray ionization, but this method is also applicable to other ionization modes.
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Affiliation(s)
- Chad R Weisbrod
- National High Magnetic Field Laboratory, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Christopher L Hendrickson
- National High Magnetic Field Laboratory, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
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3
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Palacio Lozano DC, Lester DW, Town JS, McKenna AM, Wills M. Assessment of Accelerated Aging Effect of Bio-Oil Fractions Utilizing Ultrahigh-Resolution Mass Spectrometry and k-Means Clustering of van Krevelen Compositional Space. ENERGY & FUELS : AN AMERICAN CHEMICAL SOCIETY JOURNAL 2024; 38:16473-16489. [PMID: 39257465 PMCID: PMC11382156 DOI: 10.1021/acs.energyfuels.4c02605] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/30/2024] [Revised: 08/08/2024] [Accepted: 08/09/2024] [Indexed: 09/12/2024]
Abstract
Bio-oils contain a substantial number of highly oxygenated hydrocarbons, which often exhibit low thermal stability during storage, handling, and refining. The primary objectives of this study are to characterize the hydroxyl group in bio-oil fractions and to investigate the relationship between the type of hydroxyl group and accelerated aging behavior. A bio-oil was fractionated into five solubility-based fractions, classified in two main groups: water-soluble and water-insoluble fractions. These fractions were then subjected to chemoselective reactions to tag molecules containing hydroxyl groups and analyzed by negative-ion electrospray ionization 21 T Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS). The fractions were also subjected to accelerated aging experiments and characterized by FT-ICR MS and bulk viscosity measurements. Extracting insightful information from ultrahigh-resolution data to aid in predicting upgrading methodologies and instability behaviors of bio-oils is challenging due to the complexity of the data. To address this, an unsupervised learning technique, k-means clustering analysis, was used to semiquantify molecular compositions with a close Euclidean distance within the (O/C, H/C) chemical space. The combination of k-means analysis with findings from chemoselective reactions allowed the distinctive hydroxyl functionalities across the samples to be inferred. Our results indicate that the hexane-soluble fraction contained numerous molecules containing primary and secondary alcohols, while the water-soluble fraction displayed diverse groups of oxygenated compounds, clustered near to carbohydrate-like and pyrolytic humin-like materials. Despite its high oxygen content, the water-soluble fraction showed minimal changes in viscosity during aging. In contrast, a significant increase in viscosity was observed in the water-insoluble materials, specifically, the low- and high-molecular-weight lignin fractions (LMWL and HMWL, respectively). Among these two fractions, the HMWL exhibited the highest increase in viscosity after only 4 h of accelerated aging. Our results indicate that this aging behavior is attributed to an increased number of molecular compositions containing phenolic groups. Thus, the chemical compositions within the HMWL are the major contributors to the viscosity changes in the bio-oil under accelerated aging conditions. This highlights the crucial role of oxygen functionality in bio-oil aging, suggesting that a high oxygen content alone does not necessarily correlate with an increase of viscosity. Unlike other bio-oil categorization methods based on constrained molecule locations within the van Krevelen compositional space, k-means clustering can identify patterns within ultrahigh-resolution data inherent to the unique chemical fingerprint of each sample.
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Affiliation(s)
| | - Daniel W Lester
- Polymer Characterisation Research Technology Platform, University of Warwick, Coventry CV4 7AL, U.K
| | - J S Town
- Polymer Characterisation Research Technology Platform, University of Warwick, Coventry CV4 7AL, U.K
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Martin Wills
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, U.K
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4
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Ajaero C, Vander Meulen I, Heshka NE, Xin Q, McMartin DW, Peru KM, Chen H, McKenna AM, Reed K, Headley JV. Evaluations of Weathering of Polar and Nonpolar Petroleum Components in a Simulated Freshwater-Oil Spill by Orbitrap and Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. ENERGY & FUELS : AN AMERICAN CHEMICAL SOCIETY JOURNAL 2024; 38:6753-6763. [PMID: 38654763 PMCID: PMC11034502 DOI: 10.1021/acs.energyfuels.3c04994] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2023] [Revised: 03/12/2024] [Accepted: 03/25/2024] [Indexed: 04/26/2024]
Abstract
The comprehensive chemical characterization of crude oil is important for the evaluation of the transformation and fate of components in the environment. Molecular-level speciation of naphthenic acid fraction compounds (NAFCs) was investigated in a mesoscale spill tank using both negative-ion electrospray ionization (ESI) Orbitrap mass spectrometry (MS) and positive-ion atmospheric pressure photoionization Fourier transform ion cyclotron resonance mass spectrometry (APPI-FT-ICR-MS). Both ionization techniques are coupled to high-resolution mass spectrometric detectors (ESI: Orbitrap MS; APPI: FT-ICR-MS at 9.4 T), enabling insight into the behavior and fate of petrogenic compounds during a simulated freshwater crude oil spill. Negative-ion ESI Orbitrap-MS reveals that oxygen-containing (Ox) classes are detected early in the spill, whereby species with more oxygen per molecule evolve later in the simulated spill. The O2-containing species gradually decreased in relative abundance, while O3 and O4 species increased in relative abundance throughout the simulated spill, which could correspond to a relative degree of oxygen incorporation. Nonpolar speciation by positive-ion APPI 9.4 T FT-ICR-MS allowed for the identification of water-soluble nonpolar and less polar acidic species. Molecular-level graphical representation of elemental compositions derived from simulated spill water-soluble and oil-soluble species suggest that biological activity is the primary degradation mechanism and that biodegradation was the dominant mechanism based on the negative-ion ESI Orbitrap-MS results.
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Affiliation(s)
- Chukwuemeka Ajaero
- Environment
and Climate Change Canada, Watershed Hydrology and Ecology Research
Division, National Hydrology Research Center, 11 Innovation Boulevard, Saskatoon, Saskatchewan S7N 3H5, Canada
- Department
of Geography and Environment, University
of Lethbridge, 4401 University Drive, Lethbridge, Alberta T1K 3M4, Canada
| | - Ian Vander Meulen
- Environment
and Climate Change Canada, Watershed Hydrology and Ecology Research
Division, National Hydrology Research Center, 11 Innovation Boulevard, Saskatoon, Saskatchewan S7N 3H5, Canada
- Department
of Civil, Geological and Environmental Engineering,
57 Campus Drive, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5A9, Canada
| | - Nicole E. Heshka
- CanmetENERGY
Devon, Natural Resources Canada, 1 Oil Patch Drive, Devon, Alberta T9G 1A8, Canada
| | - Qin Xin
- CanmetENERGY
Devon, Natural Resources Canada, 1 Oil Patch Drive, Devon, Alberta T9G 1A8, Canada
| | - Dena W. McMartin
- Department
of Geography and Environment, University
of Lethbridge, 4401 University Drive, Lethbridge, Alberta T1K 3M4, Canada
- Department
of Civil, Geological and Environmental Engineering,
57 Campus Drive, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5A9, Canada
| | - Kerry M. Peru
- Environment
and Climate Change Canada, Watershed Hydrology and Ecology Research
Division, National Hydrology Research Center, 11 Innovation Boulevard, Saskatoon, Saskatchewan S7N 3H5, Canada
| | - Huan Chen
- National
High Field Magnet Laboratory, Florida State
University, 1800 E. Paul
Dirac Dr.,Tallahassee, Florida 32306, United States
| | - Amy M. McKenna
- National
High Field Magnet Laboratory, Florida State
University, 1800 E. Paul
Dirac Dr.,Tallahassee, Florida 32306, United States
- Soil
and
Crop Sciences, Colorado State University, 301 University Ave., Fort Collins, Colorado 80523, United States
| | - Kiaura Reed
- Department
of Biology, College of Science and Technology, Florida Agricultural and Mechanical University, 1601 S. Martin Luther King Jr Blvd, Tallahassee, Florida 32307 United States
| | - John V. Headley
- Environment
and Climate Change Canada, Watershed Hydrology and Ecology Research
Division, National Hydrology Research Center, 11 Innovation Boulevard, Saskatoon, Saskatchewan S7N 3H5, Canada
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5
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VanderRoest JP, Fowler JA, Rhoades CC, Roth HK, Broeckling CD, Fegel TS, McKenna AM, Bechtold EK, Boot CM, Wilkins MJ, Borch T. Fire Impacts on the Soil Metabolome and Organic Matter Biodegradability. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:4167-4180. [PMID: 38385432 DOI: 10.1021/acs.est.3c09797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/23/2024]
Abstract
Global wildfire activity has increased since the 1970s and is projected to intensify throughout the 21st century. Wildfires change the composition and biodegradability of soil organic matter (SOM) which contains nutrients that fuel microbial metabolism. Though persistent forms of SOM often increase postfire, the response of more biodegradable SOM remains unclear. Here we simulated severe wildfires through a controlled "pyrocosm" approach to identify biodegradable sources of SOM and characterize the soil metabolome immediately postfire. Using microbial amplicon (16S/ITS) sequencing and gas chromatography-mass spectrometry, heterotrophic microbes (Actinobacteria, Firmicutes, and Protobacteria) and specific metabolites (glycine, protocatechuate, citric cycle intermediates) were enriched in burned soils, indicating that burned soils contain a variety of substrates that support microbial metabolism. Molecular formulas assigned by 21 T Fourier transform ion cyclotron resonance mass spectrometry showed that SOM in burned soil was lower in molecular weight and featured 20 to 43% more nitrogen-containing molecular formulas than unburned soil. We also measured higher water extractable organic carbon concentrations and higher CO2 efflux in burned soils. The observed enrichment of biodegradable SOM and microbial heterotrophs demonstrates the resilience of these soils to severe burning, providing important implications for postfire soil microbial and plant recolonization and ecosystem recovery.
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Affiliation(s)
- Jacob P VanderRoest
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Julie A Fowler
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Charles C Rhoades
- Rocky Mountain Research Station, U.S. Forest Service, Fort Collins, Colorado 80526, United States
| | - Holly K Roth
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Corey D Broeckling
- Bioanalysis and Omics Center, Analytical Resources Core, Colorado State University, Fort Collins, 80521, United States
| | - Timothy S Fegel
- Rocky Mountain Research Station, U.S. Forest Service, Fort Collins, Colorado 80526, United States
| | - Amy M McKenna
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
- National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Dr., Tallahassee, Florida 32310, United States
| | - Emily K Bechtold
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Claudia M Boot
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Michael J Wilkins
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
| | - Thomas Borch
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80521, United States
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80521, United States
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6
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Hu Z, McKenna AM, Wen K, Zhang B, Mao H, Goual L, Feng X, Zhu M. Controls of Mineral Solubility on Adsorption-Induced Molecular Fractionation of Dissolved Organic Matter Revealed by 21 T FT-ICR MS. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:2313-2322. [PMID: 38266164 DOI: 10.1021/acs.est.3c08123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2024]
Abstract
Mineral adsorption-induced molecular fractionation of dissolved organic matter (DOM) affects the composition of both DOM and OM adsorbed and thus stabilized by minerals. However, it remains unclear what mineral properties control the magnitude of DOM fractionation. Using a combined technique approach that leverages the molecular composition identified by ultrahigh resolution 21 T Fourier transform ion cyclotron resonance mass spectrometry and adsorption isotherms, we catalogue the compositional differences that occur at the molecular level that results in fractionation due to adsorption of Suwannee River fulvic acid on aluminum (Al) and iron (Fe) oxides and a phyllosilicate (allophane) species of contrasting properties. The minerals of high solubility (i.e., amorphous Al oxide, boehmite, and allophane) exhibited much stronger DOM fractionation capabilities than the minerals of low solubility (i.e., gibbsite and Fe oxides). Specifically, the former released Al3+ to solution (0.05-0.35 mM) that formed complexes with OM and likely reduced the surface hydrophobicity of the mineral-OM assemblage, thus increasing the preference for adsorbing polar DOM molecules. The impacts of mineral solubility are exacerbated by the fact that interactions with DOM also enhance metal release from minerals. For sparsely soluble minerals, the mineral surface hydrophobicity, instead of solubility, appeared to be the primary control of their DOM fractionation power. Other chemical properties seemed less directly relevant than surface hydrophobicity and solubility in fractionating DOM.
