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Ghosh Biswas R, Bermel W, Jenne A, Soong R, Simpson MJ, Simpson AJ. HR-MAS DREAMTIME NMR for Slow Spinning ex Vivo and in Vivo Samples. Anal Chem 2023; 95:17054-17063. [PMID: 37934172 DOI: 10.1021/acs.analchem.3c03800] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2023]
Abstract
HR-MAS NMR is a powerful tool, capable of monitoring molecular changes in intact heterogeneous samples. However, one of the biggest limitations of 1H NMR is its narrow spectral width which leads to considerable overlap in complex natural samples. DREAMTIME NMR is a highly selective technique that allows users to isolate suites of metabolites from congested spectra. This permits targeted metabolomics by NMR and is ideal for monitoring specific processes. To date, DREAMTIME has only been employed in solution-state NMR, here it is adapted for HR-MAS applications. At high spinning speeds (>5 kHz), DREAMTIME works with minimal modifications. However, spinning over 3-4 kHz leads to cell lysis, and if maintaining sample integrity is necessary, slower spinning (<2.5 kHz) is required. Very slow spinning (≤500 Hz) is advantageous for in vivo analysis to increase organism survival; however, sidebands from water pose a problem. To address this, a version of DREAMTIME, termed DREAMTIME-SLOWMAS, is introduced. Both techniques are compared at 2500, 500, and 50 Hz, using ex vivo worm tissue. Following this, DREAMTIME-SLOWMAS is applied to monitor key metabolites of anoxic stress in living shrimp at 500 Hz. Thus, standard DREAMTIME works well under MAS conditions and is recommended for samples reswollen in D2O or spun >2500 Hz. For slow spinning in vivo or intact tissue samples, DREAMTIME-SLOWMAS provides an excellent way to target process-specific metabolites while maintaining sample integrity. Overall, DREAMTIME should find widespread application wherever targeted molecular information is required from complex samples with a high degree of spectral overlap.
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Affiliation(s)
| | - Wolfgang Bermel
- Bruker Biospin GmbH, Rudolf-Plank-Str. 23, 76275 Ettlingen, Germany
| | - Amy Jenne
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Ronald Soong
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Myrna J Simpson
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Andre J Simpson
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
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2
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Lysak DH, Grisi M, Marable K, Conley GM, Michal CA, Moxley-Paquette V, Wolff WW, Downey K, Kock FVC, Costa PM, Ronda K, Moraes TB, Steiner K, Colnago LA, Simpson AJ. Exploring the Potential of Broadband Complementary Metal Oxide Semiconductor Micro-Coil Nuclear Magnetic Resonance for Environmental Research. Molecules 2023; 28:5080. [PMID: 37446742 PMCID: PMC10343494 DOI: 10.3390/molecules28135080] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2023] [Revised: 06/23/2023] [Accepted: 06/27/2023] [Indexed: 07/15/2023] Open
Abstract
With sensitivity being the Achilles' heel of nuclear magnetic resonance (NMR), the superior mass sensitivity offered by micro-coils can be an excellent choice for tiny, mass limited samples such as eggs and small organisms. Recently, complementary metal oxide semiconductor (CMOS)-based micro-coil transceivers have been reported and demonstrate excellent mass sensitivity. However, the ability of broadband CMOS micro-coils to study heteronuclei has yet to be investigated, and here their potential is explored within the lens of environmental research. Eleven nuclei including 7Li, 19F, 31P and, 205Tl were studied and detection limits in the low to mid picomole range were found for an extended experiment. Further, two environmentally relevant samples (a sprouting broccoli seed and a D. magna egg) were successfully studied using the CMOS micro-coil system. 13C NMR was used to help resolve broad signals in the 1H spectrum of the 13C enriched broccoli seed, and steady state free precession was used to improve the signal-to-noise ratio by a factor of six. 19F NMR was used to track fluorinated contaminants in a single D. magna egg, showing potential for studying egg-pollutant interactions. Overall, CMOS micro-coil NMR demonstrates significant promise in environmental research, especially when the future potential to scale to multiple coil arrays (greatly improving throughput) is considered.
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Affiliation(s)
- Daniel H. Lysak
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Marco Grisi
- Annaida Technologies, Innovation Park, 1015 Lausanne, Switzerland
| | - Kathryn Marable
- Annaida Technologies, Innovation Park, 1015 Lausanne, Switzerland
| | | | - Carl A. Michal
- Department of Physics and Astronomy, University of British Columbia, Vancouver, BC V6T 1Z1, Canada
| | | | - William W. Wolff
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Katelyn Downey
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Flavio V. C. Kock
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Peter M. Costa
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Kiera Ronda
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Tiago B. Moraes
- Departamento Engenharia de Biossistemas, Universidade de São Paulo/ESALQ, Av. Páduas Dias, 11, Piracicaba 13418-900, SP, Brazil
| | - Katrina Steiner
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
| | - Luiz A. Colnago
- Embrapa Instrumentação, Rua XV de Novembro 1452, São Carlos 13560-970, SP, Brazil
| | - Andre J. Simpson
- Environmental NMR Centre, University of Toronto, Toronto, ON M1C 1A4, Canada
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Ronda K, Downey K, Jenne A, Bastawrous M, Wolff WW, Steiner K, Lysak DH, Costa PM, Simpson MJ, Jobst KJ, Simpson AJ. Exploring Proton-Only NMR Experiments and Filters for Daphnia In Vivo: Potential and Limitations. Molecules 2023; 28:4863. [PMID: 37375418 DOI: 10.3390/molecules28124863] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Revised: 06/13/2023] [Accepted: 06/15/2023] [Indexed: 06/29/2023] Open
Abstract
Environmental metabolomics provides insight into how anthropogenic activities have an impact on the health of an organism at the molecular level. Within this field, in vivo NMR stands out as a powerful tool for monitoring real-time changes in an organism's metabolome. Typically, these studies use 2D 13C-1H experiments on 13C-enriched organisms. Daphnia are the most studied species, given their widespread use in toxicity testing. However, with COVID-19 and other geopolitical factors, the cost of isotope enrichment increased ~6-7 fold over the last two years, making 13C-enriched cultures difficult to maintain. Thus, it is essential to revisit proton-only in vivo NMR and ask, "Can any metabolic information be obtained from Daphnia using proton-only experiments?". Two samples are considered here: living and whole reswollen organisms. A range of filters are tested, including relaxation, lipid suppression, multiple-quantum, J-coupling suppression, 2D 1H-1H experiments, selective experiments, and those exploiting intermolecular single-quantum coherence. While most filters improve the ex vivo spectra, only the most complex filters succeed in vivo. If non-enriched organisms must be used, then, DREAMTIME is recommended for targeted monitoring, while IP-iSQC was the only experiment that allowed non-targeted metabolite identification in vivo. This paper is critically important as it documents not just the experiments that succeed in vivo but also those that fail and demonstrates first-hand the difficulties associated with proton-only in vivo NMR.
