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Wei X, Ma D, Zhang Z, Wang LY, Gray JL, Zhang L, Zhu T, Wang X, Lenhart BJ, Yin Y, Wang Q, Liu C. N-Terminal Derivatization-Assisted Identification of Individual Amino Acids Using a Biological Nanopore Sensor. ACS Sens 2020; 5:1707-1716. [PMID: 32403927 PMCID: PMC7978492 DOI: 10.1021/acssensors.0c00345] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Nanopore technology has been employed as a powerful tool for DNA sequencing and analysis. To extend this method to peptide sequencing, a necessary step is to profile individual amino acids (AAs) through their nanopore stochastic signals, which remains a great challenge because of the low signal-to-noise ratio and unpredictable conformational changes of AAs during their translocation through nanopores. We showed that the combination of an N-terminal derivatization strategy of AAs with nanopore technology could lead to effective in situ differentiation of AAs. Four different derivatization reactions have been tested with five selected AAs: Ala, Phe, Tyr, His, and Asp. Using an α-hemolysin nanopore, we demonstrated the feasibility of derivatization-assisted identification of AAs regardless of their charge composition and polarity. The method was further applied to discriminate each individual AA in testing data sets using their established nanopore profiles from training data sets. We envision that this proof-of-concept study will not only pave a way for identification of individual AAs but also lead to future applications in protein/peptide sequencing using the nanopore technology.
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Affiliation(s)
- Xiaojun Wei
- Biomedical Engineering Program, University of South Carolina, Columbia, South Carolina 29208, United States
- Department of Chemical Engineering, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Dumei Ma
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208, United States
- Department of Chemical and Biochemical Engineering, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005 Fujian, China
| | - Zehui Zhang
- Biomedical Engineering Program, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Leon Y Wang
- Department of Chemical Engineering, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Jonathan L Gray
- Biomedical Engineering Program, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Libo Zhang
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Tianyu Zhu
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Xiaoqin Wang
- Department of Chemical Engineering, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Brian J Lenhart
- Department of Chemical Engineering, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Yingwu Yin
- Department of Chemical and Biochemical Engineering, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005 Fujian, China
| | - Qian Wang
- Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208, United States
| | - Chang Liu
- Biomedical Engineering Program, University of South Carolina, Columbia, South Carolina 29208, United States
- Department of Chemical Engineering, University of South Carolina, Columbia, South Carolina 29208, United States
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Khatymov RV, Muftakhov MV, Tuktarov RF, Raitman OA, Shokurov AV, Pankratyev EY. Fragmentation and slow autoneutralization of isolated negative molecular ions of phthalocyanine and tetraphenylporphyrin. J Chem Phys 2019; 150:134301. [PMID: 30954040 DOI: 10.1063/1.5087182] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Macrocyclic tetrapyrrolic compounds, such as naturally occurring or artificial porphyrins and phthalocyanines, have unique and highly attractive properties for applications in medicine and technology. The interaction of free-base phthalocyanine (H2Pc) and tetraphenylporphyrin (H2TPP) molecules with low-energy (0-15 eV) electrons was studied in vacuo by means of negative ion resonant electron capture mass spectrometry. Close similarities in formation and decay of negative ions of these compounds were revealed. Efficient formation of long-lived molecular negative ions (MNIs) was observed in the incident electron energy range of 0-8 eV, unprecedentedly wide for organic compounds and comparable to the range characteristic to carbon atomic clusters, fullerenes. Experiments testify to the strong persistence of MNIs of both compounds to dissociative decay, isomerization, and electron autodetachment. Lifetimes of MNIs as a function of incident electron energy were measured and it was concluded that the isolated anions may retain additional electrons in a time scale of up to hundreds of seconds at standard temperature due to the high adiabatic electron affinity of these large molecules. For the representatives of dyes and photochromic compounds comprehensively studied in terms of interaction with light, the present work highlights yet another unique property of these molecules, namely the capability to attach and durably retain an additional electron of low, pre-ionization energy.
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Affiliation(s)
- Rustem V Khatymov
- Institute of Molecule and Crystal Physics-Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences (IMCP UFRC RAS), Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - Mars V Muftakhov
- Institute of Molecule and Crystal Physics-Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences (IMCP UFRC RAS), Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - Renat F Tuktarov
- Institute of Molecule and Crystal Physics-Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences (IMCP UFRC RAS), Prospekt Oktyabrya 151, Ufa 450075, Russia
| | - Oleg A Raitman
- A.N. Frumkin Institute of Physical Chemistry and Electrochemistry of the Russian Academy of Sciences (IPCE RAS), Leninsky prospect, 31k4, Moscow 199071, Russia
| | - Alexander V Shokurov
- A.N. Frumkin Institute of Physical Chemistry and Electrochemistry of the Russian Academy of Sciences (IPCE RAS), Leninsky prospect, 31k4, Moscow 199071, Russia
| | - Evgeniy Yu Pankratyev
- Institute of Molecule and Crystal Physics-Subdivision of the Ufa Federal Research Centre of the Russian Academy of Sciences (IMCP UFRC RAS), Prospekt Oktyabrya 151, Ufa 450075, Russia
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Kauppila TJ, Syage JA, Benter T. Recent developments in atmospheric pressure photoionization-mass spectrometry. MASS SPECTROMETRY REVIEWS 2017; 36:423-449. [PMID: 25988849 DOI: 10.1002/mas.21477] [Citation(s) in RCA: 69] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2015] [Accepted: 04/29/2015] [Indexed: 05/28/2023]
Abstract
Recent developments in atmospheric pressure photoionization (APPI), which is one of the three most important ionization techniques in liquid chromatography-mass spectrometry, are reviewed. The emphasis is on the practical aspects of APPI analysis, its combination with different separation techniques, novel instrumental developments - especially in gas chromatography and ambient mass spectrometry - and the applications that have appeared in 2009-2014. © 2015 Wiley Periodicals, Inc. Mass Spec Rev 36:423-449, 2017.