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Affiliation(s)
- Zhen Hu
- Key Laboratory of Vegetable Ecological Cultivation on Highland, Ministry of Agriculture and Rural Affairs, Hubei Hongshan Laboratory, Industrial Crops Institute, Hubei Academy of Agricultural Sciences, Wuhan, Hubei 430063, China
- Department of Ecosystem Science and Management, University of Wyoming, Laramie, Wyoming 82071, United States
- Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, State Environmental Protection Key Laboratory of Soil Health and Green Remediation, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Ke Wen
- Department of Ecosystem Science and Management, University of Wyoming, Laramie, Wyoming 82071, United States
| | - Bingjun Zhang
- Department of Petroleum Engineering, University of Wyoming, Laramie, Wyoming 82071, United States
| | - Hairuo Mao
- Department of Ecosystem Science and Management, University of Wyoming, Laramie, Wyoming 82071, United States
| | - Lamia Goual
- Department of Petroleum Engineering, University of Wyoming, Laramie, Wyoming 82071, United States
| | - Xionghan Feng
- Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture and Rural Affairs, State Environmental Protection Key Laboratory of Soil Health and Green Remediation, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Mengqiang Zhu
- Department of Ecosystem Science and Management, University of Wyoming, Laramie, Wyoming 82071, United States
- Department of Geology, University of Maryland, College Park, Maryland 20742, United States
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7
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Fu QL, Chen C, Liu Y, Fujii M, Fu P. FT-ICR MS Spectral Improvement of Dissolved Organic Matter by the Absorption Mode: A Comparison of the Electrospray Ionization in Positive-Ion and Negative-Ion Modes. Anal Chem 2024; 96:522-530. [PMID: 38127714 DOI: 10.1021/acs.analchem.3c04651] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2023]
Abstract
Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) in the absorption mode has a superior performance over the conventional magnitude mode. However, this improved performance for the analysis of dissolved organic matter (DOM) in negative-ion and positive-ion modes of electrospray ionization [ESI(-) and ESI(+), respectively] remains unknown. This study systemically compared the improved performance by the absorption mode for DOM FT-ICR MS spectra acquired with the low-field and high-field magnet instruments between two charge modes. The absorption mode enhanced the resolution and signal-to-noise ratio values of DOM peaks with factors of 1.88-1.94 and 1.60-1.72, respectively. The significantly higher improvement of mass resolution for the ESI(+) mode than that for the ESI(-) mode could resolve the extensive occurrence of mass doublets in the ESI(+) mode, yielding some formulas exclusively identified in the ESI(+) mode. The findings of this study have systemically demonstrated the superiority of the absorption mode in improving the spectra quality during the routine FT-ICR MS postdata analysis and highlighted its great potential in characterizing the molecular composition of DOM using the FT-ICR MS technique in both ESI(-) and ESI(+) modes.
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Affiliation(s)
- Qing-Long Fu
- MOE Key Laboratory of Groundwater Quality and Health, School of Environmental Studies, China University of Geosciences, Wuhan 430078, China
| | - Chao Chen
- Guangdong Provincial Key Laboratory of Chemical Measurement and Emergency Test Technology, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center, Guangzhou), Guangzhou 510070, China
| | - Yang Liu
- MOE Key Laboratory of Groundwater Quality and Health, School of Environmental Studies, China University of Geosciences, Wuhan 430078, China
| | - Manabu Fujii
- Department of Civil and Environmental Engineering, Tokyo Institute of Technology, 2-12-1, Ookayama, Meguro-Ku, Tokyo 152-8550, Japan
| | - Pingqing Fu
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China
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8
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Champiny RE, Bacon AR, Brush ID, McKenna AM, Colopietro DJ, Lin Y. Unraveling the persistence of deep podzolized carbon: Insights from organic matter characterization. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167382. [PMID: 37774867 DOI: 10.1016/j.scitotenv.2023.167382] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2023] [Revised: 08/14/2023] [Accepted: 09/24/2023] [Indexed: 10/01/2023]
Abstract
Over a billion tons of terrestrial carbon (C) is stored in deep soils from the Southeastern Coastal Plain of the United States. While the size and extent of this pool, known as deep podzolized carbon (DPC), have been reported in recent studies, the stabilization mechanisms responsible for its persistence are unclear. The main hypothesis of DPC stabilization is that hydrology, specifically water table fluctuations in the phreatic zone, slow microbial degradation and promote C accumulation. This accounts for the characteristic properties and distribution of DPC and provides a mechanistic distinction between DPC and shallow podzolized C in the region's soils, however it has yet to be tested. We characterized the organic matter composition of the bulk and dissolved fractions of DPC using elemental analysis, solvent extraction, infrared spectroscopy, and high-resolution mass spectrometry. Consistent with past work, the majority of DPC organic matter was extractable by sodium pyrophosphate solution; the influence of metal association was also observable in the water extractable fraction of DPC with large species being preferentially removed and a low compound diversity compared to those from other horizons overlying DPC. Only water extractable species with low molecular mass (m/z < 375 Da) showed significant change in average nominal oxidation state of carbon (NOSC) values, indicative of oxygen-limitation influence on the processing of these species. Infrared spectroscopy revealed an increase in abundance of aliphatic (C-H:C-O) bonds relative to polysaccharide bonds with depth whereas aromatic (C=C:C-O) bonds decreased with depth in DPC relative to other subsurface horizons. Our work shows that DPC is significantly more refractory than overlying surface soil C, and yet slightly more labile than the subsoils above DPC. Together our results suggest that the maintenance of low redox conditions via persistent water saturation contributes to the stabilization and persistence of DPC.
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Affiliation(s)
- Ryan E Champiny
- Department of Soil, Water, and Ecosystem Science, University of Florida, Gainesville, FL 32611, USA.
| | - Allan R Bacon
- Department of Soil, Water, and Ecosystem Science, University of Florida, Gainesville, FL 32611, USA
| | - Isabella D Brush
- Department of Soil, Water, and Ecosystem Science, University of Florida, Gainesville, FL 32611, USA
| | - Amy M McKenna
- National Magnetic Field Laboratory, Florida State University, Tallahassee, FL 32310, USA; Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO 80523, USA
| | - Daniel J Colopietro
- Department of Soil, Water, and Ecosystem Science, University of Florida, Gainesville, FL 32611, USA
| | - Yang Lin
- Department of Soil, Water, and Ecosystem Science, University of Florida, Gainesville, FL 32611, USA
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9
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Counihan KL, McKenna AM, Hebert D, Tomco P, Zito P. Photo-Enhanced Oil Toxicity to Alcid Immune Function. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY 2023; 42:2701-2711. [PMID: 37671848 DOI: 10.1002/etc.5742] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 01/23/2023] [Accepted: 08/30/2023] [Indexed: 09/07/2023]
Abstract
Oil spills are devastating to seabirds, causing high levels of mortality and toxic physiological effects, especially to immune function. Sunlight exposure can further enhance the toxicity of oil to marine species by generating photodegradation products. Photo-enhanced oil toxicity to marine birds has not been studied. Therefore, the goal of the present study was to investigate the toxicity and photo-enhanced toxicity of oil to lymphocyte proliferation, macrophage phagocytosis, and reactive oxygen species production in three alcid species, common murres (Uria aalge), tufted puffins (Fratercula cirrhata), and horned puffins (Fratercula corniculata). Intrinsic factors (species, age, and sex) had a more significant effect on lymphocyte proliferation than exposure to oil or photoactivated oil. Macrophage phagocytosis was significantly reduced in oil and photoactivated oil treatments, whereas hydrogen peroxide production was significantly increased. Interestingly, nonphotoactivated oil stimulated significantly more hydrogen peroxide than photoactivated oil. The results suggest that alcid immune function could be variably influenced during an oil spill depending on the species, sex, and age of the bird as well as the season and level of sunlight exposure. Environ Toxicol Chem 2023;42:2701-2711. © 2023 SETAC.
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Affiliation(s)
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University, Tallahassee, Florida, USA
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado, USA
| | - Deja Hebert
- Department of Chemistry, Chemical Analysis & Mass Spectrometry Facility, University of New Orleans, New Orleans, Louisiana, USA
| | - Patrick Tomco
- Department of Chemistry, University of Alaska Anchorage, Anchorage, Alaska, USA
| | - Phoebe Zito
- Department of Chemistry, Chemical Analysis & Mass Spectrometry Facility, University of New Orleans, New Orleans, Louisiana, USA
- Department of Chemistry, University of Alaska Anchorage, Anchorage, Alaska, USA
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10
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Lai YH, Wang YS. Advances in high-resolution mass spectrometry techniques for analysis of high mass-to-charge ions. MASS SPECTROMETRY REVIEWS 2023; 42:2426-2445. [PMID: 35686331 DOI: 10.1002/mas.21790] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Revised: 01/27/2022] [Accepted: 04/07/2022] [Indexed: 06/15/2023]
Abstract
A major challenge in modern mass spectrometry (MS) is achieving high mass resolving power and accuracy for precision analyses in high mass-to-charge (m/z) regions. To advance the capability of MS for increasingly demanding applications, understanding limitations of state-of-the-art techniques and their status in applied sciences is essential. This review summarizes important instruments in high-resolution mass spectrometry (HRMS) and related advances to extend their working range to high m/z regions. It starts with an overview of HRMS techniques that provide adequate performance for macromolecular analysis, including Fourier-transform, time-of-flight (TOF), quadrupole-TOF, and related data-processing techniques. Methodologies and applications of HRMS for characterizing macromolecules in biochemistry and material sciences are summarized, such as top-down proteomics, native MS, drug discovery, structural virology, and polymer analyses.
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Affiliation(s)
- Yin-Hung Lai
- Genomics Research Center, Academia Sinica, Taipei, Taiwan, R.O.C
- Department of Chemical Engineering, National United University, Miaoli, Taiwan, R.O.C
- Institute of Food Safety and Health Risk Assessment, National Yang Ming Chiao Tung University, Taipei, Taiwan, R.O.C
| | - Yi-Sheng Wang
- Genomics Research Center, Academia Sinica, Taipei, Taiwan, R.O.C
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11
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Roth HK, Nelson AR, McKenna AM, Fegel TS, Young RB, Rhoades CC, Wilkins MJ, Borch T. Impact of beaver ponds on biogeochemistry of organic carbon and nitrogen along a fire-impacted stream. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2022; 24:1661-1677. [PMID: 36004537 DOI: 10.1039/d2em00184e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Wildfires, which are increasing in frequency and severity in the western U.S., impact water quality through increases in erosion, and transport of nutrients and metals. Meanwhile, beaver populations have been increasing since the early 1900s, and the ponds they create slow or impound hydrologic and elemental fluxes, increase soil saturation, and have a high potential to transform redox active elements (e.g., oxygen, nitrogen, sulfur, and metals). However, it remains unknown how the presence of beaver ponds in burned watersheds may impact retention and transformation of chemical constituents originating in burned uplands (e.g., pyrogenic dissolved organic matter; pyDOM) and the consequences for downstream water quality. Here, we investigate the impact of beaver ponds on the chemical properties and molecular composition of dissolved forms of C and N, and the microbial functional potential encoded within these environments. The chemistry and microbiology of surface water and sediment changed along a stream sequence starting upstream of fire and flowing through multiple beaver ponds and interconnecting stream reaches within a burned high-elevation forest watershed. The relative abundance of N-containing compounds increased in surface water of the burned beaver ponds, which corresponded to lower C/N and O/C, and higher aromaticity as characterized by Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS). The resident microbial communities lack the capacity to process such aromatic pyDOM, though genomic analyses demonstrate their potential to metabolize various compounds in the anaerobic sediments of the beaver ponds. Collectively, this work highlights the role of beaver ponds as biological "hotspots" with unique biogeochemistry in fire-impacted systems.
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Affiliation(s)
- Holly K Roth
- Department of Chemistry, Colorado State University, Fort Collins, CO, USA.
| | - Amelia R Nelson
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO, USA
| | - Amy M McKenna
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO, USA
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University, FL, USA
| | - Timothy S Fegel
- Rocky Mountain Research Station, U.S. Forest Service, Fort Collins, CO, USA
| | - Robert B Young
- Chemical Analysis & Instrumentation Laboratory, New Mexico State University, Las Cruces, NM, USA
| | - Charles C Rhoades
- Rocky Mountain Research Station, U.S. Forest Service, Fort Collins, CO, USA
| | - Michael J Wilkins
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO, USA
| | - Thomas Borch
- Department of Chemistry, Colorado State University, Fort Collins, CO, USA.
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO, USA
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12
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Glattke TJ, Chacón-Patiño ML, Hoque SS, Ennis TE, Greason S, Marshall AG, Rodgers RP. Complex Mixture Analysis of Emerging Contaminants Generated from Coal Tar- and Petroleum-Derived Pavement Sealants: Molecular Compositions and Correlations with Toxicity Revealed by Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:12988-12998. [PMID: 36041117 DOI: 10.1021/acs.est.2c00582] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Pavement sealants are of environmental concern because of their complex petroleum-based chemistry and potential toxicity. Specifically, coal tar-derived sealants contain high concentrations of toxic/carcinogenic polycyclic aromatic hydrocarbons (PAHs) that, when weathered, can be transferred into the surrounding environment. Previous studies have demonstrated the effects of coal tar sealants on PAH concentration in nearby waterways and their harmful effects in aquatic ecosystems. Here, we investigate and compare the molecular composition of two different pavement sealants, petroleum asphalt- and coal tar-derived, and their photoproducts, by positive-ion (+) atmospheric pressure photoionization (APPI) and negative-ion (-) electrospray ionization (ESI) coupled with ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry to address species (high-boiling and/or high oxygen content) that lie outside the analytical window of other techniques due to ultra-high molecular complexity. In addition, we evaluate the toxicity of the water-soluble photoproducts by use of Microtox bioassay. The results demonstrate that the coal tar sealant contains higher amounts of PAHs and produces abundant water-soluble compounds, relative to unweathered materials, with a high abundance of PAH-like molecules of high toxicity. By comparison, the asphalt sealant produces fewer toxic water-soluble species, with molecular compositions that are consistent with natural dissolved organic matter. These results capture the mass, chemical diversity, toxicity, and source/photoproduct relationship of these compositionally complex emerging contaminants from the built environment.