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Affiliation(s)
- Kiera Ronda
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Katelyn Downey
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Amy Jenne
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Monica Bastawrous
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - William W Wolff
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Katrina Steiner
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Daniel H Lysak
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Peter M Costa
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Myrna J Simpson
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Karl J Jobst
- Department of Chemistry, Memorial University of Newfoundland, 45 Arctic Ave., St. John's, NL A1C 5S7, Canada
| | - Andre J Simpson
- Department of Physical & Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
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4
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Cheng LL. High-resolution magic angle spinning NMR for intact biological specimen analysis: Initial discovery, recent developments, and future directions. NMR IN BIOMEDICINE 2023; 36:e4684. [PMID: 34962004 DOI: 10.1002/nbm.4684] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2021] [Revised: 12/15/2021] [Accepted: 12/20/2021] [Indexed: 06/14/2023]
Abstract
High-resolution magic angle spinning (HRMAS) NMR, an approach for intact biological material analysis discovered more than 25 years ago, has been advanced by many technical developments and applied to many biomedical uses. This article provides a history of its discovery, first by explaining the key scientific advances that paved the way for HRMAS NMR's invention, and then by turning to recent developments that have profited from applying and advancing the technique during the last 5 years. Developments aimed at directly impacting healthcare include HRMAS NMR metabolomics applications within studies of human disease states such as cancers, brain diseases, metabolic diseases, transplantation medicine, and adiposity. Here, the discussion describes recent HRMAS NMR metabolomics studies of breast cancer and prostate cancer, as well as of matching tissues with biofluids, multimodality studies, and mechanistic investigations, all conducted to better understand disease metabolic characteristics for diagnosis, opportune windows for treatment, and prognostication. In addition, HRMAS NMR metabolomics studies of plants, foods, and cell structures, along with longitudinal cell studies, are reviewed and discussed. Finally, inspired by the technique's history of discoveries and recent successes, future biomedical arenas that stand to benefit from HRMAS NMR-initiated scientific investigations are presented.
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Affiliation(s)
- Leo L Cheng
- Departments of Radiology and Pathology, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts, USA
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5
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Abstract
Metabolomics has long been used in a biomedical context. The most typical samples are body fluids in which small molecules can be detected and quantified using technologies such as Nuclear Magnetic Resonance (NMR) and Mass Spectrometry (MS). Many studies, in particular in the wider field of cancer research, are based on cellular models. Different cancer cells can have vastly different ways of regulating metabolism and responses to drug treatments depend on specific metabolic mechanisms which are often cell type specific. This has led to a series of publications using metabolomics to study metabolic mechanisms. Cell-based metabolomics has specific requirements and allows for interesting approaches where metabolism is followed in real-time. Here applications of metabolomics in cell biology have been reviewed, providing insight into specific technologies used and showing exemplary case studies with an emphasis towards applications which help to understand drug mechanisms.
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Affiliation(s)
- Zuhal Eraslan
- Department of Dermatology, Weill Cornell Medicine, New York, NY, USA
| | - Marta Cascante
- Department of Biochemistry and Molecular Biomedicine, University of Barcelona, Barcelona, Spain
- Institute of Biomedicine of University of Barcelona (IBUB), University of Barcelona, Barcelona, Spain
- CIBER of Hepatic and Digestive Diseases (CIBEREHD), Institute of Health Carlos III (ISCIII), Madrid, Spain
| | - Ulrich L Günther
- Institute of Chemistry and Metabolomics, University of Lübeck, Lübeck, Germany.
