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Anaraki MT, Lysak DH, Soong R, Simpson MJ, Spraul M, Bermel W, Heumann H, Gundy M, Boenisch H, Simpson AJ. NMR assignment of the in vivo daphnia magna metabolome. Analyst 2020; 145:5787-5800. [DOI: 10.1039/d0an01280g] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Daphnia (freshwater fleas) are among the most widely used organisms in regulatory aquatic toxicology/ecology, while their recent listing as an NIH model organism is stimulating research for understanding human diseases and processes.
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Affiliation(s)
| | | | - Ronald Soong
- Department of Physical and Environmental Sciences
- University of Toronto Scarborough
- Toronto
- Canada
| | - Myrna J. Simpson
- Department of Physical and Environmental Sciences
- University of Toronto Scarborough
- Toronto
- Canada
- Department of Chemistry
| | | | | | | | | | | | - André J. Simpson
- Department of Physical and Environmental Sciences
- University of Toronto Scarborough
- Toronto
- Canada
- Department of Chemistry
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Anaraki MT, Lane D, Bastawrous M, Jenne A, Simpson AJ. Metabolic Profiling Using In Vivo High Field Flow NMR. Methods Mol Biol 2019; 2037:395-409. [PMID: 31463857 DOI: 10.1007/978-1-4939-9690-2_22] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
In vivo NMR (nuclear magnetic resonance) has the potential to monitor and record metabolic flux in close to real time, which is essential for better understanding the toxic mode of action of a contaminant and deciphering complex interconnected stress-induced pathways impacted inside an organism. Here, we describe how to construct and use a simple flow system to keep small aquatic organisms alive inside the NMR spectrometer. In living organisms, magnetic susceptibility distortions lead to severe broadening in conventional NMR. Two main approaches can be employed to overcome this issue: (1) use a pulse sequence to reduce the distortions, or (2) employ multidimensional NMR in combination with isotopic enrichment to provide the spectral dispersion required to separate peaks from overlapping resonances. Both approaches are discussed, and protocols for both approaches are provided here in the context of small aquatic organisms.
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Affiliation(s)
- Maryam Tabatabaei Anaraki
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON, Canada
| | - Daniel Lane
- Department of Chemistry, University of Toronto Scarborough, Toronto, ON, Canada
| | - Monica Bastawrous
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON, Canada
| | - Amy Jenne
- Department of Chemistry, University of Toronto Scarborough, Toronto, ON, Canada
| | - André J Simpson
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON, Canada.
- Department of Chemistry, University of Toronto Scarborough, Toronto, ON, 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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Simpson AJ, Liaghati Y, Fortier-McGill B, Soong R, Akhter M. Perspective: in vivo NMR--a potentially powerful tool for environmental research. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2015; 53:686-690. [PMID: 25228307 DOI: 10.1002/mrc.4142] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2014] [Accepted: 08/11/2014] [Indexed: 06/03/2023]
Affiliation(s)
- André J Simpson
- Environmental NMR Center, Department of Physical & Environmental Sciences, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
| | - Yalda Liaghati
- Environmental NMR Center, Department of Physical & Environmental Sciences, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
| | - Blythe Fortier-McGill
- Environmental NMR Center, Department of Physical & Environmental Sciences, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
| | - Ronald Soong
- Environmental NMR Center, Department of Physical & Environmental Sciences, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
| | - Mohammad Akhter
- Environmental NMR Center, Department of Physical & Environmental Sciences, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario, Canada
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Abstract
Hemoglobin (Hb) occurs in all the kingdoms of living organisms. Its distribution is episodic among the nonvertebrate groups in contrast to vertebrates. Nonvertebrate Hbs range from single-chain globins found in bacteria, algae, protozoa, and plants to large, multisubunit, multidomain Hbs found in nematodes, molluscs and crustaceans, and the giant annelid and vestimentiferan Hbs comprised of globin and nonglobin subunits. Chimeric hemoglobins have been found recently in bacteria and fungi. Hb occurs intracellularly in specific tissues and in circulating red blood cells (RBCs) and freely dissolved in various body fluids. In addition to transporting and storing O(2) and facilitating its diffusion, several novel Hb functions have emerged, including control of nitric oxide (NO) levels in microorganisms, use of NO to control the level of O(2) in nematodes, binding and transport of sulfide in endosymbiont-harboring species and protection against sulfide, scavenging of O(2 )in symbiotic leguminous plants, O(2 )sensing in bacteria and archaebacteria, and dehaloperoxidase activity useful in detoxification of chlorinated materials. This review focuses on the extensive variation in the functional properties of nonvertebrate Hbs, their O(2 )binding affinities, their homotropic interactions (cooperativity), and the sensitivities of these parameters to temperature and heterotropic effectors such as protons and cations. Whenever possible, it attempts to relate the ligand binding properties to the known molecular structures. The divergent and convergent evolutionary trends evident in the structures and functions of nonvertebrate Hbs appear to be adaptive in extending the inhabitable environment available to Hb-containing organisms.
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Affiliation(s)
- R E Weber
- Danish Centre for Respiratory Adaptation, Department of Zoophysiology, Institute of Biology, University of Aarhus, Aarhus, Denmark.
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