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Affiliation(s)
- Taylor J Glattke
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32308, United States
| | - Martha L Chacón-Patiño
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
| | - Sarajeen Saima Hoque
- Department of Civil & Environmental Engineering, FAMU-FSU College of Engineering, Florida State University, Tallahassee, Florida 32310, United States
| | - Thomas E Ennis
- Watershed Protection Department, City of Austin, Austin Texas 78767, United States
| | - Steve Greason
- Sitelab Corporation, West Newbury, Massachusetts 01985, United States
| | - Alan G Marshall
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32308, United States
| | - Ryan P Rodgers
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32308, United States
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13
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Bahureksa W, Borch T, Young RB, Weisbrod CR, Blakney GT, McKenna AM. Improved Dynamic Range, Resolving Power, and Sensitivity Achievable with FT-ICR Mass Spectrometry at 21 T Reveals the Hidden Complexity of Natural Organic Matter. Anal Chem 2022; 94:11382-11389. [PMID: 35917115 DOI: 10.1021/acs.analchem.2c02377] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Fourier transform ion-cyclotron resonance mass spectrometry (FT-ICR MS) is the only mass analyzer that can resolve the molecular complexity of natural organic matter at the level of elemental composition assignment. Here, we leverage the high dynamic range, resolving power, resistance to peak coalescence, and maximum ion number and ion trapping duration in a custom built, 21 tesla hybrid linear ion trap /FT-ICR mass spectrometer for a dissolved organic matter standard (Suwanne River Fulvic Acid). We compare the effect of peak-picking threshold (3σ, 4σ, 5σ, and 6σ) on number of elemental composition assignments, mass measurement accuracy, and dynamic range for a 6.3 s transient across the mass range of m/z 200-1200 that comprises the highest achieved resolving power broadband FT-ICR mass spectrum collected to date. More than 36 000 species are assigned with signal magnitude greater than 3σ at root-mean-square mass error of 36 ppb, the most species identified reported to date for dissolved organic matter. We identify 18O and 17O isotopologues and resolve isobaric overlaps on the order of a few electrons across a wide mass range (up to m/z 1000) leveraging mass resolving powers (3 000 000 at m/z 200) only achievable by 21 T FT-ICR MS and increased by ∼30% through absorption mode data processing. Elemental compositions unique to the 3σ span a wide compositional range of aromaticity not detected at higher peak-picking thresholds. Furthermore, we leverage the high dynamic range at 21 T FT-ICR MS to provide a molecular catalogue of a widely utilized reference standard (SRFA) to the analytical community collected on the highest performing mass analyzer for complex mixture analysis to date. This instrument is available free of charge to scientists worldwide.
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Affiliation(s)
- William Bahureksa
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523 United States
| | - Thomas Borch
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523 United States.,Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
| | - Robert B Young
- Chemical Analysis & Instrumentation Laboratory, New Mexico State University, MSC 3RES, Las Cruces, New Mexico 88003, United States
| | - Chad R Weisbrod
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
| | - Greg T Blakney
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
| | - Amy M McKenna
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States.,National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
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14
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LeClerc HO, Tompsett GA, Paulsen AD, McKenna AM, Niles SF, Reddy CM, Nelson RK, Cheng F, Teixeira AR, Timko MT. Hydroxyapatite catalyzed hydrothermal liquefaction transforms food waste from an environmental liability to renewable fuel. iScience 2022; 25:104916. [PMID: 36148430 PMCID: PMC9486744 DOI: 10.1016/j.isci.2022.104916] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Revised: 04/25/2022] [Accepted: 08/06/2022] [Indexed: 11/30/2022] Open
Abstract
Food waste is an abundant and inexpensive resource for the production of renewable fuels. Biocrude yields obtained from hydrothermal liquefaction (HTL) of food waste can be boosted using hydroxyapatite (HAP) as an inexpensive and abundant catalyst. Combining HAP with an inexpensive homogeneous base increased biocrude yield from 14 ± 1 to 37 ± 3%, resulting in the recovery of 49 ± 2% of the energy contained in the food waste feed. Detailed product analysis revealed the importance of fatty-acid oligomerization during biocrude formation, highlighting the role of acid-base catalysts in promoting condensation reactions. Economic and environmental analysis found that the new technology has the potential to reduce US greenhouse gas emissions by 2.6% while producing renewable diesel with a minimum fuel selling price of $1.06/GGE. HAP can play a role in transforming food waste from a liability to a renewable fuel. Catalysts boost yields obtained from hydrothermal liquefaction (HTL) of food waste HAP-catalyzed HTL has the potential to reduce US greenhouse gas emissions by 2.6 Catalytic food waste HTL can produce fuel with an MFSP of $1.06/GGE
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Affiliation(s)
- Heather O. LeClerc
- Department of Chemical Engineering, Worcester Polytechnic Institute, 100 Institute Road, Worcester, MA 01609, USA
| | - Geoffrey A. Tompsett
- Department of Chemical Engineering, Worcester Polytechnic Institute, 100 Institute Road, Worcester, MA 01609, USA
| | - Alex D. Paulsen
- Mainstream Engineering Corporation, 200 Yellow Place, Rockledge, FL 32955, USA
| | - Amy M. McKenna
- National High Magnetic Field Laboratory, 1800 Paul Dirac Dr., Tallahassee, FL 32310, USA
- Department of Soil & Crop Sciences, Colorado State University, Fort Collins, CO 80523, USA
| | - Sydney F. Niles
- National High Magnetic Field Laboratory, 1800 Paul Dirac Dr., Tallahassee, FL 32310, USA
| | | | - Robert K. Nelson
- Woods Hole Oceanographic Institution, 86 Water St., Falmouth, MA 02543, USA
| | - Feng Cheng
- Department of Chemical Engineering, Worcester Polytechnic Institute, 100 Institute Road, Worcester, MA 01609, USA
| | - Andrew R. Teixeira
- Department of Chemical Engineering, Worcester Polytechnic Institute, 100 Institute Road, Worcester, MA 01609, USA
| | - Michael T. Timko
- Department of Chemical Engineering, Worcester Polytechnic Institute, 100 Institute Road, Worcester, MA 01609, USA
- Corresponding author
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15
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Kim S, Kim D, Jung MJ, Kim S. Analysis of environmental organic matters by Ultrahigh-Resolution mass spectrometry-A review on the development of analytical methods. MASS SPECTROMETRY REVIEWS 2022; 41:352-369. [PMID: 33491249 DOI: 10.1002/mas.21684] [Citation(s) in RCA: 22] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Revised: 09/10/2020] [Accepted: 09/10/2020] [Indexed: 06/12/2023]
Abstract
Owing to the increasing environmental and climate changes globally, there is an increasing interest in the molecular-level understanding of environmental organic compound mixtures, that is, the pursuit of complete and detailed knowledge of the chemical compositions and related chemical reactions. Environmental organic molecule mixtures, including those in air, soil, rivers, and oceans, have extremely complex and heterogeneous chemical compositions. For their analyses, ultrahigh-resolution and sub-ppb level mass accuracy, achievable using Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR MS), are important. FT-ICR MS has been successfully used to analyze complex environmental organic molecule mixtures such as natural, soil, particulate, and dissolved organic matter. Despite its success, many limitations still need to be overcome. Sample preparation, ionization, structural identification, chromatographic separation, and data interpretation are some key areas that have been the focus of numerous studies. This review describes key developments in analytical techniques in these areas to aid researchers seeking to start or continue investigations for the molecular-level understanding of environmental organic compound mixtures.
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Affiliation(s)
- Sungjune Kim
- Department of Chemistry, Kyungpook National University, Daegu, Korea
| | - Donghwi Kim
- Oil and POPs Research Group, Korea Institute of Ocean Science and Technology, Geoje, Korea
| | - Maeng-Joon Jung
- Department of Chemistry, Kyungpook National University, Daegu, Korea
| | - Sunghwan Kim
- Department of Chemistry, Kyungpook National University, Daegu, Korea
- Mass Spectrometry Convergence Research Center and Green-Nano Materials Research Center, Daegu, Korea
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16
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Chavez JD, Park SG, Mohr JP, Bruce JE. Applications and advancements of FT-ICR-MS for interactome studies. MASS SPECTROMETRY REVIEWS 2022; 41:248-261. [PMID: 33289940 PMCID: PMC8184889 DOI: 10.1002/mas.21675] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2020] [Revised: 10/16/2020] [Accepted: 10/16/2020] [Indexed: 05/05/2023]
Abstract
The set of all intra- and intermolecular interactions, collectively known as the interactome, is currently an unmet challenge for any analytical method, but if measured, could provide unparalleled insight on molecular function in living systems. Developments and applications of chemical cross-linking and high-performance mass spectrometry technologies are beginning to reveal details on how proteins interact in cells and how protein conformations and interactions inside cells change with phenotype or during drug treatment or other perturbations. A major contributor to these advances is Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) technology and its implementation with accurate mass measurements on cross-linked peptide-pair precursor and fragment ions to enable improved identification methods. However, these applications place increased demands on mass spectrometer performance in terms of high-resolution spectral acquisition rates for on-line MSn experiments. Moreover, FT-ICR-MS also offers unique opportunities to develop and implement parallel ICR cells for multiplexed signal acquisition and the potential to greatly advance accurate mass acquisition rates for interactome studies. This review highlights our efforts to exploit accurate mass FT-ICR-MS technologies with chemical cross-linking and developments being pursued to realize parallel MS array capabilities that will further advance visualization of the interactome.
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Affiliation(s)
- Juan D. Chavez
- Department of Genome Sciences, University of Washington, Seattle, WA 98109
| | - Sung-Gun Park
- Department of Genome Sciences, University of Washington, Seattle, WA 98109
| | - Jared P. Mohr
- Department of Genome Sciences, University of Washington, Seattle, WA 98109
| | - James E. Bruce
- Department of Genome Sciences, University of Washington, Seattle, WA 98109
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17
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Young RB, Pica NE, Sharifan H, Chen H, Roth HK, Blakney GT, Borch T, Higgins CP, Kornuc JJ, McKenna AM, Blotevogel J. PFAS Analysis with Ultrahigh Resolution 21T FT-ICR MS: Suspect and Nontargeted Screening with Unrivaled Mass Resolving Power and Accuracy. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:2455-2465. [PMID: 35099180 DOI: 10.1021/acs.est.1c08143] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
Per- and polyfluoroalkyl substances (PFASs) are a large family of thousands of chemicals, many of which have been identified using nontargeted time-of-flight and Orbitrap mass spectrometry methods. Comprehensive characterization of complex PFAS mixtures is critical to assess their environmental transport, transformation, exposure, and uptake. Because 21 tesla (T) Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR MS) offers the highest available mass resolving power and sub-ppm mass errors across a wide molecular weight range, we developed a nontargeted 21 T FT-ICR MS method to screen for PFASs in an aqueous film-forming foam (AFFF) using suspect screening, a targeted formula database (C, H, Cl, F, N, O, P, S; ≤865 Da), isotopologues, and Kendrick-analogous mass difference networks (KAMDNs). False-positive PFAS identifications in a natural organic matter (NOM) sample, which served as the negative control, suggested that a minimum length of 3 should be imposed when annotating CF2-homologous series with positive mass defects. We putatively identified 163 known PFASs during suspect screening, as well as 134 novel PFASs during nontargeted screening, including a suspected polyethoxylated perfluoroalkane sulfonamide series. This study shows that 21 T FT-ICR MS analysis can provide unique insights into complex PFAS composition and expand our understanding of PFAS chemistries in impacted matrices.