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Theillet FX, Luchinat E. In-cell NMR: Why and how? PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2022; 132-133:1-112. [PMID: 36496255 DOI: 10.1016/j.pnmrs.2022.04.002] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 04/19/2022] [Accepted: 04/27/2022] [Indexed: 06/17/2023]
Abstract
NMR spectroscopy has been applied to cells and tissues analysis since its beginnings, as early as 1950. We have attempted to gather here in a didactic fashion the broad diversity of data and ideas that emerged from NMR investigations on living cells. Covering a large proportion of the periodic table, NMR spectroscopy permits scrutiny of a great variety of atomic nuclei in all living organisms non-invasively. It has thus provided quantitative information on cellular atoms and their chemical environment, dynamics, or interactions. We will show that NMR studies have generated valuable knowledge on a vast array of cellular molecules and events, from water, salts, metabolites, cell walls, proteins, nucleic acids, drugs and drug targets, to pH, redox equilibria and chemical reactions. The characterization of such a multitude of objects at the atomic scale has thus shaped our mental representation of cellular life at multiple levels, together with major techniques like mass-spectrometry or microscopies. NMR studies on cells has accompanied the developments of MRI and metabolomics, and various subfields have flourished, coined with appealing names: fluxomics, foodomics, MRI and MRS (i.e. imaging and localized spectroscopy of living tissues, respectively), whole-cell NMR, on-cell ligand-based NMR, systems NMR, cellular structural biology, in-cell NMR… All these have not grown separately, but rather by reinforcing each other like a braided trunk. Hence, we try here to provide an analytical account of a large ensemble of intricately linked approaches, whose integration has been and will be key to their success. We present extensive overviews, firstly on the various types of information provided by NMR in a cellular environment (the "why", oriented towards a broad readership), and secondly on the employed NMR techniques and setups (the "how", where we discuss the past, current and future methods). Each subsection is constructed as a historical anthology, showing how the intrinsic properties of NMR spectroscopy and its developments structured the accessible knowledge on cellular phenomena. Using this systematic approach, we sought i) to make this review accessible to the broadest audience and ii) to highlight some early techniques that may find renewed interest. Finally, we present a brief discussion on what may be potential and desirable developments in the context of integrative studies in biology.
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Affiliation(s)
- Francois-Xavier Theillet
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France.
| | - Enrico Luchinat
- Dipartimento di Scienze e Tecnologie Agro-Alimentari, Alma Mater Studiorum - Università di Bologna, Piazza Goidanich 60, 47521 Cesena, Italy; CERM - Magnetic Resonance Center, and Neurofarba Department, Università degli Studi di Firenze, 50019 Sesto Fiorentino, Italy
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7
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Ghosh Biswas R, Soong R, Ning P, Lane D, Bastawrous M, Jenne A, Schmidig D, de Castro P, Graf S, Kuehn T, Kümmerle R, Bermel W, Busse F, Struppe J, Simpson MJ, Simpson AJ. Exploring the Applications of Carbon-Detected NMR in Living and Dead Organisms Using a 13C-Optimized Comprehensive Multiphase NMR Probe. Anal Chem 2022; 94:8756-8765. [PMID: 35675504 DOI: 10.1021/acs.analchem.2c01356] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Comprehensive multiphase-nuclear magnetic resonance (CMP-NMR) is a non-invasive approach designed to observe all phases (solutions, gels, and solids) in intact samples using a single NMR probe. Studies of dead and living organisms are important to understand processes ranging from biological growth to environmental stress. Historically, such studies have utilized 1H-based phase editing for the detection of soluble/swollen components and 1H-detected 2D NMR for metabolite assignments/screening. However, living organisms require slow spinning rates (∼500 Hz) to increase survivability, but at such low speeds, complications from water sidebands and spectral overlap from the modest chemical shift window (∼0-10 ppm) make 1H NMR challenging. Here, a novel 13C-optimized E-Free magic angle spinning CMP probe is applied to study all phases in ex vivo and in vivo samples. This probe consists of a two-coil design, with an inner single-tuned 13C coil providing a 113% increase in 13C sensitivity relative to a traditional multichannel single-CMP coil design. For organisms with a large biomass (∼0.1 g) like the Ganges River sprat (ex vivo), 13C-detected full spectral editing and 13C-detected heteronuclear correlation (HETCOR) can be performed at natural abundance. Unfortunately, for a single living shrimp (∼2 mg), 13C enrichment was still required, but 13C-detected HETCOR shows superior data relative to heteronuclear single-quantum coherence at low spinning speeds (due to complications from water sidebands in the latter). The probe is equipped with automatic-tuning-matching and is compatible with automated gradient shimming─a key step toward conducting multiphase screening of dead and living organisms under automation in the near future.
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Affiliation(s)
| | - Ronald Soong
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Paris Ning
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Daniel Lane
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Monica Bastawrous
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Amy Jenne
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Daniel Schmidig
- Bruker BioSpin AG, Industriestrasse 26, Fällanden 8117, Switzerland
| | - Peter de Castro
- Bruker BioSpin AG, Industriestrasse 26, Fällanden 8117, Switzerland
| | - Stephan Graf
- Bruker BioSpin AG, Industriestrasse 26, Fällanden 8117, Switzerland
| | - Till Kuehn
- Bruker BioSpin AG, Industriestrasse 26, Fällanden 8117, Switzerland
| | - Rainer Kümmerle
- Bruker BioSpin AG, Industriestrasse 26, Fällanden 8117, Switzerland
| | - Wolfgang Bermel
- Bruker BioSpin GmbH, Rudolf-Plank-Str. 23, 76275 Ettlingen, Germany
| | - Falko Busse
- Bruker BioSpin GmbH, Rudolf-Plank-Str. 23, 76275 Ettlingen, Germany
| | - Jochem Struppe
- Bruker Corporation, 15 Fortune Drive, Billerica, Massachusetts 01821-3991, USA
| | - Myrna J Simpson
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - André J Simpson
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
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8
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Anaraki MT, Lysak DH, Downey K, Kock FVC, You X, Majumdar RD, Barison A, Lião LM, Ferreira AG, Decker V, Goerling B, Spraul M, Godejohann M, Helm PA, Kleywegt S, Jobst K, Soong R, Simpson MJ, Simpson AJ. NMR spectroscopy of wastewater: A review, case study, and future potential. PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2021; 126-127:121-180. [PMID: 34852923 DOI: 10.1016/j.pnmrs.2021.08.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Revised: 08/12/2021] [Accepted: 08/13/2021] [Indexed: 06/13/2023]
