1
|
Lysak DH, Bermel W, Moxley-Paquette V, Michal C, Ghosh-Biswas R, Soong R, Nashman B, Lacerda A, Simpson AJ. Cutting without a Knife: A Slice-Selective 2D 1H- 13C HSQC NMR Sequence for the Analysis of Inhomogeneous Samples. Anal Chem 2023; 95:14392-14401. [PMID: 37713676 DOI: 10.1021/acs.analchem.3c02756] [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: 09/17/2023]
Abstract
Nuclear magnetic resonance (NMR) is a powerful technique with applications ranging from small molecule structure elucidation to metabolomics studies of living organisms. Typically, solution-state NMR requires a homogeneous liquid, and the whole sample is analyzed as a single entity. While adequate for homogeneous samples, such an approach is limited if the composition varies as would be the case in samples that are naturally heterogeneous or layered. In complex samples such as living organisms, magnetic susceptibility distortions lead to broad 1H line shapes, and thus, the additional spectral dispersion afforded by 2D heteronuclear experiments is often required for metabolite discrimination. Here, a novel, slice-selective 2D, 1H-13C heteronuclear single quantum coherence (HSQC) sequence was developed that exclusively employs shaped pulses such that only spins in the desired volume are perturbed. In turn, this permits multiple volumes in the tube to be studied during a single relaxation delay, increasing sensitivity and throughput. The approach is first demonstrated on standards and then used to isolate specific sample/sensor elements from a microcoil array and finally study slices within a living earthworm, allowing metabolite changes to be discerned with feeding. Overall, slice-selective NMR is demonstrated to have significant potential for the study of layered and other inhomogeneous samples of varying complexity. In particular, its ability to select subelements is an important step toward developing microcoil receive-only arrays to study environmental toxicity in tiny eggs, cells, and neonates, whereas localization in larger living species could help better correlate toxin-induced biochemical responses to the physical localities or organs involved.
Collapse
Affiliation(s)
- Daniel H Lysak
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Wolfgang Bermel
- Bruker BioSpin GmbH, Rudolf-Plank-Str. 23, 76275 Ettlingen, Germany
| | - Vincent Moxley-Paquette
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Carl Michal
- Department of Physics and Astronomy, University of British Columbia, 6224 Agricultural Road, Vancouver, BC V6T 1Z1, Canada
| | - Rajshree Ghosh-Biswas
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Ronald Soong
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| | - Ben Nashman
- Synex Medical, 2 Bloor Street E, Suite 310, Toronto, ON M4W 1A8,Canada
| | - Andressa Lacerda
- Synex Medical, 2 Bloor Street E, Suite 310, Toronto, ON M4W 1A8,Canada
| | - Andre J Simpson
- Environmental NMR Center, Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1265 Military Trail, Toronto, ON M1C 1A4, Canada
| |
Collapse
|
2
|
Waschina S, Seeger K. Using in-tube extraction and slice selective NMR experiments allow imaging via statistical analysis of metabolic profiles. Anal Chim Acta 2022; 1231:340419. [DOI: 10.1016/j.aca.2022.340419] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Revised: 08/19/2022] [Accepted: 09/17/2022] [Indexed: 11/25/2022]
|
3
|
Innovative Application of Metabolomics on Bioactive Ingredients of Foods. Foods 2022; 11:foods11192974. [PMID: 36230049 PMCID: PMC9562173 DOI: 10.3390/foods11192974] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Revised: 09/12/2022] [Accepted: 09/20/2022] [Indexed: 11/17/2022] Open
Abstract
Metabolomics, as a new omics technology, has been widely accepted by researchers and has shown great potential in the field of nutrition and health in recent years. This review briefly introduces the process of metabolomics analysis, including sample preparation and extraction, derivatization, separation and detection, and data processing. This paper focuses on the application of metabolomics in food-derived bioactive ingredients. For example, metabolomics techniques are used to analyze metabolites in food to find bioactive substances or new metabolites in food materials. Moreover, bioactive substances have been tested in vitro and in vivo, as well as in humans, to investigate the changes of metabolites and the underlying metabolic pathways, among which metabolomics is used to find potential biomarkers and targets. Metabolomics provides a new approach for the prevention and regulation of chronic diseases and the study of the underlying mechanisms. It also provides strong support for the development of functional food or drugs. Although metabolomics has some limitations such as low sensitivity, poor repeatability, and limited detection range, it is developing rapidly in general, and also in the field of nutrition and health. At the end of this paper, we put forward our own insights on the development prospects of metabolomics in the application of bioactive ingredients in food.
Collapse
|
4
|
Catlin KD, Simmons J, Bai S. A one-shot double-slice selection NMR method for biphasic systems. Phys Chem Chem Phys 2022; 24:17961-17965. [PMID: 35880775 PMCID: PMC9549394 DOI: 10.1039/d2cp02497g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
We propose a new and robust one-shot double-slice selection experiment to detect 1H NMR signals of biphasic systems simultaneously. The resultant spectrum contains opposite-phased peaks representing the chemical species from the two phases, respectively.