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Affiliation(s)
- Robert B Young
- Chemical Analysis & Instrumentation Laboratory, New Mexico State University, Las Cruces, New Mexico 88003, United States
| | - Nasim E Pica
- Department of Civil and Environmental Engineering, Colorado State University, Fort Collins, Colorado 80523, United States
- Weston Solutions, Lakewood, Colorado 80401, United States
| | - Hamidreza Sharifan
- Department of Civil and Environmental Engineering, Colorado State University, Fort Collins, Colorado 80523, United States
- Department of Natural Science, Albany State University, Albany, Georgia 31705, United States
| | - Huan Chen
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
| | - Holly K Roth
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Greg T Blakney
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
| | - Thomas Borch
- Department of Civil and Environmental Engineering, Colorado State University, Fort Collins, Colorado 80523, United States
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
- Department of Soil & Crop Sciences, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Christopher P Higgins
- Department of Civil and Environmental Engineering, Colorado School of Mines, Golden, Colorado 80401, United States
| | - John J Kornuc
- NAVFAC EXWC, 1100 23rd Avenue, Port Hueneme, California 93041, United States
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
- Department of Soil & Crop Sciences, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Jens Blotevogel
- Department of Civil and Environmental Engineering, Colorado State University, Fort Collins, Colorado 80523, United States
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18
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Vandergrift GW, Kew W, Lukowski JK, Bhattacharjee A, Liyu AV, Shank EA, Paša-Tolić L, Prabhakaran V, Anderton CR. Imaging and Direct Sampling Capabilities of Nanospray Desorption Electrospray Ionization with Absorption-Mode 21 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. Anal Chem 2022; 94:3629-3636. [PMID: 35167251 DOI: 10.1021/acs.analchem.1c05216] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Nanospray desorption electrospray ionization mass spectrometry, a powerful ambient sampling and imaging technique, is herein coupled as an isolated source with 21 Tesla (21T) Fourier transform ion cyclotron resonance mass spectrometry (FTICR MS). Absorption-mode data, enabled by an external data acquisition system, is applied for improved mass resolution, accuracy, and dynamic range without compromising spectral acquisition rates. Isotopic fine structure (IFS) information is obtained from the ambient sampling of living Bacillus and Fusarium species, allowing for high confidence in molecular annotations with a resolution >830 k (at m/z 825). Tandem mass spectrometry experiments for biological samples are shown to retain the IFS in addition to gained fragmentation information, providing a further degree of annotation confidence from ambient analyses. Rat brain was imaged by nanospray desorption electrospray ionization (nano-DESI) 21T FTICR MS in ∼5 h using 768 ms transients, producing over 800 molecular annotations using the METASPACE platform and low-parts-per-billion mass accuracy at a spatial resolution of ∼25 × 180 μm. Finally, nano-DESI 21T FTICR MS imaging is demonstrated to reveal images corresponding to the IFS, as well as hundreds of additional molecular features (including demonstrated differences as low as 8.96 mDa) that are otherwise undetected by a more conventional imaging methodology.
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Affiliation(s)
- Gregory W Vandergrift
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - William Kew
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Jessica K Lukowski
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Arunima Bhattacharjee
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Andrey V Liyu
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Elizabeth A Shank
- University of Massachusetts Chan Medical School, Worcester, Massachusetts 01655, United States
| | - Ljiljana Paša-Tolić
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Venkateshkumar Prabhakaran
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States.,The Gene & Linda Voil and School of Chemical Engineering and Bioengineering, Washington State University, Pullman, Washington 99164, United States
| | - Christopher R Anderton
- Environmental Molecular Sciences Laboratory and Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
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19
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Roth HK, Borch T, Young RB, Bahureksa W, Blakney GT, Nelson AR, Wilkins MJ, McKenna AM. Enhanced Speciation of Pyrogenic Organic Matter from Wildfires Enabled by 21 T FT-ICR Mass Spectrometry. Anal Chem 2022; 94:2973-2980. [PMID: 35107981 DOI: 10.1021/acs.analchem.1c05018] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Wildfires affect soils through the formation of pyrogenic organic matter (pyOM) (e.g., char and soot). While many studies examine the connection between pyOM persistence and carbon (C) composition, nitrogen (N) transformation in wildfire-impacted systems remains poorly understood. Thermal reactions in wildfires transform biomass into a highly complex, polyfunctional, and polydisperse organic mixture that challenges most mass analyzers. High-field Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) is the only mass analyzer that achieves resolving powers sufficient to separate species that differ in mass by the mass of an electron across a wide molecular weight range (m/z 150-1500). We report enhanced speciation of organic N by positive-ion electrospray ionization (ESI) that leverages ultrahigh resolving power (m/Δm50% = 1 800 000 at m/z 400) and mass accuracy (<10-100 ppb) achieved by FT-ICR MS at 21 T. Isobaric overlaps, roughly the mass of an electron (Me- = 548 μDa), are resolved across a wide molecular weight range and are more prevalent in positive ESI than negative ESI. The custom-built 21 T FT-ICR MS instrument identifies previously unresolved mass differences in CcHhNnOoSs formulas and assigns more than 30 000 peaks in a pyOM sample. This is the first molecular catalogue of pyOM by positive-ion ESI 21 T FT-ICR MS and presents a method to provide new insight into terrestrial cycling of organic carbon and nitrogen in wildfire impacted ecosystems.
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Affiliation(s)
- Holly K Roth
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Thomas Borch
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States.,Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
| | - Robert B Young
- Chemical Analysis & Instrumentation Laboratory, New Mexico State University, MSC 3RES, Las Cruces, New Mexico 88003, United States
| | - William Bahureksa
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Greg T Blakney
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States
| | - Amelia R Nelson
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
| | - Michael J Wilkins
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Florida State University,1800 East Paul Dirac Drive, Tallahassee, Florida 32310-4005, United States.,Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
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20
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Rowland SM, Smith DF, Blakney GT, Corilo YE, Hendrickson CL, Rodgers RP. Online Coupling of Liquid Chromatography with Fourier Transform Ion Cyclotron Resonance Mass Spectrometry at 21 T Provides Fast and Unique Insight into Crude Oil Composition. Anal Chem 2021; 93:13749-13754. [PMID: 34623794 DOI: 10.1021/acs.analchem.1c01169] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
High magnetic field Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometry provides the highest mass resolving power and mass measurement accuracy for detailed characterization of complex chemical mixtures. Here, we report the coupling of online liquid chromatography of complex mixtures with a 21 tesla FT-ICR mass spectrometer. The high magnetic field enables large ion populations to be analyzed for each spectrum for a high dynamic range, with 3.2 million mass resolving power at m/z 400 (6.2 s transient duration) or 1.6 million (3.1 s transient duration) while maintaining high mass accuracy for molecular formula assignment (root-mean-square assignment error < 0.150 ppm). Thousands of unique elemental compositions are assigned per mass spectrum, which can be grouped by the heteroatom class, double bond equivalents (the number of rings and double bonds to carbon), and carbon number. Figures of merit are discussed, as well as characterization of an Arabian heavy vacuum gas oil in terms of the ring number, compound class, double bond equivalents, and ion type. Consideration of elemental composition and retention order provides additional structural information.
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Affiliation(s)
- Steven M Rowland
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States.,Future Fuels Institute, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States
| | - Donald F Smith
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
| | - Gregory T Blakney
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States
| | - Yuri E Corilo
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States.,Future Fuels Institute, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States
| | - Christopher L Hendrickson
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States.,Department of Chemistry and Biochemistry, 95 Chieftain Way, Florida State University, Tallahassee, Florida 32306, United States
| | - Ryan P Rodgers
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States.,Future Fuels Institute, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States.,Department of Chemistry and Biochemistry, 95 Chieftain Way, Florida State University, Tallahassee, Florida 32306, United States
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21
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Walsh AN, Reddy CM, Niles SF, McKenna AM, Hansel CM, Ward CP. Plastic Formulation is an Emerging Control of Its Photochemical Fate in the Ocean. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:12383-12392. [PMID: 34494430 DOI: 10.1021/acs.est.1c02272] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
Sunlight exposure is a control of long-term plastic fate in the environment that converts plastic into oxygenated products spanning the polymer, dissolved, and gas phases. However, our understanding of how plastic formulation influences the amount and composition of these photoproducts remains incomplete. Here, we characterized the initial formulations and resulting dissolved photoproducts of four single-use consumer polyethylene (PE) bags from major retailers and one pure PE film. Consumer PE bags contained 15-36% inorganic additives, primarily calcium carbonate (13-34%) and titanium dioxide (TiO2; 1-2%). Sunlight exposure consistently increased production of dissolved organic carbon (DOC) relative to leaching in the dark (3- to 80-fold). All consumer PE bags produced more DOC during sunlight exposure than the pure PE (1.2- to 2.0-fold). The DOC leached after sunlight exposure increasingly reflected the 13C and 14C isotopic composition of the plastic. Ultrahigh resolution Fourier transform ion cyclotron resonance mass spectrometry revealed that sunlight exposure substantially increased the number of DOC formulas detected (1.1- to 50-fold). TiO2-containing bags photochemically degraded into the most compositionally similar DOC, with 68-94% of photoproduced formulas in common with at least one other TiO2-containing bag. Conversely, only 28% of photoproduced formulas from the pure PE were detected in photoproduced DOC from the consumer PE. Overall, these findings suggest that plastic formulation, especially TiO2, plays a determining role in the amount and composition of DOC generated by sunlight. Consequently, studies on pure, unweathered polymers may not accurately represent the fates and impacts of the plastics entering the ocean.
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Affiliation(s)
- Anna N Walsh
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Christopher M Reddy
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
| | - Sydney F Niles
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310-4005, United States
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310-4005, United States
- Department of Chemistry, Colorado State University, 1872 Campus Delivery, Fort Collins, Colorado 80523, United States
| | - Colleen M Hansel
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
| | - Collin P Ward
- Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
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22
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Sanders JD, Butalewicz JP, Clowers BH, Brodbelt JS. Absorption Mode Fourier Transform Ion Mobility Mass Spectrometry Multiplexing Combined with Half-Window Apodization Windows Improves Resolution and Shortens Acquisition Times. Anal Chem 2021; 93:9513-9520. [PMID: 34185992 DOI: 10.1021/acs.analchem.1c01427] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Fourier transform multiplexing enables the coupling of drift tube ion mobility to a wide array of mass spectrometers with improved ion utilization and duty cycles compared to dual-gate signal averaging methods. Traditionally, the data generated by this method is presented in the magnitude mode, but significant improvements in resolution and the signal-to-noise ratio (SNR) are expected if the data can be phase corrected and presented in the absorption mode. A method to simply and reliably determine and correct phase shifts in Fourier transform ion mobility mass spectrometry data using information readily available to any user is presented and evaluated for both small molecule and intact protein analyses with no modification to instrument hardware or experimental procedures. Additionally, the effects of apodization and zero padding are evaluated for both processing methods, and a strategy to use these techniques to reduce acquisition times is presented and evaluated. Resolution is improved by an average factor of 1.6, the SNR is improved by an average factor of 1.2, and acquisition times are reduced by up to 80% through the application of absorption mode processing combined with apodization and zero padding.
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Affiliation(s)
- James D Sanders
- The University of Texas at Austin, Austin, Texas 78712, United States
| | | | - Brian H Clowers
- Washington State University, Pullman, Washington 99163, United States
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23
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Phase Correction for Absorption Mode Two-Dimensional Mass Spectrometry. Molecules 2021; 26:molecules26113388. [PMID: 34205070 PMCID: PMC8199897 DOI: 10.3390/molecules26113388] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2021] [Revised: 05/26/2021] [Accepted: 05/28/2021] [Indexed: 12/03/2022] Open
Abstract
Two-dimensional mass spectrometry (2D MS) is a tandem mass spectrometry method that relies on manipulating ion motions to correlate precursor and fragment ion signals. 2D mass spectra are obtained by performing a Fourier transform in both the precursor ion mass-to-charge ratio (m/z) dimension and the fragment ion m/z dimension. The phase of the ion signals evolves linearly in the precursor m/z dimension and quadratically in the fragment m/z dimension. This study demonstrates that phase-corrected absorption mode 2D mass spectrometry improves signal-to-noise ratios by a factor of 2 and resolving power by a factor of 2 in each dimension compared to magnitude mode. Furthermore, phase correction leads to an easier differentiation between ion signals and artefacts, and therefore easier data interpretation.
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24
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Monda H, McKenna AM, Fountain R, Lamar RT. Bioactivity of Humic Acids Extracted From Shale Ore: Molecular Characterization and Structure-Activity Relationship With Tomato Plant Yield Under Nutritional Stress. FRONTIERS IN PLANT SCIENCE 2021; 12:660224. [PMID: 34122481 PMCID: PMC8195337 DOI: 10.3389/fpls.2021.660224] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Accepted: 04/28/2021] [Indexed: 06/12/2023]
Abstract
The increasing demands for biostimulants in the agricultural market over the last years have posed the problem of regulating this product category by requiring the industry to make available the information about efficacy and safety, including the explanation of mode of action and the definition of bioactive constituents. In the present study, we tested the biostimulant proprieties of a sedimentary shale ore-extracted humic acid (HA) on Micro Tom tomato plants under increasing nutritional stress and investigated the correlation with the chemical features of HA by means of ultra-high resolution FT-ICR MS, FT-ATR, and 13C-NMR. Humic acid application proved effective in alleviating the nutritional stress by improving nutrient use efficiency, with results comparable to the control treatment supplied with higher NPK nutrition. Increased yield (up to +19%) and fruit quality (in the range +10-24%), higher ascorbic acid content and a better root growth were the main parameters affected by HA application. Molecular-level characterization identified the possible chemical drivers of bioactivity, and included flavonoids, quinones, and alkaloids among the most represented molecules, some of which exhibiting antioxidant, pro-oxidant, and antimicrobial activity. The redox effect was discussed as a determinant of the delicate homeostasis balance, capable of triggering plant defense response and eventually inducing a protective priming effect on the plants.