Abstract
NMR spectroscopy is arguably the most powerful tool for the study of molecular structures and interactions, and is increasingly being applied to environmental research, such as the study of wastewater. With over 97% of the planet's water being saltwater, and two thirds of freshwater being frozen in the ice caps and glaciers, there is a significant need to maintain and reuse the remaining 1%, which is a precious resource, critical to the sustainability of most life on Earth. Sanitation and reutilization of wastewater is an important method of water conservation, especially in arid regions, making the understanding of wastewater itself, and of its treatment processes, a highly relevant area of environmental research. Here, the benefits, challenges and subtleties of using NMR spectroscopy for the analysis of wastewater are considered. First, the techniques available to overcome the specific challenges arising from the nature of wastewater (which is a complex and dilute matrix), including an examination of sample preparation and NMR techniques (such as solvent suppression), in both the solid and solution states, are discussed. Then, the arsenal of available NMR techniques for both structure elucidation (e.g., heteronuclear, multidimensional NMR, homonuclear scalar coupling-based experiments) and the study of intermolecular interactions (e.g., diffusion, nuclear Overhauser and saturation transfer-based techniques) in wastewater are examined. Examples of wastewater NMR studies from the literature are reviewed and potential areas for future research are identified. Organized by nucleus, this review includes the common heteronuclei (13C, 15N, 19F, 31P, 29Si) as well as other environmentally relevant nuclei and metals such as 27Al, 51V, 207Pb and 113Cd, among others. Further, the potential of additional NMR methods such as comprehensive multiphase NMR, NMR microscopy and hyphenated techniques (for example, LC-SPE-NMR-MS) for advancing the current understanding of wastewater are discussed. In addition, a case study that combines natural abundance (i.e. non-concentrated), targeted and non-targeted NMR to characterize wastewater, along with in vivo based NMR to understand its toxicity, is included. The study demonstrates that, when applied comprehensively, NMR can provide unique insights into not just the structure, but also potential impacts, of wastewater and wastewater treatment processes. Finally, low-field NMR, which holds considerable future potential for on-site wastewater monitoring, is briefly discussed. In summary, NMR spectroscopy is one of the most versatile tools in modern science, with abilities to study all phases (gases, liquids, gels and solids), chemical structures, interactions, interfaces, toxicity and much more. The authors hope this review will inspire more scientists to embrace NMR, given its huge potential for both wastewater analysis in particular and environmental research in general.
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Affiliation(s)
- Maryam Tabatabaei Anaraki
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada
| | - Daniel H Lysak
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada
| | - Katelyn Downey
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada
| | - Flávio Vinicius Crizóstomo Kock
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada; Department of Chemistry, Federal University of São Carlos-SP (UFSCar), São Carlos, SP, Brazil
| | - Xiang You
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada
| | - Rudraksha D Majumdar
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada; Synex Medical, 2 Bloor Street E, Suite 310, Toronto, ON M4W 1A8, Canada
| | - Andersson Barison
- NMR Center, Federal University of Paraná, CP 19081, 81530-900 Curitiba, PR, Brazil
| | - Luciano Morais Lião
- NMR Center, Institute of Chemistry, Universidade Federal de Goiás, Goiânia 74690-900, Brazil
| | | | - Venita Decker
- Bruker Biospin GmbH, Silberstreifen 4, 76287 Rheinstetten, Germany
| | | | - Manfred Spraul
- Bruker Biospin GmbH, Silberstreifen 4, 76287 Rheinstetten, Germany
| | | | - Paul A Helm
- Environmental Monitoring & Reporting Branch, Ontario Ministry of the Environment, Toronto M9P 3V6, Canada
| | - Sonya Kleywegt
- Technical Assessment and Standards Development Branch, Ontario Ministry of the Environment, Conservation and Parks, Toronto, ON M4V 1M2, Canada
| | - Karl Jobst
- Memorial University of Newfoundland, St. John's, NL A1C 5S7, Canada
| | - Ronald Soong
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada
| | - Myrna J Simpson
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada
| | - Andre J Simpson
- Environmental NMR Center, University of Toronto Scarborough, 1265 Military Trail, Toronto M1C1A4, Canada.
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9
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Ning P, Lane D, Ghosh Biswas R, Soong R, Schmidig D, Frei T, De Castro P, Kovacevic I, Graf S, Wegner S, Busse F, Kuehn T, Struppe J, Fey M, Stronks HJ, Monette M, Simpson MJ, Simpson AJ. Comprehensive Multiphase NMR Probehead with Reduced Radiofrequency Heating Improves the Analysis of Living Organisms and Heat-Sensitive Samples. Anal Chem 2021; 93:10326-10333. [PMID: 34259008 DOI: 10.1021/acs.analchem.1c01932] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Comprehensive multiphase (CMP) NMR, first described in 2012, combines all of the hardware components necessary to analyze all phases (solid, gel, and solution) in samples in their natural state. In combination with spectral editing experiments, it can fully differentiate phases and study the transfer of chemical species across and between phases, providing unprecedented molecular-level information in unaltered natural systems. However, many natural samples, such as swollen soils, plants, and small organisms, contain water, salts, and ionic compounds, making them electrically lossy and susceptible to RF heating, especially when using high-strength RF fields required to select the solid domains. While dedicated reduced-heating probes have been developed for solid-state NMR, to date, all CMP-NMR probes have been based on solenoid designs, which can lead to problematic sample heating. Here, a new prototype CMP probe was developed, incorporating a loop gap resonator (LGR) for decoupling. Temperature increases are monitored in salt solutions analogous to those in small aquatic organisms and then tested in vivo on Hyalella azteca (freshwater shrimp). In the standard CMP probe (solenoid), 80% of organisms died within 4 h under high-power decoupling, while in the LGR design, all organisms survived the entire test period of 12 h. The LGR design reduced heating by a factor of ∼3, which allowed 100 kHz decoupling to be applied to salty samples with generally ≤10 °C sample heating. In addition to expanding the potential for in vivo research, the ability to apply uncompromised high-power decoupling could be beneficial for multiphase samples containing true crystalline solids that require the strongest possible decoupling fields for optimal detection.