Collapse
Affiliation(s)
| | - Julia Simmons
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.
| | - Shi Bai
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.
| |
Collapse
|
5
|
Bertho G, Lordello L, Chen X, Lucas-Torres C, Oumezziane IE, Caradeuc C, Baudin M, Nuan-Aliman S, Thieblemont C, Baud V, Giraud N. Ultrahigh-Resolution NMR with Water Signal Suppression for a Deeper Understanding of the Action of Antimetabolic Drugs on Diffuse Large B-Cell Lymphoma. J Proteome Res 2022; 21:1041-1051. [PMID: 35119866 DOI: 10.1021/acs.jproteome.1c00914] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Ultrahigh-resolution NMR has recently attracted considerable attention in the field of complex samples analysis. Indeed, the implementation of broadband homonuclear decoupling techniques has allowed us to greatly simplify crowded 1H spectra, yielding singlets for almost every proton site from the analyzed molecules. Pure shift methods have notably shown to be particularly suitable for deciphering mixtures of metabolites in biological samples. Here, we have successfully implemented a new pure shift pulse sequence based on the PSYCHE method, which incorporates a block for solvent suppression that is suitable for metabolomics analysis. The resulting experiment allows us to record ultrahigh-resolution 1D NOESY 1H spectra of biofluids with suppression of the water signal, which is a crucial step for highlighting metabolite mixtures in an aqueous phase. We have successfully recorded pure shift spectra on extracellular media of diffuse large B-cell lymphoma (DLBCL) cells. Despite a lower sensitivity, the resolution of pure shift data was found to be better than that of the standard approach, which provides a more detailed vision of the exo-metabolome. The statistical analyses carried out on the resulting metabolic profiles allow us to successfully highlight several metabolic pathways affected by these drugs. Notably, we show that Kidrolase plays a major role in the metabolic pathways of this DLBCL cell line.
Collapse
Affiliation(s)
- Gildas Bertho
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France
| | - Leonardo Lordello
- NF-κB, Différenciation et Cancer, Université de Paris, F-75006 Paris, France
| | - Xi Chen
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France
| | - Covadonga Lucas-Torres
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France
| | - Imed Eddine Oumezziane
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France
| | - Cédric Caradeuc
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France
| | - Mathieu Baudin
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France.,Laboratoire des Biomolécules, LBM, Département de chimie, École normale supérieure, PSL University, Sorbonne Université, CNRS, 75005 Paris, France
| | | | - Catherine Thieblemont
- NF-κB, Différenciation et Cancer, Université de Paris, F-75006 Paris, France.,AP-HP, Hôpital Saint-Louis, Service Hémato-Oncologie, F-75010 Paris, France
| | - Véronique Baud
- NF-κB, Différenciation et Cancer, Université de Paris, F-75006 Paris, France
| | - Nicolas Giraud
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS, F-75006 Paris, France
| |
Collapse
|
6
|
Baishya B, Verma A, Parihar R. Accelerated 13C detection by concentrating the NMR sample in a biphasic solvent system. Analyst 2021; 146:6582-6591. [PMID: 34586127 DOI: 10.1039/d1an00470k] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
CDCl3 is the most frequently used solvent for the NMR investigation of organic compounds. Busy chemistry labs need to investigate hundreds of compounds daily. While 1H NMR investigation takes a couple of minutes, recording 13C NMR spectra necessitates hours of signal averaging due to the low abundance and low sensitivity of 13C nuclei. The longer acquisition time for 13C NMR results in a loss of precious spectrometer time in a shared multi-user environment. A regular 5 mm o.d. NMR tube is the most commonly used tube for NMR in organic chemistry labs and is also the cheapest option. We show that for analytes soluble in the CDCl3 solvent using a regular 5 mm o.d. NMR tube, the speed of 13C observation can be enhanced by a factor of two by resorting to a sample preparation method that employs a biphasic system made of H2O or D2O at the top of another layer of CDCl3. By using the biphasic system of two immiscible solvents, the analyte can be concentrated in the CDCl3 layer (within the more sensitive volume of the NMR coil), resulting in the improvement of the signal to noise ratio (SNR) by a factor of up to 1.8 for 13C and 2D 1H-13C HSQC spectra, which results in more than two-fold reduction in the experimental time. 1H NMR and other 2D NMR also get a sensitivity boost. The amount of CDCl3 required for sample preparation can also be reduced by 40% using this biphasic system (CDCl3/H2O). Sample preparation in such an immiscible biphasic system is effortless and straightforward. The performance of such biphasic samples is closer to that of Shigemi tubes and better than that of 3 mm o.d. tubes.
Collapse
Affiliation(s)
- Bikash Baishya
- Centre of Biomedical Research (Formerly Centre of Biomedical Magnetic Resonance), SGPGIMS Campus, Raebareli Road, Lucknow, 226014, India.
| | - Ajay Verma
- Govt. Degree College, Tyuni, 248199, Dehradun, Uttarakhand, India
| | - Rashmi Parihar
- Centre of Biomedical Research (Formerly Centre of Biomedical Magnetic Resonance), SGPGIMS Campus, Raebareli Road, Lucknow, 226014, India. .,Department of Bioinformatics, Dr A. P. J. Abdul Kalam Technical University, Lucknow-226021, U.P., India
| |
Collapse
|