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Affiliation(s)
- Hiarhi Monda
- Humic R&D Lab, Bio Huma Netics, Inc., Gilbert, AZ, United States
| | - Amy M. McKenna
- National High Magnetic Field Laboratory, Ion Cyclotron Resonance Facility, Tallahassee, FL, United States
| | - Ryan Fountain
- Humic R&D Lab, Bio Huma Netics, Inc., Gilbert, AZ, United States
| | - Richard T. Lamar
- Humic R&D Lab, Bio Huma Netics, Inc., Gilbert, AZ, United States
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25
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Classification of the Biogenicity of Complex Organic Mixtures for the Detection of Extraterrestrial Life. Life (Basel) 2021; 11:life11030234. [PMID: 33809046 PMCID: PMC8001260 DOI: 10.3390/life11030234] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Revised: 03/02/2021] [Accepted: 03/07/2021] [Indexed: 11/17/2022] Open
Abstract
Searching for life in the Universe depends on unambiguously distinguishing biological features from background signals, which could take the form of chemical, morphological, or spectral signatures. The discovery and direct measurement of organic compounds unambiguously indicative of extraterrestrial (ET) life is a major goal of Solar System exploration. Biology processes matter and energy differently from abiological systems, and materials produced by biological systems may become enriched in planetary environments where biology is operative. However, ET biology might be composed of different components than terrestrial life. As ET sample return is difficult, in situ methods for identifying biology will be useful. Mass spectrometry (MS) is a potentially versatile life detection technique, which will be used to analyze numerous Solar System environments in the near future. We show here that simple algorithmic analysis of MS data from abiotic synthesis (natural and synthetic), microbial cells, and thermally processed biological materials (lab-grown organisms and petroleum) easily identifies relational organic compound distributions that distinguish pristine and aged biological and abiological materials, which likely can be attributed to the types of compounds these processes produce, as well as how they are formed and decompose. To our knowledge this is the first comprehensive demonstration of the utility of this analytical technique for the detection of biology. This method is independent of the detection of particular masses or molecular species samples may contain. This suggests a general method to agnostically detect evidence of biology using MS given a sufficiently strong signal in which the majority of the material in a sample has either a biological or abiological origin. Such metrics are also likely to be useful for studies of possible emergent living phenomena, and paleobiological samples.
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26
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Chen M, Li C, Spencer RGM, Maie N, Hur J, McKenna AM, Yan F. Climatic, land cover, and anthropogenic controls on dissolved organic matter quantity and quality from major alpine rivers across the Himalayan-Tibetan Plateau. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 754:142411. [PMID: 33254910 DOI: 10.1016/j.scitotenv.2020.142411] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2020] [Revised: 09/15/2020] [Accepted: 09/16/2020] [Indexed: 06/12/2023]
Abstract
Alpine rivers in mountainous regions are crucial not only for land-ocean transfer of chemical species and sediments, but also for water, food, and energy security. Here, we examined dissolved organic matter (DOM) from the major alpine waters on the Tibetan Plateau. Our results revealed a decreasing trend of DOM quantity juxtaposed to an increasing trend of aromaticity from the northern to southern plateau. This is potentially caused by a general decreasing gradient of dust load combined with an increasing gradient of precipitation and vegetation from the NW to SE plateau. Furthermore, most proglacial streams and smaller tributaries were found to be relatively dominated by tyrosine-like fluorescent DOM from glaciers. In contrast, most main stems of rivers and tributaries within larger catchment basins were more controlled by humic-like fluorescent DOM from terrestrial origins. Condensed aromatics accounts for 14-21% of molecular formulas for riverine DOM, much higher than the world's average of ~11%, which indicated anthropogenic black soot pollution. In addition, there is a higher level of DOM amount in the monsoon season than in winter, and DOM characteristics varied more widely (dissolved organic carbon concentration: 0.2-37 mg-C L-1, Fluorescence Index: 1.2-1.8) on the Tibetan Plateau in comparison to other global alpine watersheds. This suggests heterogeneous land cover, anthropogenic, and climatic factors at play, which is reflected in DOM quantity and quality, over the highest plateau on Earth.
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Affiliation(s)
- Meilian Chen
- Environmental Program, Guangdong Technion - Israel Institute of Technology, Shantou 515063, China.
| | - Chaoliu Li
- CAS Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, China; CAS Center for Excellence in Tibetan Plateau Earth Sciences, Chinese Academy of Sciences, Beijing 100101, China
| | - Robert G M Spencer
- Department of Earth, Ocean and Atmospheric Science, Florida State University, Tallahassee, FL 32306, United States
| | - Nagamitsu Maie
- School of Veterinary Medicine, Kitasato University, 23-35-1 Higashi, Towada, Aomori 034-8628, Japan
| | - Jin Hur
- Department of Environment & Energy, Sejong University, Seoul 05006, South Korea
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Tallahassee, Florida 32310, United States
| | - Fangping Yan
- State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
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27
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Da Silva MP, Kaesler JM, Reemtsma T, Lechtenfeld OJ. Absorption Mode Spectral Processing Improves Data Quality of Natural Organic Matter Analysis by Fourier-Transform Ion Cyclotron Resonance Mass Spectrometry. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2020; 31:1615-1618. [PMID: 32510217 DOI: 10.1021/jasms.0c00138] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Natural organic matter (NOM) plays an important role in elemental cycles and ecology. Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) is an ultrahigh resolution technique used to molecularly resolve the complexity of NOM mixtures. However, even the very high mass resolution of FT-ICR-MS may result in multiple formula assignments to peaks in an NOM spectrum, especially at the high mass-to-charge ratio (m/z). The absorption mode is one option to process raw FT-ICR-MS data that can further increase the resolution of the peaks and has not been widely applied in NOM studies. In this study, we show the advantages of using the absorption mode for the analysis of NOM samples using a reference sample (Suwannee River fulvic acid). The absorption mode increased the precision of peak detection as well as the number (+23%) and accuracy of formula assignment (by 28%) when compared to the magnitude mode, besides achieving three times higher resolution. The results presented here highlight the potential to reduce the error threshold used during molecular formula assignment. In conclusion, the absorption mode shows advantages in the processing of NOM samples and other complex mixtures and should be promoted in the NOM community.
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Affiliation(s)
- Maria P Da Silva
- Department of Analytical Chemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstraße 15, 04318 Leipzig, Germany
| | - Jan M Kaesler
- Department of Analytical Chemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstraße 15, 04318 Leipzig, Germany
| | - Thorsten Reemtsma
- Department of Analytical Chemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstraße 15, 04318 Leipzig, Germany
| | - Oliver J Lechtenfeld
- Department of Analytical Chemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstraße 15, 04318 Leipzig, Germany
- ProVIS - Centre for Chemical Microscopy, Permoserstraße 15, 04318 Leipzig, Germany
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28
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Wang H, Lu L, Chen H, McKenna AM, Lu J, Jin S, Zuo Y, Rosario-Ortiz FL, Ren ZJ. Molecular Transformation of Crude Oil Contaminated Soil after Bioelectrochemical Degradation Revealed by FT-ICR Mass Spectrometry. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2020; 54:2500-2509. [PMID: 31986023 DOI: 10.1021/acs.est.9b06164] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Bioremediation is a low-cost approach for crude oil spill remediation, but it is often limited by electron acceptor availability. In addition, the biodegradation products of crude oil contaminants are complex, and transformation pathways are difficult to decipher. This study demonstrates that bioelectrochemical systems (BESs) can be effective in crude oil degradation by integrating biological and electrochemical pathways, and more importantly, it provides the first understanding on the daughter products of bioelectrochemical hydrocarbon degradation. Using electrospray ionization (ESI) Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) and two-dimensional gas chromatography (GC × GC), the results showed that the active BES reactor improved the total petroleum hydrocarbon (TPH) degradation by ∼70% than open circuit control reactors. After separating the daughter products into nine fractions (MA1-MA9) according to the molecular weight (m/z 200-1000) by modified aminopropyl silica (MAPS) fractionation, we found that active BES remediation resulted in 50% more polar, oxygen-containing naphthenic (NAP) acids. The MA4 fraction (centered at ∼550 Da) increased by 47%, and MA5 and MA7 fractions with higher molucular weight increased by a maximum of ∼7- and 9-fold, respectively. These results are in accordance with the variation of bulk elemental compositions in O2 species, where daughter transformation products doubled relative to parent oil extract. The contribution of newly generated NAP acids was mainly from higher-order oxygen species (O5-O6) with increased hydrophobicity in conjunction with a decreased abundance in lower-order oxygen species (O1). Overall, the study suggests that n-alkane degradation occurred via β-oxidation to oxygenated transformation products with lower molecular weight, such as n-alcohols in O1 class and subsequently to n-fatty acids in O2 class.
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Affiliation(s)
- Huan Wang
- Department of Civil and Environmental Engineering and the Andlinger Center for Energy and the Environment , Princeton University , Princeton , New Jersey 08544 , United States
- Department of Civil, Environmental and Architectural Engineering , University of Colorado Boulder , Boulder , Colorado 80309 , United States
| | - Lu Lu
- Department of Civil and Environmental Engineering and the Andlinger Center for Energy and the Environment , Princeton University , Princeton , New Jersey 08544 , United States
| | - Huan Chen
- National High Magnetic Field Laboratory , Florida State University , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310 , United States
| | - Amy M McKenna
- National High Magnetic Field Laboratory , Florida State University , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310 , United States
| | - Jie Lu
- National High Magnetic Field Laboratory , Florida State University , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310 , United States
| | - Song Jin
- Advanced Environmental Technologies, LLC , Fort Collins , Colorado 80525 , United States
| | - Yi Zuo
- Chevron Energy Technology Company , San Ramon , California 94583 , United States
| | - Fernando L Rosario-Ortiz
- Department of Civil, Environmental and Architectural Engineering , University of Colorado Boulder , Boulder , Colorado 80309 , United States
| | - Zhiyong Jason Ren
- Department of Civil and Environmental Engineering and the Andlinger Center for Energy and the Environment , Princeton University , Princeton , New Jersey 08544 , United States
- Department of Civil, Environmental and Architectural Engineering , University of Colorado Boulder , Boulder , Colorado 80309 , United States
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29
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Bowman AP, Blakney GT, Hendrickson CL, Ellis SR, Heeren RMA, Smith DF. Ultra-High Mass Resolving Power, Mass Accuracy, and Dynamic Range MALDI Mass Spectrometry Imaging by 21-T FT-ICR MS. Anal Chem 2020; 92:3133-3142. [PMID: 31955581 PMCID: PMC7031845 DOI: 10.1021/acs.analchem.9b04768] [Citation(s) in RCA: 65] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
![]()
Detailed characterization
of complex biological surfaces by matrix-assisted
laser desorption/ionization (MALDI) mass spectrometry imaging (MSI)
requires instrumentation that is capable of high mass resolving power,
mass accuracy, and dynamic range. Fourier transform ion cyclotron
resonance mass spectrometry (FT-ICR MS) offers the highest mass spectral
performance for MALDI MSI experiments, and often reveals molecular
features that are unresolved on lower performance instrumentation.
Higher magnetic field strength improves all performance characteristics
of FT-ICR; mass resolving power improves linearly, while mass accuracy
and dynamic range improve quadratically with magnetic field strength.
Here, MALDI MSI at 21T is demonstrated for the first time: mass resolving
power in excess of 1 600 000 (at m/z 400), root-mean-square mass measurement accuracy below
100 ppb, and dynamic range per pixel over 500:1 were obtained from
the direct analysis of biological tissue sections. Molecular features
with m/z differences as small as
1.79 mDa were resolved and identified with high mass accuracy. These
features allow for the separation and identification of lipids to
the underlying structures of tissues. The unique molecular detail,
accuracy, sensitivity, and dynamic range combined in a 21T MALDI FT-ICR
MSI experiment enable researchers to visualize molecular structures
in complex tissues that have remained hidden until now. The instrument
described allows for future innovative, such as high-end studies to
unravel the complexity of biological, geological, and engineered organic
material surfaces with an unsurpassed detail.
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Affiliation(s)
- Andrew P Bowman
- Maastricht MultiModal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry (IMS) , Maastricht University , Universiteitssingel 50 , Maastricht 6629ER , The Netherlands
| | - Greg T Blakney
- Maastricht MultiModal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry (IMS) , Maastricht University , Universiteitssingel 50 , Maastricht 6629ER , The Netherlands
| | - Christopher L Hendrickson
- National High Magnetic Field Laboratory , Florida State University , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310-4005 , United States.,Department of Chemistry and Biochemistry , Florida State University , 95 Chieftain Way , Tallahassee , Florida 32306 , United States
| | - Shane R Ellis
- Maastricht MultiModal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry (IMS) , Maastricht University , Universiteitssingel 50 , Maastricht 6629ER , The Netherlands
| | - Ron M A Heeren
- Maastricht MultiModal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry (IMS) , Maastricht University , Universiteitssingel 50 , Maastricht 6629ER , The Netherlands
| | - Donald F Smith
- National High Magnetic Field Laboratory , Florida State University , 1800 East Paul Dirac Drive , Tallahassee , Florida 32310-4005 , United States
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30
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van Agthoven MA, Kilgour DPA, Lynch AM, Barrow MP, Morgan TE, Wootton CA, Chiron L, Delsuc MA, O'Connor PB. Phase relationships in two-dimensional mass spectrometry. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2019; 30:2594-2607. [PMID: 31617086 PMCID: PMC6914722 DOI: 10.1007/s13361-019-02308-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2019] [Revised: 07/29/2019] [Accepted: 08/02/2019] [Indexed: 05/14/2023]
Abstract
Two-dimensional mass spectrometry (2D MS) is a data-independent tandem mass spectrometry technique in which precursor and fragment ion species can be correlated without the need for prior ion isolation. The behavior of phase in 2D Fourier transform mass spectrometry is investigated with respect to the calculation of phase-corrected absorption-mode 2D mass spectra. 2D MS datasets have a phase that is defined differently in each dimension. In both dimensions, the phase behavior of precursor and fragment ions is found to be different. The dependence of the phase for both precursor and fragment ion signals on various parameters (e.g., modulation frequency, shape of the fragmentation zone) is discussed. Experimental data confirms the theoretical calculations of the phase in each dimension. Understanding the phase relationships in a 2D mass spectrum is beneficial to the development of possible algorithms for phase correction, which may improve both the signal-to-noise ratio and the resolving power of peaks in 2D mass spectra.