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Affiliation(s)
- Paris Ning
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Daniel Lane
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | | | - Ronald Soong
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - Daniel Schmidig
- Bruker BioSpin AG, Industriestrasse 26, 8117 Fällanden, Switzerland
| | - Thomas Frei
- Bruker BioSpin AG, Industriestrasse 26, 8117 Fällanden, Switzerland
| | - Peter De Castro
- Bruker BioSpin AG, Industriestrasse 26, 8117 Fällanden, Switzerland
| | - Ivan Kovacevic
- Bruker BioSpin AG, Industriestrasse 26, 8117 Fällanden, Switzerland
| | - Stephan Graf
- Bruker BioSpin AG, Industriestrasse 26, 8117 Fällanden, Switzerland
| | - Sebastian Wegner
- Bruker BioSpin GmbH, Silberstreifen 4, 76287 Rheinstetten, Germany
| | - Falko Busse
- Bruker BioSpin GmbH, Silberstreifen 4, 76287 Rheinstetten, Germany
| | - Till Kuehn
- Bruker BioSpin AG, Industriestrasse 26, 8117 Fällanden, Switzerland
| | - Jochem Struppe
- Bruker BioSpin Corp., 15 Fortune Drive, Billerica, Massachusetts 01821-3991, United States
| | - Michael Fey
- Bruker BioSpin Corp., 15 Fortune Drive, Billerica, Massachusetts 01821-3991, United States
| | - Henry J Stronks
- Bruker Ltd., 2800 High Point Drive, Milton, Ontario L9T 6P4, Canada
| | - Martine Monette
- Bruker Ltd., 2800 High Point Drive, Milton, Ontario L9T 6P4, Canada
| | - Myrna J Simpson
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
| | - André J Simpson
- Environmental NMR Centre, University of Toronto, Toronto, Ontario M1C 1A4, Canada
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10
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Fugolin AP, Logan MG, Kendall AJ, Ferracane JL, Pfeifer CS. Effect of side-group methylation on the performance of methacrylamides and methacrylates for dentin hybridization. Dent Mater 2021; 37:805-815. [PMID: 33663882 PMCID: PMC8058282 DOI: 10.1016/j.dental.2021.02.004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2020] [Revised: 12/30/2020] [Accepted: 02/05/2021] [Indexed: 10/22/2022]
Abstract
The stability of the bond between polymeric adhesives to mineralized substrates is crucial in many biomedical applications. The objective of this study was to determine the effect of methyl substitution at the α- and β-carbons on the kinetics of polymerization, monomer hydrolytic stability, and long-term bond strength to dentin for methacrylamide- and methacrylate-based crosslinked networks for dental adhesive applications. METHODS Secondary methacrylamides (α-CH3 substituted=1-methyl HEMAM, β-CH3 substituted=2-methyl HEMAM, and unsubstituted=HEMAM) and OH-terminated methacrylates (α- and β-CH3 mixture=1-methyl HEMA and 2-methyl HEMA, and unsubstituted=HEMA) were copolymerized with urethane dimethacrylate. The kinetics of photopolymerization were followed in real-time using near-IR spectroscopy. Monomer hydrolysis kinetics were followed by NMR spectroscopy in water at pH 1 over 30 days. Solvated adhesives (40 vol% ethanol) were used to bond composite to dentin and microtensile bond strength (μTBS) measured after 24h and 6 months storage in water at 37°C. RESULTS The rate of polymerization increased in the following order: OH-terminated methacrylates≥methacrylamides>NH2-terminated methacrylates, with minimal effect of the substitution. Final conversion ranged between 79% for 1-methyl AEMA and 94% for HEMA. 1-methyl-HEMAM showed the highest and most stable μTBS, while HEMA showed a 37% reduction after six months All groups showed measurable degradation after up to 4 days in pH 1, with the methacrylamides showing less degradation than the methacrylates. Additionally, transesterification products were observed in the methacrylamide groups. SIGNIFICANCE Amide monomers were significantly more stable to hydrolysis than the analogous methacrylates. The addition of a α- or β-CH3 groups increased the rate of hydrolysis, with the magnitude of the effect tracking with the expected base-catalyzed hydrolysis of esters or amides, but opposite in influence. The α-CH3 substituted secondary methacrylamide, 1-methyl HEMAM, showed the most stable adhesive interface. A side reaction was observed with transesterification of the monomers studied under ambient conditions, which was not expected under the relatively mild conditions used here, which warrants further investigation.
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Affiliation(s)
- Ana P Fugolin
- Biomaterials and Biomechanics, Department of Restorative Dentistry, Oregon Health and Science University, Portland, OR 97239, USA
| | - Matthew G Logan
- Biomaterials and Biomechanics, Department of Restorative Dentistry, Oregon Health and Science University, Portland, OR 97239, USA
| | - Alexander J Kendall
- Biomaterials and Biomechanics, Department of Restorative Dentistry, Oregon Health and Science University, Portland, OR 97239, USA
| | - Jack L Ferracane
- Biomaterials and Biomechanics, Department of Restorative Dentistry, Oregon Health and Science University, Portland, OR 97239, USA
| | - Carmem S Pfeifer
- Biomaterials and Biomechanics, Department of Restorative Dentistry, Oregon Health and Science University, Portland, OR 97239, USA.