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Affiliation(s)
- Tiina J Kauppila
- Faculty of Pharmacy, University of Helsinki, P.O. Box 56, 00014, Finland
| | - Jack A Syage
- Morpho Detection, 1251 E. Dyer Rd., Santa Ana, CA 92705, USA
| | - Thorsten Benter
- Department of Physical and Theoretical Chemistry, University of Wuppertal, Gaußstr. 20, 42119 Wuppertal, Germany
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Radović JR, Silva RC, Snowdon RW, Brown M, Larter S, Oldenburg TBP. A rapid method to assess a broad inventory of organic species in marine sediments using ultra-high resolution mass spectrometry. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2016; 30:1273-1282. [PMID: 27173109 DOI: 10.1002/rcm.7556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2016] [Revised: 03/09/2016] [Accepted: 03/10/2016] [Indexed: 06/05/2023]
Abstract
RATIONALE A broad range of organic species in marine sediments is routinely used as biogeochemical proxies of Earth history. These species are typically analyzed using different analytical methods, targeting very specific components and often including time-intensive sample preparation. There is, therefore, a need for a more comprehensive, rapid and high-throughput approach to simultaneously analyze a broad range of known sedimentary polar species and also have a surveillance capability able to identify candidate new species classes. METHODS Whole solvent extracts from recently deposited Gulf of Mexico marine sediments were obtained after a simple, one-step extraction. They were analyzed by Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS), using atmospheric pressure photoionization in positive ion mode (APPI-P), over a broad mass range (m/z 150-1500). RESULTS From 3000 to over 5000 peaks per sample were assigned molecular formulae, and the majority of assignments (90%) showed an absolute error lower than 200 ppb. The detected species belong to the NO1-7 , N4 O2-8 , O1-9 , HC, N and OS compound classes, including known biomarker species such as pigments (e.g. tetrapyrrole macrocycles and carotenoids) and lipids (e.g. glycerol dialkyl glycerol tetraethers, GDGTs), but also compounds of still unknown detailed molecular structure, but with clear potential geochemical relevance. CONCLUSIONS The reported method enables rapid (12 min FTICR-MS analysis time) and simultaneous detection of a broad range of multi-heteroatom, polar organic species in whole sediment extracts. This allows for higher sample throughput, a more comprehensive investigation of sedimentary geochemistry, and potentially the discovery of new components and derivation of novel, multi-species proxies. Copyright © 2016 John Wiley & Sons, Ltd.
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Affiliation(s)
- Jagoš R Radović
- PRG, Department of Geoscience, University of Calgary, 2500 University Drive NW, T2N 1N4, Calgary, AB, Canada
| | - Renzo C Silva
- PRG, Department of Geoscience, University of Calgary, 2500 University Drive NW, T2N 1N4, Calgary, AB, Canada
| | - Ryan W Snowdon
- PRG, Department of Geoscience, University of Calgary, 2500 University Drive NW, T2N 1N4, Calgary, AB, Canada
| | - Melisa Brown
- PRG, Department of Geoscience, University of Calgary, 2500 University Drive NW, T2N 1N4, Calgary, AB, Canada
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Silva AMN, Aguir A, Balula SS, Silva AMG, Rangel M. Characterization of a μ-oxo-bridged diiron porphyrin by ESI-LTQ-Orbitrap-MS. JOURNAL OF MASS SPECTROMETRY : JMS 2014; 49:763-765. [PMID: 25044905 DOI: 10.1002/jms.3405] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2014] [Revised: 05/15/2014] [Accepted: 06/01/2014] [Indexed: 06/03/2023]
Affiliation(s)
- André M N Silva
- REQUIMTE/Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007, Porto, Portugal
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Iglesias BA, Barata JFB, Ramos CIV, Santana-Marques MG, Neves MGPMS, Cavaleiro JAS. Adventures in corrole features by electrospray ionization mass spectrometry studies. RSC Adv 2014. [DOI: 10.1039/c3ra47788f] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
In this short review the importance of electrospray mass spectrometry in corrole chemistry is highlighted.
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Affiliation(s)
| | - Joana F. B. Barata
- Department of Chemistry and QOPNA
- University of Aveiro
- 3810-193 Aveiro, Portugal
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