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Affiliation(s)
- Maria A van Agthoven
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK
| | - David P A Kilgour
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK
- School of Science and Technology, Nottingham Trent University, 50 Shakespeare Street, Nottingham, NG1 4FQ, UK
| | - Alice M Lynch
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK
- Department of Computer Science, University of St Andrews, North Haugh, St Andrews, Fife, KY16 9SX, UK
| | - Mark P Barrow
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK
| | - Tomos E Morgan
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK
| | - Christopher A Wootton
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK
| | - Lionel Chiron
- CASC4DE, Le Lodge 20 av. du Neuhof, 67100, Strasbourg, France
| | - Marc-André Delsuc
- CASC4DE, Le Lodge 20 av. du Neuhof, 67100, Strasbourg, France
- Institut de Génétique et de Biologie Moléculaire et Cellulaire, INSERM, U596, CNRS, UMR7104, Université de Strasbourg, 1 rue Laurent Fries, 67404, Illkirch-Graffenstaden, France
| | - Peter B O'Connor
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry, CV4 7AL, UK.
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31
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Palacio Lozano DC, Gavard R, Arenas-Diaz JP, Thomas MJ, Stranz DD, Mejía-Ospino E, Guzman A, Spencer SEF, Rossell D, Barrow MP. Pushing the analytical limits: new insights into complex mixtures using mass spectra segments of constant ultrahigh resolving power. Chem Sci 2019; 10:6966-6978. [PMID: 31588263 PMCID: PMC6764280 DOI: 10.1039/c9sc02903f] [Citation(s) in RCA: 54] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2019] [Accepted: 06/21/2019] [Indexed: 01/03/2023] Open
Abstract
A new strategy has been developed for characterization of the most challenging complex mixtures to date, using a combination of custom-designed experiments and a new data pre-processing algorithm. In contrast to traditional methods, the approach enables operation of Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) with constant ultrahigh resolution at hitherto inaccessible levels (approximately 3 million FWHM, independent of m/z). The approach, referred to as OCULAR, makes it possible to analyze samples that were previously too complex, even for high field FT-ICR MS instrumentation. Previous FT-ICR MS studies have typically spanned a broad mass range with decreasing resolving power (inversely proportional to m/z) or have used a single, very narrow m/z range to produce data of enhanced resolving power; both methods are of limited effectiveness for complex mixtures spanning a broad mass range, however. To illustrate the enhanced performance due to OCULAR, we show how a record number of unique molecular formulae (244 779 elemental compositions) can be assigned in a single, non-distillable petroleum fraction without the aid of chromatography or dissociation (MS/MS) experiments. The method is equally applicable to other areas of research, can be used with both high field and low field FT-ICR MS instruments to enhance their performance, and represents a step-change in the ability to analyze highly complex samples.
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Affiliation(s)
- Diana Catalina Palacio Lozano
- Department of Chemistry , University of Warwick , Coventry , CV4 7AL , UK .
- Department of Chemistry , Universidad Industrial de Santander , Bucaramanga , Colombia
| | - Remy Gavard
- Molecular Analytical Science Centre of Doctoral Training , University of Warwick , Coventry , CV4 7AL , UK
| | - Juan P Arenas-Diaz
- Department of Chemistry , Universidad Industrial de Santander , Bucaramanga , Colombia
| | - Mary J Thomas
- Department of Chemistry , University of Warwick , Coventry , CV4 7AL , UK .
- Molecular Analytical Science Centre of Doctoral Training , University of Warwick , Coventry , CV4 7AL , UK
| | | | - Enrique Mejía-Ospino
- Department of Chemistry , Universidad Industrial de Santander , Bucaramanga , Colombia
| | - Alexander Guzman
- Instituto Colombiano del Petróleo , Ecopetrol , Piedecuesta , Colombia
| | - Simon E F Spencer
- Department of Statistics , University of Warwick , Coventry , CV4 7AL , UK
| | - David Rossell
- Department of Economics & Business , Universitat Pompeu Fabra , Barcelona 08005 , Spain
| | - Mark P Barrow
- Department of Chemistry , University of Warwick , Coventry , CV4 7AL , UK .
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32
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Hu P, Cole DP. Routine Absorption Mode FTMS Data Display with an Ethoxylated Anionic Detergent as a Dual-Role (Mass and Phase) Calibrant. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2019; 30:468-475. [PMID: 30456597 DOI: 10.1007/s13361-018-2099-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Revised: 10/21/2018] [Accepted: 10/22/2018] [Indexed: 06/09/2023]
Abstract
Absorption mode display of Fourier transform mass spectrometry (FTMS) data is known to improve both peak shape and resolution. Most FTMS data, however, are shown in magnitude mode due to the lack of a routine for determining the phase of ions that are necessary for absorption mode display. Despite the recent development of phase calibration methods, the use of absorption mode processing as a routine has been inhibited by the lack of a good phase calibration standard, particularly a standard that can be used as both a mass and a phase calibrant. A dual-role calibrant will enable the consolidation of mass and phase calibration into a single step making phase calibration as accessible as mass calibration without any incremental increase in complexity in the calibration procedure. We tested a series of detergents and found Triton QS-15, an anionic detergent, suitable as a dual-role calibrant. Additionally, Triton QS-15 produces both positive and negative ion series and thus can be used as a calibrant in both ionization modes. The establishment of a phase calibration routine helps to enable the application of FTMS in areas that require extreme mass resolution. One of the areas is the separation of the fine isotopic peaks of molecules with a large molecular mass (e.g., > 500 u). For data acquired using an ion cyclotron resonance instrument with a small magnet (e.g., 7 Tesla), there may not be adequate mass resolution to establish a useful isotopic fine structure if the data is displayed in the historical magnitude mode. A mere switch to the absorption mode display makes the isotopic fine structure (IFS) readily available for molecular formula determination. Graphical Abstract x.
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Affiliation(s)
- Peifeng Hu
- Baxter Healthcare Corporation, 25212 W Illinois Rt. 120, Round Lake, IL, 60073, USA.
| | - D Paul Cole
- Baxter Healthcare Corporation, 25212 W Illinois Rt. 120, Round Lake, IL, 60073, USA
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van der Burgt YEM, Kilgour DPA, Tsybin YO, Srzentić K, Fornelli L, Beck A, Wuhrer M, Nicolardi S. Structural Analysis of Monoclonal Antibodies by Ultrahigh Resolution MALDI In-Source Decay FT-ICR Mass Spectrometry. Anal Chem 2019; 91:2079-2085. [PMID: 30571088 PMCID: PMC6365908 DOI: 10.1021/acs.analchem.8b04515] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
![]()
The
emergence of complex protein therapeutics in general and monoclonal
antibodies (mAbs) in particular have stimulated analytical chemists
to develop new methods and strategies for their structural characterization.
Mass spectrometry plays a key role in providing information on the
primary amino acid sequence, post-translational modifications, and
other structure characteristics that must be monitored during the
manufacturing process and subsequent quality control assessment. In
this study, we present a novel method that allows structural characterization
of mAbs based on MALDI in-source decay (ISD) fragmentation, coupled
with Fourier transform ion cyclotron resonance (FT-ICR) MS. The method
benefits from higher resolution of absorption mode FT mass spectra,
compared to magnitude mode, which enables simultaneous identification
of ISD fragments from both the heavy and light chains with a higher
confidence in a wide mass range up to m/z 13 500. This method was applied to two standard mAbs, namely
NIST mAb and trastuzumab, in preparation for method application in
an interlaboratory study on mAbs structural analysis coordinated by
the Consortium for Top-Down Proteomics. Extensive sequence coverage
was obtained from the middle-down analysis (IdeS- and GingisKHAN-digested
mAbs) that complemented the top-down analysis of intact mAbs. In addition,
MALDI FT-ICR MS of IdeS-digested mAbs allowed isotopic-level profiling
of proteoforms with regard to heavy chain N-glycosylation.
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Affiliation(s)
- Yuri E M van der Burgt
- Center for Proteomics and Metabolomics , Leiden University Medical Center (LUMC) , PO Box 9600, 2300 RC , Leiden , The Netherlands
| | - David P A Kilgour
- Department of Chemistry , Nottingham Trent University , Nottingham , NG11 0JN , U.K
| | - Yury O Tsybin
- Spectroswiss , EPFL Innovation Park , 1015 Lausanne , Switzerland
| | - Kristina Srzentić
- Departments of Chemistry and Molecular Biosciences, and the Proteomics Center of Excellence , Northwestern University , 2145 N. Sheridan Road , Evanston , Illinois 60208 , United States
| | - Luca Fornelli
- Departments of Chemistry and Molecular Biosciences, and the Proteomics Center of Excellence , Northwestern University , 2145 N. Sheridan Road , Evanston , Illinois 60208 , United States
| | - Alain Beck
- Centre d'Immunologie Pierre Fabre , 74160 St. Julien-en-Genevois , France
| | - Manfred Wuhrer
- Center for Proteomics and Metabolomics , Leiden University Medical Center (LUMC) , PO Box 9600, 2300 RC , Leiden , The Netherlands
| | - Simone Nicolardi
- Center for Proteomics and Metabolomics , Leiden University Medical Center (LUMC) , PO Box 9600, 2300 RC , Leiden , The Netherlands
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34
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Composition-Dependent Sorptive Fractionation of Anthropogenic Dissolved Organic Matter by Fe(III)-Montmorillonite. SOIL SYSTEMS 2018. [DOI: 10.3390/soilsystems2010014] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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35
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Krajewski LC, Lobodin VV, Johansen C, Bartges TE, Maksimova EV, MacDonald IR, Marshall AG. Linking Natural Oil Seeps from the Gulf of Mexico to Their Origin by Use of Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:1365-1374. [PMID: 29320168 DOI: 10.1021/acs.est.7b04445] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
We report chemical characterization of natural oil seeps from the Gulf of Mexico by Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) and Gas Chromatography/Atmospheric Pressure Chemical Ionization Mass Spectrometry (GC/APCI-MS), to highlight how FT-ICR MS can also be employed as a means to determine petroleum connectivity, in addition to traditional GC/MS techniques. The source of petroleum is the Green Canyon (GC) 600 lease block in the Gulf of Mexico. Within GC600, two natural oil seepage zones, Mega Plume and Birthday Candles, continuously release hydrocarbons and develop persistent oil slicks at the sea surface above them. We chemically trace the petroleum from the surface oil slicks to the Mega Plume seep itself, and further to a petroleum reservoir 5 km away in lease block GC645 (Holstein Reservoir). We establish the connectivity between oil samples and confirm a common geological origin for the oil slicks, oil seep, and reservoir oil. The ratios of seven common petroleum biomarkers detected by GC/APCI-MS display clear similarity between the GC600 and GC645 samples, as well as a distinct difference from another reservoir oil collected ∼300 km away (Macondo crude oil from MC252 lease block). FT-ICR MS and principal component analysis (PCA) demonstrate further similarities between the GC600 and GC645 samples that distinctly differ from MC252. A common geographical origin is postulated for the GC600/GC645 samples, with petroleum migrating from the GC645 reservoir to the oil seeps found in GC600 and up through the water column to the sea surface as an oil slick.
