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1. Benefits of microsampling and microextraction for metabolomics studies

Author:
Hemmati, Maryam; Nix, Cindy; Crommen, Jacques; Servais, Anne-Catherine; Fillet, Marianne
Source:
Trends in analytical chemistry 2020 v.127 pp. 115899
ISSN:
0165-9936
Subject:
metabolomics,   etc   ; biomarkers; detection limit; hydrophilicity; metabolites; microextraction;     Show all 6 Subjects
Abstract:
... The present review deals with the recent developments in metabolome analysis to improve the diagnosis of diseases and the identification of biomarkers. A particular focus has been put on the application of the non-invasive and up-to-date microsampling and microextraction procedures for the targeted/untargeted metabolome analysis from low volume of samples. These approaches aim to enhance sensitivi ...
DOI:
10.1016/j.trac.2020.115899

2. Systematic mapping of protein–metabolite interactions with mass spectrometry-based techniques

Author:
Li, Shanshan; Shui, Wenqing
Source:
Current opinion in biotechnology 2020 v.64 pp. 24-31
ISSN:
0958-1669
Subject:
metabolomics,   etc   ; catalytic activity; eukaryotic cells; mass spectrometry; metabolites; proteins; proteomics;     Show all 7 Subjects
Abstract:
... The recent rapid advance of systematic mapping of protein–metabolite interactions (PMIs) in both prokaryotic and eukaryotic cells has been catalyzed by development of innovative and effective proteomics or metabolomics strategies all based on large-scale mass spectrometry (MS) analysis of biomolecules. Both metabolite-centric and protein-centric approaches have been established to profile PMIs in ...
DOI:
10.1016/j.copbio.2019.09.002

3. The style and substance of plant flavonoid decoration; towards defining both structure and function

Author:
Alseekh, Saleh; Perez de Souza, Leonardo; Benina, Maria; Fernie, Alisdair R.
Source:
Phytochemistry 2020 v.174 pp. 112347
ISSN:
0031-9422
Subject:
metabolomics,   etc   ; acylation; databases; flavonoids; glycosylation; hydroxylation; metabolites; methylation; surveys;     Show all 9 Subjects
Abstract:
... Over 8000 different flavonoids have been described and a considerable number of new flavonoid structures are being elucidated every year. The advent of metabolomics alongside the development of phytochemical genetics – wherein the genetic basis underlying the regulation of the levels of plant metabolites is determined – has provided a massive boost to such efforts. That said our understanding of t ...
DOI:
10.1016/j.phytochem.2020.112347

4. An Omnivore’s Dilemma: Toxoplasma gondii’s Flexible Metabolic Networks

Author:
Kim, Kami
Source:
Trends in parasitology 2020 v.36 no.5 pp. 408-410
ISSN:
1471-4922
Subject:
metabolomics,   etc   ; Toxoplasma gondii; biochemical pathways; models; nutrients; omnivores; pathogens; transcriptomics;     Show all 8 Subjects
Abstract:
... Host cells provide protection from the environment for intracellular pathogens, but acquisition of nutrients and sensing of changes in the host cell bring new challenges. Krishnan et al. have recently developed a comprehensive genome-scale metabolic model (GEM) of the Toxoplasma gondii metabolic network that incorporates genetic, transcriptomic, and metabolomic data. ...
DOI:
10.1016/j.pt.2020.02.002

5. A surface-enhanced Raman spectroscopy database of 63 metabolites

Author:
Sherman, Lindy M.; Petrov, Alexander P.; Karger, Leonhard F.P.; Tetrick, Maxwell G.; Dovichi, Norman J.; Camden, Jon P.
Source:
Talanta 2020 v.210 pp. 120645
ISSN:
0039-9140
Subject:
metabolomics,   etc   ; Raman spectroscopy; databases; mass spectrometry; metabolites; nanosilver;     Show all 6 Subjects
Abstract:
... Metabolomics, the study of metabolic profiles in a biological sample, has seen rapid growth due to advances in measurement technologies such as mass spectrometry (MS). While MS metabolite reference libraries have been generated for metabolomics applications, mass spectra alone are unable to unambiguously identify many metabolites in a sample; these unidentified compounds are typically annotated as ...
DOI:
10.1016/j.talanta.2019.120645
PubMed:
31987216
PubMed Central:
PMC6989628