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11
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Edison AS, Colonna M, Gouveia GJ, Holderman NR, Judge MT, Shen X, Zhang S. NMR: Unique Strengths That Enhance Modern Metabolomics Research. Anal Chem 2020; 93:478-499. [DOI: 10.1021/acs.analchem.0c04414] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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12
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Inverse or direct detect experiments and probes: Which are “best” for in-vivo NMR research of 13C enriched organisms? Anal Chim Acta 2020; 1138:168-180. [DOI: 10.1016/j.aca.2020.09.065] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Revised: 09/11/2020] [Accepted: 09/30/2020] [Indexed: 01/09/2023]
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13
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Ghosh Biswas R, Fortier-McGill B, Akhter M, Soong R, Ning P, Bastawrous M, Jenne A, Schmidig D, De Castro P, Graf S, Kuehn T, Busse F, Struppe J, Fey M, Heumann H, Boenisch H, Gundy M, Simpson MJ, Simpson AJ. Ex vivo Comprehensive Multiphase NMR of whole organisms: A complementary tool to in vivo NMR. Anal Chim Acta X 2020; 6:100051. [PMID: 33392494 PMCID: PMC7772632 DOI: 10.1016/j.acax.2020.100051] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2020] [Revised: 05/29/2020] [Accepted: 06/23/2020] [Indexed: 12/15/2022] Open
Abstract
Nuclear Magnetic Resonance (NMR) spectroscopy is a non-invasive analytical technique which allows for the study of intact samples. Comprehensive Multiphase NMR (CMP-NMR) combines techniques and hardware from solution state and solid state NMR to allow for the holistic analysis of all phases (i.e. solutions, gels and solids) in unaltered samples. This study is the first to apply CMP-NMR to deceased, intact organisms and uses 13C enriched Daphnia magna (water fleas) as an example. D. magna are commonly used model organisms for environmental toxicology studies. As primary consumers, they are responsible for the transfer of nutrients across trophic levels, and a decline in their population can potentially impact the entire freshwater aquatic ecosystem. Though in vivo research is the ultimate tool to understand an organism’s most biologically relevant state, studies are limited by conditions (i.e. oxygen requirements, limited experiment time and reduced spinning speed) required to keep the organisms alive, which can negatively impact the quality of the data collected. In comparison, ex vivo CMP-NMR is beneficial in that; organisms do not need oxygen (eliminating air holes in rotor caps and subsequent evaporation); samples can be spun faster, leading to improved spectral resolution; more biomass per sample can be analyzed; and experiments can be run for longer. In turn, higher quality ex vivo NMR, can provide more comprehensive NMR assignments, which in many cases could be transferred to better understand less resolved in vivo signals. This manuscript is divided into three sections: 1) multiphase spectral editing techniques, 2) detailed metabolic assignments of 2D NMR of 13C enriched D. magna and 3) multiphase biological changes over different life stages, ages and generations of D. magna. In summary, ex vivo CMP-NMR proves to be a very powerful approach to study whole organisms in a comprehensive manner and should provide very complementary information to in vivo based research. Comprehensive Multiphase NMR detects all phases (solid/liquid/gel) in whole samples. Deceased organisms are not subjected to the limitations of in vivo NMR studies. 2D ex vivo NMR offer increased spectral resolution, improving metabolite assignment. Holistic analysis shows biological changes in D. magna over different life stages. Ex vivo NMR can be a complementary tool for in vivo NMR metabolomic studies.
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Affiliation(s)
- Rajshree Ghosh Biswas
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Blythe Fortier-McGill
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Mohammad Akhter
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Ronald Soong
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Paris Ning
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Monica Bastawrous
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Amy Jenne
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - Daniel Schmidig
- Bruker Switzerland AG, Industriestrasse 26, 8117, Fällanden, Switzerland
| | - Peter De Castro
- Bruker Switzerland AG, Industriestrasse 26, 8117, Fällanden, Switzerland
| | - Stephan Graf
- Bruker Switzerland AG, Industriestrasse 26, 8117, Fällanden, Switzerland
| | - Till Kuehn
- Bruker Switzerland AG, Industriestrasse 26, 8117, Fällanden, Switzerland
| | - Falko Busse
- Bruker Biospin GmbH, Silberstreifen 4, 76287, Rheinstetten, Germany
| | - Jochem Struppe
- Bruker Corporation, 15 Fortune Drive, Billerica, MA, 01821-3991, USA
| | - Michael Fey
- Bruker Corporation, 15 Fortune Drive, Billerica, MA, 01821-3991, USA
| | - Hermann Heumann
- Silantes GmbH, Gollierstrasse 70c, D-80339, München, Germany
| | - Holger Boenisch
- Silantes GmbH, Gollierstrasse 70c, D-80339, München, Germany
| | - Marcel Gundy
- Silantes GmbH, Gollierstrasse 70c, D-80339, München, Germany
| | - Myrna J Simpson
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
| | - André J Simpson
- University of Toronto Scarborough, Department of Physical & Environmental Sciences, 1265, Military Trail, M1C 1A4, ON, Canada
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14
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Soong R, Liaghati Mobarhan Y, Tabatabaei M, Bastawrous M, Biswas RG, Simpson M, Simpson A. Flow-based in vivo NMR spectroscopy of small aquatic organisms. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2020; 58:411-426. [PMID: 32239577 DOI: 10.1002/mrc.4886] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2019] [Revised: 03/08/2019] [Accepted: 04/28/2019] [Indexed: 06/11/2023]
Abstract
NMR applied to living organisms is arguably the ultimate tool for understanding environmental stress responses and can provide desperately needed information on toxic mechanisms, synergistic effects, sublethal impacts, recovery, and biotransformation of xenobiotics. To perform in vivo NMR spectroscopy, a flow cell system is required to deliver oxygen and food to the organisms while maintaining optimal line shape for NMR spectroscopy. In this tutorial, two such flow cell systems and their constructions are discussed: (a) a single pump high-volume flow cell design is simple to build and ideal for organisms that do not require feeding (i.e., eggs) and (b) a more advanced low-volume double pump flow cell design that permits feeding, maintains optimal water height for water suppression, improves locking and shimming, and uses only a small recirculating volume, thus reducing the amount of xenobiotic required for testing. In addition, key experimental aspects including isotopic enrichment, water suppression, and 2D experiments for both 13 C enriched and natural abundance organisms are discussed.