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Affiliation(s)
- Logan C Krajewski
- Department of Chemistry and Biochemistry, Florida State University , 95 Chieftain Way, Tallahassee, Florida 32306, United States
| | - Vladislav V Lobodin
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University , 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States
| | - Caroline Johansen
- Department of Earth, Ocean and Atmospheric Science, Florida State University , 95 Chieftain Way, Tallahassee, Florida 32306, United States
| | - Tessa E Bartges
- Department of Chemistry and Biochemistry, Florida State University , 95 Chieftain Way, Tallahassee, Florida 32306, United States
| | - Ekaterina V Maksimova
- College of Marine Science, University of South Florida , St. Petersburg, Florida 33701, United States
| | - Ian R MacDonald
- Department of Earth, Ocean and Atmospheric Science, Florida State University , 95 Chieftain Way, Tallahassee, Florida 32306, United States
| | - Alan G Marshall
- Department of Chemistry and Biochemistry, Florida State University , 95 Chieftain Way, Tallahassee, Florida 32306, United States
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University , 1800 East Paul Dirac Drive, Tallahassee, Florida 32310, United States
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36
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21 Tesla FT-ICR Mass Spectrometer for Ultrahigh-Resolution Analysis of Complex Organic Mixtures. Anal Chem 2018; 90:2041-2047. [PMID: 29303558 DOI: 10.1021/acs.analchem.7b04159] [Citation(s) in RCA: 134] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
We describe complex organic mixture analysis by 21 tesla (T) Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS). Ultrahigh mass-resolving power (m/Δm50% > 2 700 000 at m/z 400) and mass accuracy (80 ppb rms) enable resolution and confident identification of tens of thousands of unique elemental compositions. We demonstrate 2.2-fold higher mass-resolving power, 2.6-fold better mass measurement accuracy, and 1.3-fold more assigned molecular formulas compared to our custom-built, state-of-the-art 9.4 T FT-ICR mass spectrometer for petroleum and dissolved organic matter (DOM) analyses. Analysis of a heavy petroleum distillate exemplifies the need for ultrahigh-performance mass spectrometry (49 040 assigned molecular formulas for 21 T versus 29 012 for 9.4 T) and extends the identification of previously unresolved Oo, SsOo, and NOo classes. Mass selective ion accumulation (20 Thompson isolation) of an asphalt volcano sample yields 462 resolved mass spectral peaks at m/z 677 and reveals previously unresolved CcHhNnOoSs mass differences at high mass (m/z > 600). Similar performance gains are realized in the analysis of dissolved organic matter, where doubly charged Oo species are resolved from singly charged SOo species, which requires a mass-resolving power greater than 1 400 000 (at m/z 600). This direct comparison reveals the continued need for higher mass-resolving power and better mass accuracy for comprehensive molecular characterization of the most complex organic mixtures.
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37
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Cho E, Witt M, Hur M, Jung MJ, Kim S. Application of FT-ICR MS Equipped with Quadrupole Detection for Analysis of Crude Oil. Anal Chem 2017; 89:12101-12107. [DOI: 10.1021/acs.analchem.7b02644] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Eunji Cho
- Department
of Chemistry, Kyungpook National University, 80 Daehak-ro, Buk-gu, Daegu 41566, Republic of Korea
| | - Matthias Witt
- Bruker Daltonik
GmbH, Fahrenheitrasse 4, 28359 Bremen, Germany
| | - Manhoi Hur
- Department
of Genetics, Development, and Cell Biology, Iowa State University, Ames, Iowa 50011, United States
- Center
for Metabolic Biology, Iowa State University, Ames, Iowa 50011, United States
| | - Maeng-Joon Jung
- Department
of Chemistry, Kyungpook National University, 80 Daehak-ro, Buk-gu, Daegu 41566, Republic of Korea
| | - Sunghwan Kim
- Department
of Chemistry, Kyungpook National University, 80 Daehak-ro, Buk-gu, Daegu 41566, Republic of Korea
- Green-Nano Materials
Research Center, Daegu 41566, Republic of Korea
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38
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Gavard R, Rossell D, Spencer SEF, Barrow MP. Themis: Batch Preprocessing for Ultrahigh-Resolution Mass Spectra of Complex Mixtures. Anal Chem 2017; 89:11383-11390. [PMID: 28985049 DOI: 10.1021/acs.analchem.7b02345] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
Fourier transform ion cyclotron resonance mass spectrometry affords the resolving power to determine an unprecedented number of components in complex mixtures, such as petroleum. The software tools required to also analyze these data struggle to keep pace with advancing instrument capabilities and increasing quantities of data, particularly in terms of combining information efficiently across multiple replicates. Improved confidence in data and the use of replicates is particularly important where strategic decisions will be based upon the analysis. We present a new algorithm named Themis, developed using R, to jointly preprocess replicate measurements of a sample with the aim of improving consistency as a preliminary step to assigning peaks to chemical compositions. The main features of the algorithm are quality control criteria to detect failed runs, ensuring comparable magnitudes across replicates, peak alignment, and the use of an adaptive mixture model-based strategy to help distinguish true peaks from noise. The algorithm outputs a list of peaks reliably observed across replicates and facilitates data handling by preprocessing all replicates in a single step. The processed data produced by our algorithm can subsequently be analyzed by use of relevant specialized software. While Themis has been demonstrated with petroleum as an example of a complex mixture, its basic framework will be useful for complex samples arising from a variety of other applications.
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Affiliation(s)
| | - David Rossell
- Department of Economics & Business, Universitat Pompeu Fabra , Barcelona 08005, Spain
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39
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Krajewski LC, Rodgers RP, Marshall AG. 126 264 Assigned Chemical Formulas from an Atmospheric Pressure Photoionization 9.4 T Fourier Transform Positive Ion Cyclotron Resonance Mass Spectrum. Anal Chem 2017; 89:11318-11324. [DOI: 10.1021/acs.analchem.7b02004] [Citation(s) in RCA: 45] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Logan C. Krajewski
- Department
of Chemistry and Biochemistry, Florida State University, 95 Chieftain
Way, Tallahassee, Florida 32306, United States
| | - Ryan P. Rodgers
- Department
of Chemistry and Biochemistry, Florida State University, 95 Chieftain
Way, Tallahassee, Florida 32306, United States
| | - Alan G. Marshall
- Department
of Chemistry and Biochemistry, Florida State University, 95 Chieftain
Way, Tallahassee, Florida 32306, United States
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40
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Qi Y, Luo R, Schrader W, Volmer DA. Application of phase correction to improve the characterization of photooxidation products of lignin using 7 Tesla Fourier-transform ion cyclotron resonance mass spectrometry. Facets (Ott) 2017. [DOI: 10.1139/facets-2016-0069] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Lignin is the second most abundant natural biopolymer and potentially a valuable alternative energy source for conventional fossil fuels. In this study, Fourier-transform ion cyclotron resonance-mass spectrometry (FTICR-MS) in conjunction with phase correction was applied to study photooxidation products of lignin using a 7 Tesla (T) mass spectrometer. The application of 7 T FTICR-MS has often been inadequate for the analysis of complex natural organic matter because of insufficient resolving power as compared with high-field FTICR, which led to incorrect assignments of elemental formulae and discontinuous plots in graphical and statistical analyses. Here, the application of phase correction to the FTICR mass spectra of lignin oxidation products greatly improved the spectral quality, and thus, readily permitted characterization of photooxidation processes of lignin compounds under simulated solar radiation conditions.
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Affiliation(s)
- Yulin Qi
- Institute of Bioanalytical Chemistry, Saarland University, D-66123 Saarbrücken, Germany
| | - Ruoji Luo
- Max-Planck-Institut für Kohlenforschung, 45470 Mülheim an der Ruhr, Germany
| | - Wolfgang Schrader
- Max-Planck-Institut für Kohlenforschung, 45470 Mülheim an der Ruhr, Germany
| | - Dietrich A. Volmer
- Institute of Bioanalytical Chemistry, Saarland University, D-66123 Saarbrücken, Germany
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41
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Guan X, Brownstein NC, Young NL, Marshall AG. Ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry and tandem mass spectrometry for peptide de novo amino acid sequencing for a seven-protein mixture by paired single-residue transposed Lys-N and Lys-C digestion. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2017; 31:207-217. [PMID: 27813191 DOI: 10.1002/rcm.7783] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2016] [Revised: 10/29/2016] [Accepted: 10/30/2016] [Indexed: 06/06/2023]
Abstract
RATIONALE Bottom-up tandem mass spectrometry (MS/MS) is regularly used in proteomics to identify proteins from a sequence database. De novo sequencing is also available for sequencing peptides with relatively short sequence lengths. We recently showed that paired Lys-C and Lys-N proteases produce peptides of identical mass and similar retention time, but different tandem mass spectra. Such parallel experiments provide complementary information, and allow for up to 100% MS/MS sequence coverage. METHODS Here, we report digestion by paired Lys-C and Lys-N proteases of a seven-protein mixture: human hemoglobin alpha, bovine carbonic anhydrase 2, horse skeletal muscle myoglobin, hen egg white lysozyme, bovine pancreatic ribonuclease, bovine rhodanese, and bovine serum albumin, followed by reversed-phase nanoflow liquid chromatography, collision-induced dissociation, and 14.5 T Fourier transform ion cyclotron resonance mass spectrometry. RESULTS Matched pairs of product peptide ions of equal precursor mass and similar retention times from each digestion are compared, leveraging single-residue transposed information with independent interferences to confidently identify fragment ion types, residues, and peptides. Selected pairs of product ion mass spectra for de novo sequenced protein segments from each member of the mixture are presented. CONCLUSIONS Pairs of the transposed product ions as well as complementary information from the parallel experiments allow for both high MS/MS coverage for long peptide sequences and high confidence in the amino acid identification. Moreover, the parallel experiments in the de novo sequencing reduce false-positive matches of product ions from the single-residue transposed peptides from the same segment, and thereby further improve the confidence in protein identification. Copyright © 2016 John Wiley & Sons, Ltd.
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Affiliation(s)
- Xiaoyan Guan
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, FL, 32310, USA
| | - Naomi C Brownstein
- Department of Behavioral Sciences and Social Medicine, College of Medicine, Florida State University, 1115 W. Call St., Tallahassee, FL, 32306, USA
- Department of Statistics, Florida State University, 117 N. Woodward Ave., Tallahassee, FL, 32306, USA
| | - Nicolas L Young
- Verna & Marrs McLean Department of Biochemistry & Molecular Biology, Baylor College of Medicine, One Baylor Plaza, MS-125, Houston, TX, 77030-3411, USA
| | - Alan G Marshall
- Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, FL, 32310, USA
- Department of Chemistry and Biochemistry, Florida State University, 95 Chieftain Way, Tallahassee, FL, 32303, USA
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42
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Rea M, Jiang T, Eleazer R, Eckstein M, Marshall AG, Fondufe-Mittendorf YN. Quantitative Mass Spectrometry Reveals Changes in Histone H2B Variants as Cells Undergo Inorganic Arsenic-Mediated Cellular Transformation. Mol Cell Proteomics 2016; 15:2411-22. [PMID: 27169413 PMCID: PMC4937513 DOI: 10.1074/mcp.m116.058412] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2016] [Revised: 05/09/2016] [Indexed: 11/06/2022] Open
Abstract
Exposure to inorganic arsenic, a ubiquitous environmental toxic metalloid, leads to carcinogenesis. However, the mechanism is unknown. Several studies have shown that inorganic arsenic exposure alters specific gene expression patterns, possibly through alterations in chromatin structure. While most studies on understanding the mechanism of chromatin-mediated gene regulation have focused on histone post-translational modifications, the role of histone variants remains largely unknown. Incorporation of histone variants alters the functional properties of chromatin. To understand the global dynamics of chromatin structure and function in arsenic-mediated carcinogenesis, analysis of the histone variants incorporated into the nucleosome and their covalent modifications is required. Here we report the first global mass spectrometric analysis of histone H2B variants as cells undergo arsenic-mediated epithelial to mesenchymal transition. We used electron capture dissociation-based top-down tandem mass spectrometry analysis validated with quantitative reverse transcription real-time polymerase chain reaction to identify changes in the expression levels of H2B variants in inorganic arsenic-mediated epithelial-mesenchymal transition. We identified changes in the expression levels of specific histone H2B variants in two cell types, which are dependent on dose and length of exposure of inorganic arsenic. In particular, we found increases in H2B variants H2B1H/1K/1C/1J/1O and H2B2E/2F, and significant decreases in H2B1N/1D/1B as cells undergo inorganic arsenic-mediated epithelial-mesenchymal transition. The analysis of these histone variants provides a first step toward an understanding of the functional significance of the diversity of histone structures, especially in inorganic arsenic-mediated gene expression and carcinogenesis.
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Affiliation(s)
- Matthew Rea
- From the ‡Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky 40536
| | - Tingting Jiang
- §Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306
| | - Rebekah Eleazer
- From the ‡Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky 40536
| | - Meredith Eckstein
- From the ‡Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky 40536
| | - Alan G Marshall
- §Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306; ¶Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310
| | - Yvonne N Fondufe-Mittendorf
- From the ‡Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky 40536;
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43
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Park GB, Field RW. Perspective: The first ten years of broadband chirped pulse Fourier transform microwave spectroscopy. J Chem Phys 2016; 144:200901. [DOI: 10.1063/1.4952762] [Citation(s) in RCA: 83] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- G. Barratt Park
- Institute for Physical Chemistry, University of Göttingen, Tammannstraße 6, 37077 Göttingen, Germany
- Max Planck Institute for Biophysical Chemistry, Göttingen, Am Faßberg 11, 37077 Göttingen, Germany
| | - Robert W. Field
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
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44
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Faeth JL, Savage PE, Jarvis JM, McKenna AM, Savage PE. Characterization of products from fast and isothermal hydrothermal liquefaction of microalgae. AIChE J 2016. [DOI: 10.1002/aic.15147] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Julia L. Faeth
- Dept. of Chemical EngineeringUniversity of MichiganAnn Arbor MI48109
| | - Phillip E. Savage
- Dept. of Chemical EngineeringUniversity of MichiganAnn Arbor MI48109
| | - Jacqueline M. Jarvis
- National High Magnetic Field LaboratoryFlorida State UniversityTallahassee FL32310
| | - Amy M. McKenna
- National High Magnetic Field LaboratoryFlorida State UniversityTallahassee FL32310
| | - Phillip E. Savage
- Dept. of Chemical EngineeringPennsylvania State UniversityUniversity Park PA16802
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45
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Patrie SM. Top-Down Mass Spectrometry: Proteomics to Proteoforms. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2016; 919:171-200. [PMID: 27975217 DOI: 10.1007/978-3-319-41448-5_8] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
This chapter highlights many of the fundamental concepts and technologies in the field of top-down mass spectrometry (TDMS), and provides numerous examples of contributions that TD is making in biology, biophysics, and clinical investigations. TD workflows include variegated steps that may include non-specific or targeted preparative strategies, orthogonal liquid chromatography techniques, analyte ionization, mass analysis, tandem mass spectrometry (MS/MS) and informatics procedures. This diversity of experimental designs has evolved to manage the large dynamic range of protein expression and diverse physiochemical properties of proteins in proteome investigations, tackle proteoform microheterogeneity, as well as determine structure and composition of gas-phase proteins and protein assemblies.
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Affiliation(s)
- Steven M Patrie
- Computational and Systems Biology & Biomedical Engineering Graduate Programs, University of Texas Southwestern Medical Center, Dallas, TX, USA. .,Department of Pathology, University of Texas Southwestern Medical Center, Dallas, TX, USA. .,Department of Bioengineering, University of Texas at Dallas, Richardson, TX, USA.
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46
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Nicolardi S, Bogdanov B, Deelder AM, Palmblad M, van der Burgt YEM. Developments in FTICR-MS and Its Potential for Body Fluid Signatures. Int J Mol Sci 2015; 16:27133-44. [PMID: 26580595 PMCID: PMC4661870 DOI: 10.3390/ijms161126012] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2015] [Revised: 11/03/2015] [Accepted: 11/05/2015] [Indexed: 01/01/2023] Open
Abstract
Fourier transform mass spectrometry (FTMS) is the method of choice for measurements that require ultra-high resolution. The establishment of Fourier transform ion cyclotron resonance (FTICR) MS, the availability of biomolecular ionization techniques and the introduction of the Orbitrap™ mass spectrometer have widened the number of FTMS-applications enormously. One recent example involves clinical proteomics using FTICR-MS to discover and validate protein biomarker signatures in body fluids such as serum or plasma. These biological samples are highly complex in terms of the type and number of components, their concentration range, and the structural identity of each species, and thus require extensive sample cleanup and chromatographic separation procedures. Clearly, such an elaborate and multi-step sample preparation process hampers high-throughput analysis of large clinical cohorts. A final MS read-out at ultra-high resolution enables the analysis of a more complex sample and can thus simplify upfront fractionations. To this end, FTICR-MS offers superior ultra-high resolving power with accurate and precise mass-to-charge ratio (m/z) measurement of a high number of peptides and small proteins (up to 20 kDa) at isotopic resolution over a wide mass range, and furthermore includes a wide variety of fragmentation strategies to characterize protein sequence and structure, including post-translational modifications (PTMs). In our laboratory, we have successfully applied FTICR “next-generation” peptide profiles with the purpose of cancer disease classifications. Here we will review a number of developments and innovations in FTICR-MS that have resulted in robust and routine procedures aiming for ultra-high resolution signatures of clinical samples, exemplified with state-of-the-art examples for serum and saliva.
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Affiliation(s)
- Simone Nicolardi
- Center for Proteomics and Metabolomics, Leiden University Medical Center (LUMC), PO Box 9600, 2300 RC Leiden, The Netherlands.
| | - Bogdan Bogdanov
- Perkin Elmer, San Jose Technology Center, San Jose, CA 95134, USA.
| | - André M Deelder
- Center for Proteomics and Metabolomics, Leiden University Medical Center (LUMC), PO Box 9600, 2300 RC Leiden, The Netherlands.
| | - Magnus Palmblad
- Center for Proteomics and Metabolomics, Leiden University Medical Center (LUMC), PO Box 9600, 2300 RC Leiden, The Netherlands.
| | - Yuri E M van der Burgt
- Center for Proteomics and Metabolomics, Leiden University Medical Center (LUMC), PO Box 9600, 2300 RC Leiden, The Netherlands.
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47
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Hendrickson CL, Quinn JP, Kaiser NK, Smith DF, Blakney GT, Chen T, Marshall AG, Weisbrod CR, Beu SC. 21 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometer: A National Resource for Ultrahigh Resolution Mass Analysis. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2015; 26:1626-32. [PMID: 26091892 DOI: 10.1007/s13361-015-1182-2] [Citation(s) in RCA: 137] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2015] [Revised: 04/28/2015] [Accepted: 04/30/2015] [Indexed: 05/16/2023]
Abstract
We describe the design and initial performance of the first 21 tesla Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometer. The 21 tesla magnet is the highest field superconducting magnet ever used for FT-ICR and features high spatial homogeneity, high temporal stability, and negligible liquid helium consumption. The instrument includes a commercial dual linear quadrupole trap front end that features high sensitivity, precise control of trapped ion number, and collisional and electron transfer dissociation. A third linear quadrupole trap offers high ion capacity and ejection efficiency, and rf quadrupole ion injection optics deliver ions to a novel dynamically harmonized ICR cell. Mass resolving power of 150,000 (m/Δm(50%)) is achieved for bovine serum albumin (66 kDa) for a 0.38 s detection period, and greater than 2,000,000 resolving power is achieved for a 12 s detection period. Externally calibrated broadband mass measurement accuracy is typically less than 150 ppb rms, with resolving power greater than 300,000 at m/z 400 for a 0.76 s detection period. Combined analysis of electron transfer and collisional dissociation spectra results in 68% sequence coverage for carbonic anhydrase. The instrument is part of the NSF High-Field FT-ICR User Facility and is available free of charge to qualified users.
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Affiliation(s)
- Christopher L Hendrickson
- National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Drive, Tallahassee, FL, 32310, USA,
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Chen Y, Hoover ME, Dang X, Shomo AA, Guan X, Marshall AG, Freitas MA, Young NL. Quantitative Mass Spectrometry Reveals that Intact Histone H1 Phosphorylations are Variant Specific and Exhibit Single Molecule Hierarchical Dependence. Mol Cell Proteomics 2015. [PMID: 26209608 DOI: 10.1074/mcp.m114.046441] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Breast cancer was the second leading cause of cancer related mortality for females in 2014. Recent studies suggest histone H1 phosphorylation may be useful as a clinical biomarker of breast and other cancers because of its ability to recognize proliferative cell populations. Although monitoring a single phosphorylated H1 residue is adequate to stratify high-grade breast tumors, expanding our knowledge of how H1 is phosphorylated through the cell cycle is paramount to understanding its role in carcinogenesis. H1 analysis by bottom-up MS is challenging because of the presence of highly homologous sequence variants expressed by most cells. These highly basic proteins are difficult to analyze by LC-MS/MS because of the small, hydrophilic nature of peptides produced by tryptic digestion. Although bottom-up methods permit identification of several H1 phosphorylation events, these peptides are not useful for observing the combinatorial post-translational modification (PTM) patterns on the protein of interest. To complement the information provided by bottom-up MS, we utilized a top-down MS/MS workflow to permit identification and quantitation of H1 proteoforms related to the progression of breast cells through the cell cycle. Histones H1.2 and H1.4 were observed in MDA-MB-231 metastatic breast cells, whereas an additional histone variant, histone H1.3, was identified only in nonneoplastic MCF-10A cells. Progressive phosphorylation of histone H1.4 was identified in both cell lines at mitosis (M phase). Phosphorylation occurred first at S172 followed successively by S187, T18, T146, and T154. Notably, phosphorylation at S173 of histone H1.2 and S172, S187, T18, T146, and T154 of H1.4 significantly increases during M phase relative to S phase, suggesting that these events are cell cycle-dependent and may serve as markers for proliferation. Finally, we report the observation of the H1.2 SNP variant A18V in MCF-10A cells.
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Affiliation(s)
- Yu Chen
- From the ‡Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida, 32310
| | - Michael E Hoover
- §Department of Molecular Virology, Immunology and Medical Genetics, The Ohio State University, Columbus, Ohio, College of Medicine and Arthur G. James Comprehensive Cancer Center, Columbus, Ohio, 43210
| | - Xibei Dang
- ¶Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida, 32306
| | - Alan A Shomo
- ¶Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida, 32306
| | - Xiaoyan Guan
- From the ‡Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida, 32310
| | - Alan G Marshall
- From the ‡Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida, 32310; ¶Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida, 32306
| | - Michael A Freitas
- §Department of Molecular Virology, Immunology and Medical Genetics, The Ohio State University, Columbus, Ohio, College of Medicine and Arthur G. James Comprehensive Cancer Center, Columbus, Ohio, 43210;
| | - Nicolas L Young
- From the ‡Ion Cyclotron Resonance Program, National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida, 32310;
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Kilgour DPA, Nagornov KO, Kozhinov AN, Zhurov KO, Tsybin YO. Producing absorption mode Fourier transform ion cyclotron resonance mass spectra with non-quadratic phase correction functions. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2015; 29:1087-1093. [PMID: 26044277 DOI: 10.1002/rcm.7200] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2015] [Revised: 03/11/2015] [Accepted: 03/16/2015] [Indexed: 06/04/2023]
Abstract
RATIONALE Previously described methods for producing absorption mode Fourier transform ion cyclotron resonance (FTICR) mass spectra have all relied on the phase correction function being quadratic. This assumption has been found to be invalid for some instruments and spectra and so it has not been possible to produce absorption mode spectra for these cases. METHODS The Autophaser algorithm has been adapted to allow nth order polynomial phase correction functions to be optimized. The data was collected on a modified Thermo LTQ FTICR mass spectrometer, using electrospray ionization and a novel ICR cell design (NADEL). Peak assignment and mass calibration were undertaken using the pyFTMS framework. RESULTS An nth-order phase correction function has been used to produce an absorption mode mass spectrum of the maltene fraction of a crude oil sample which was not possible using the previous assumption that the phase correction function must be quadratic. Data processing for this spectrum in absorption mode has shown the expected benefits in terms of increasing the number of assigned peaks and also improving the mass accuracy (i.e. confidence) of the assignments. CONCLUSIONS It is possible to phase-correct time-domain data in FTICRMS to yield absorption mode mass spectra representation even when the data does not correspond to the theoretical quadratic phase correction function predicted by previous studies. This will allow a larger proportion of spectra to be processed in absorption mode.
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Affiliation(s)
- David P A Kilgour
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland Baltimore, MD, USA
| | - Konstantin O Nagornov
- Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne, 1015, Lausanne, Switzerland
| | - Anton N Kozhinov
- Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne, 1015, Lausanne, Switzerland
| | - Konstantin O Zhurov
- Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne, 1015, Lausanne, Switzerland
| | - Yury O Tsybin
- Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne, 1015, Lausanne, Switzerland
- Spectroswiss Sàrl, EPFL Innovation Park, 1015, Lausanne, Switzerland
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Kilgour DPA, Van Orden SL. Absorption mode Fourier transform mass spectrometry with no baseline correction using a novel asymmetric apodization function. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2015; 29:1009-1018. [PMID: 26044267 DOI: 10.1002/rcm.7190] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2015] [Revised: 03/05/2015] [Accepted: 03/07/2015] [Indexed: 06/04/2023]
Abstract
RATIONALE Absorption mode Fourier transform ion cyclotron resonance (FTICR) mass spectra offer significant benefits in terms of spectral resolution, signal-to-noise (S/N) ratio and measured mass accuracy. However, to date, methods for producing absorption mode spectra have created an undesirable baseline deviation as a consequence of FFT artifacts, resulting in interference of the frequency side-lobes of intense peaks. Methods for fitting and removing this deviation have been developed, but these are computationally intensive, slow and can be unreliable in practice. METHODS We have developed an approach for producing FTICR mass spectra which uses a new apodization approach to produce spectra which do not exhibit baseline deviation, whilst maintaining all the normal absorption mode benefits. This method involves the use of 'full' apodization function, replacing the more common Hann or half Hann functions, and where the user can control the position of the function maximum expressed as a fraction (F) of the transient length. RESULTS Absorption mode spectra produced using the new apodization function we propose provide all the normal benefits but do not exhibit baseline deviation that must be corrected prior to spectral interpretation. Additionally, varying the value of the F parameter allows users additional control over the compromise between the spectral resolving power and the S/N ratio. This is particularly beneficial in spectra with pronounced amplitude changes during the recording of the transient (detection). CONCLUSIONS The use of a 'full' apodization function, which may be asymmetric, prior to zero-padding and Fourier transformation, allows the production of absorption mode spectra which do not suffer from baseline deviation. Hence, it is no longer necessary to apply a baseline deviation correction in post processing, providing a significant performance advantage.
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Affiliation(s)
- David P A Kilgour
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland Baltimore, MD, USA
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