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Affiliation(s)
- Ronald Soong
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - Yalda Liaghati Mobarhan
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - Maryam Tabatabaei
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - Monica Bastawrous
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - Rajshree Ghosh Biswas
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada
| | - Myrna Simpson
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada
| | - Andre Simpson
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada
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15
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Liaghati Mobarhan Y, Soong R, Lane D, Simpson AJ. In vivo comprehensive multiphase NMR. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2020; 58:427-444. [PMID: 32239574 DOI: 10.1002/mrc.4832] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Revised: 12/20/2018] [Accepted: 01/03/2019] [Indexed: 06/11/2023]
Abstract
Traditionally, due to different hardware requirements, nuclear magnetic resonance (NMR) has developed as two separate fields: one dealing with solids, and one with solutions. Comprehensive multiphase (CMP) NMR combines all electronics and hardware (magic angle spinning [MAS], gradients, high power Radio Frequency (RF) handling, lock, susceptibility matching) into a universal probe that permits a comprehensive study of all phases (i.e., liquid, gel-like, semisolid, and solid), in intact samples. When applied in vivo, it provides unique insight into the wide array of bonds in a living system from the most mobile liquids (blood, fluids) through gels (muscle, tissues) to the most rigid (exoskeleton, shell). In this tutorial, the practical aspects of in vivo CMP NMR are discussed including: handling the organisms, rotor preparation, sample spinning, water suppression, editing experiments, and finishes with a brief look at the potential of other heteronuclei (2 H, 15 N, 19 F, 31 P) for in vivo research. The tutorial is aimed as a general resource for researchers interested in developing and applying MAS-based approaches to living organisms. Although the focus here is CMP NMR, many of the approaches can be adapted (or directly applied) using conventional high-resolution magic angle spinning, and in some cases, even standard solid-state NMR probes.
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Affiliation(s)
- Yalda Liaghati Mobarhan
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Ronald Soong
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Daniel Lane
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Andre J Simpson
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
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16
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Lucas-Torres C, Wong A. Intact NMR spectroscopy: slow high-resolution magic angle spinning chemical shift imaging. Analyst 2020; 145:2520-2524. [PMID: 32129382 DOI: 10.1039/d0an00118j] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
High-Resolution Magic-Angle Spinning Chemical Shift Imaging (HR-MAS CSI) has recently been explored for nuclear magnetic resonance (NMR) metabolomics and shows considerable promise in organism research. This is due to its ability to offer a supplemental dimension - spatial metabolic distribution - for profiling. However, HR-MAS CSI suffers from the large centrifugal stress exerted on the sample, which inevitably hinders the metabolic assessment. Herein, a slow sample spinning strategy was implemented and evaluated. The results demonstrate its potential as a highly informative profiling approach for intact specimens, with high quality data and feasibility.
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17
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Judge MT, Wu Y, Tayyari F, Hattori A, Glushka J, Ito T, Arnold J, Edison AS. Continuous in vivo Metabolism by NMR. Front Mol Biosci 2019; 6:26. [PMID: 31114791 PMCID: PMC6502900 DOI: 10.3389/fmolb.2019.00026] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2019] [Accepted: 04/04/2019] [Indexed: 01/10/2023] Open
Abstract
Dense time-series metabolomics data are essential for unraveling the underlying dynamic properties of metabolism. Here we extend high-resolution-magic angle spinning (HR-MAS) to enable continuous in vivo monitoring of metabolism by NMR (CIVM-NMR) and provide analysis tools for these data. First, we reproduced a result in human chronic lymphoid leukemia cells by using isotope-edited CIVM-NMR to rapidly and unambiguously demonstrate unidirectional flux in branched-chain amino acid metabolism. We then collected untargeted CIVM-NMR datasets for Neurospora crassa, a classic multicellular model organism, and uncovered dynamics between central carbon metabolism, amino acid metabolism, energy storage molecules, and lipid and cell wall precursors. Virtually no sample preparation was required to yield a dynamic metabolic fingerprint over hours to days at ~4-min temporal resolution with little noise. CIVM-NMR is simple and readily adapted to different types of cells and microorganisms, offering an experimental complement to kinetic models of metabolism for diverse biological systems.
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Affiliation(s)
- Michael T. Judge
- Department of Genetics, University of Georgia, Athens, GA, United States
| | - Yue Wu
- Institute of Bioinformatics, University of Georgia, Athens, GA, United States
| | - Fariba Tayyari
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, United States
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA, United States
| | - Ayuna Hattori
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, United States
- Division of Hematological Malignancy, National Cancer Center Research Institute, Tokyo, Japan
| | - John Glushka
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, United States
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA, United States
| | - Takahiro Ito
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, United States
| | - Jonathan Arnold
- Department of Genetics, University of Georgia, Athens, GA, United States
- Institute of Bioinformatics, University of Georgia, Athens, GA, United States
| | - Arthur S. Edison
- Department of Genetics, University of Georgia, Athens, GA, United States
- Institute of Bioinformatics, University of Georgia, Athens, GA, United States
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, United States
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA, United States
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18
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Hassan Q, Dutta Majumdar R, Wu B, Lane D, Tabatabaei-Anraki M, Soong R, Simpson MJ, Simpson AJ. Improvements in lipid suppression for 1 H NMR-based metabolomics: Applications to solution-state and HR-MAS NMR in natural and in vivo samples. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2018; 57:69-81. [PMID: 30520113 DOI: 10.1002/mrc.4814] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2018] [Revised: 11/28/2018] [Accepted: 11/29/2018] [Indexed: 06/09/2023]
Abstract
Proton nuclear magnetic resonance (NMR) spectra of intact biological samples often show strong contributions from lipids, which overlap with signals of interest from small metabolites. Pioneering work by Diserens et al. demonstrated that the relative differences in diffusivity and relaxation of lipids versus small metabolites could be exploited to suppress lipid signals, in high-resolution magic angle spinning (HR-MAS) NMR spectroscopy. In solution-state NMR, suspended samples can exhibit very broad water signals, which are challenging to suppress. Here, improved water suppression is incorporated into the sequence, and the Carr-Purcell-Meiboom-Gill sequence (CPMG) train is replaced with a low-power adiabatic spinlock that reduces heating and spectral artefacts seen with longer CPMG filters. The result is a robust sequence that works well in both HR-MAS as well as static solution-state samples. Applications are also extended to include in vivo organisms. For solution-state NMR, samples containing significant amount of fats such as milk and hemp hearts seeds are used to demonstrate the technique. For HR-MAS, living earthworms (Eisenia fetida) and freshwater shrimp (Hyalella azteca) are used for in vivo applications. Lipid suppression techniques are essential for non-invasive NMR-based analysis of biological samples with a high-lipid content and adds to the suite of experiments advantageous for in vivo environmental metabolomics.
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Affiliation(s)
- Qusai Hassan
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | | | - Bing Wu
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Daniel Lane
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Maryam Tabatabaei-Anraki
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Ronald Soong
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Myrna J Simpson
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
| | - Andre J Simpson
- Environmental NMR Centre, Department of Physical and Environmental Sciences, University of Toronto, Toronto, Ontario, Canada
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Tabatabaei Anaraki M, Dutta Majumdar R, Wagner N, Soong R, Kovacevic V, Reiner EJ, Bhavsar SP, Ortiz Almirall X, Lane D, Simpson MJ, Heumann H, Schmidt S, Simpson AJ. Development and Application of a Low-Volume Flow System for Solution-State in Vivo NMR. Anal Chem 2018; 90:7912-7921. [DOI: 10.1021/acs.analchem.8b00370] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Maryam Tabatabaei Anaraki
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Rudraksha Dutta Majumdar
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Nicole Wagner
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Ronald Soong
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Vera Kovacevic
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Eric J. Reiner
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
- Ministry of Environment and Climate Change, Toronto, Ontario M9P 3V6, Canada
| | | | | | - Daniel Lane
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
| | - Myrna J. Simpson
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada M5S 3H6
| | | | | | - André J. Simpson
- Department of Physical and Environment Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, Ontario, Canada M1C 1A4
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada M5S 3H6
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Bastawrous M, Jenne A, Tabatabaei Anaraki M, Simpson AJ. In-Vivo NMR Spectroscopy: A Powerful and Complimentary Tool for Understanding Environmental Toxicity. Metabolites 2018; 8:E35. [PMID: 29795000 PMCID: PMC6027203 DOI: 10.3390/metabo8020035] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2018] [Revised: 05/19/2018] [Accepted: 05/21/2018] [Indexed: 12/17/2022] Open
Abstract
Part review, part perspective, this article examines the applications and potential of in-vivo Nuclear Magnetic Resonance (NMR) for understanding environmental toxicity. In-vivo NMR can be applied in high field NMR spectrometers using either magic angle spinning based approaches, or flow systems. Solution-state NMR in combination with a flow system provides a low stress approach to monitor dissolved metabolites, while magic angle spinning NMR allows the detection of all components (solutions, gels and solids), albeit with additional stress caused by the rapid sample spinning. With in-vivo NMR it is possible to use the same organisms for control and exposure studies (controls are the same organisms prior to exposure inside the NMR). As such individual variability can be reduced while continual data collection over time provides the temporal resolution required to discern complex interconnected response pathways. When multidimensional NMR is combined with isotopic labelling, a wide range of metabolites can be identified in-vivo providing a unique window into the living metabolome that is highly complementary to more traditional metabolomics studies employing extracts, tissues, or biofluids.
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Affiliation(s)
- Monica Bastawrous
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.
| | - Amy Jenne
- Department of Chemistry, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.
| | - Maryam Tabatabaei Anaraki
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.
| | - André J Simpson
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.
- Department of Chemistry, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.
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21
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Simpson AJ, Simpson MJ, Soong R. Environmental Nuclear Magnetic Resonance Spectroscopy: An Overview and a Primer. Anal Chem 2017; 90:628-639. [PMID: 29131590 DOI: 10.1021/acs.analchem.7b03241] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
NMR spectroscopy is a versatile tool for the study of structure and interactions in environmental media such as air, soil, and water as well as monitoring the metabolic responses of living organisms to an ever changing environment. Part review, part perspective, and part tutorial, this Feature is aimed at nonspecialists who are interested in learning more about the potential and impact of NMR spectroscopy in environmental research.
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Affiliation(s)
- André J Simpson
- Environmental NMR Centre and Department of Physical & Environmental Sciences, University of Toronto Scarborough , Toronto, Ontario, Canada , M1C 1A4
| | - Myrna J Simpson
- Environmental NMR Centre and Department of Physical & Environmental Sciences, University of Toronto Scarborough , Toronto, Ontario, Canada , M1C 1A4
| | - Ronald Soong
- Environmental NMR Centre and Department of Physical & Environmental Sciences, University of Toronto Scarborough , Toronto, Ontario, Canada , M1C 1A4
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