6. Capillary gas chromatography-mass spectrometry: Current trends and perspectives

Author:
Gruber, Beate; David, Frank; Sandra, Pat
Source:
Trends in analytical chemistry 2020 v.124 pp. 115475
ISSN:
0165-9936
Subject:
metabolomics,   etc   ; biochemistry; gas chromatography-mass spectrometry; ionization; pharmacology;     Show all 5 Subjects
Abstract:
... Since the advent of gas chromatography - mass spectrometry (GC-MS), the evolution in high-performance GC-MS has boosted the quality and quantity of information. Continuing technical advances and topics of current focus are pushing GC-MS in areas such as metabolomics, biochemistry, medical analysis, and pharmacology, traditionally dominated by other separation techniques. Still, selection and optim ...
DOI:
10.1016/j.trac.2019.04.007

7. Real-Time Volatilomics: A Novel Approach for Analyzing Biological Samples

Author:
Majchrzak, Tomasz; Wojnowski, Wojciech; Rutkowska, Małgorzata; Wasik, Andrzej
Source:
Trends in plant science 2020 v.25 no.3 pp. 302-312
ISSN:
1360-1385
Subject:
metabolomics,   etc   ; ecosystems; genomics; mass spectrometry; plant analysis; proteomics; transcriptomics;     Show all 7 Subjects
Abstract:
... The use of the ‘omics techniques in environmental research has become common-place. The most widely implemented of these include metabolomics, proteomics, genomics, and transcriptomics. In recent years, a similar approach has also been taken with the analysis of volatiles from biological samples, giving rise to the so-called ‘volatilomics’ in plant analysis. Developments in direct infusion mass sp ...
DOI:
10.1016/j.tplants.2019.12.005

8. Bacillus spore awakening: recent discoveries and technological developments

Author:
Xing, Yun; Harper, Willie F
Source:
Current opinion in biotechnology 2020 v.64 pp. 110-115
ISSN:
0958-1669
Subject:
metabolomics,   etc   ; Bacillus (bacteria); bacterial spores; engineering; mining; protein synthesis; spore germination;     Show all 7 Subjects
Abstract:
... Elucidating the mechanistic basis of spore germination and outgrowth remains a difficult challenge with crucial implications in the numerous scientific and engineering disciplines. Omics studies have revealed numerous new biochemical insights and single-spore studies link molecular insights directly with spore heterogeneity behaviors. This field is expected to advance at greater speed with the app ...
DOI:
10.1016/j.copbio.2019.12.024

9. Dynamics in redox metabolism, from stoichiometry towards kinetics

Author:
Verhagen, Koen JA; van Gulik, Walter M; Wahl, Sebastian Aljoscha
Source:
Current opinion in biotechnology 2020 v.64 pp. 116-123
ISSN:
0958-1669
Subject:
metabolomics,   etc   ; biochemical pathways; excretion; fluorescence; mass spectrometry; metabolism; metabolites; microorganisms; stoichiometry;     Show all 9 Subjects
Abstract:
... Redox metabolism plays an essential role in the central metabolic network of all living cells, connecting, but at the same time separating, catabolic and anabolic pathways. Redox metabolism is inherently linked to the excretion of overflow metabolites. Overflow metabolism allows for higher substrate uptake rates, potentially outcompeting other microorganisms for the same substrate. Within dynamica ...
DOI:
10.1016/j.copbio.2020.01.002

10. Higher dimensional metabolomics using stable isotope labeling for identifying the missing specialized metabolism in plants

Author:
Nakabayashi, Ryo; Saito, Kazuki
Source:
Current opinion in plant biology 2020 v.55 pp. 84-92
ISSN:
1369-5266
Subject:
metabolomics,   etc   ; biosynthesis; genes; isomers; isotope labeling; mass spectrometry; metabolites; stable isotopes;     Show all 8 Subjects
Abstract:
... The exact mechanics of specialized metabolism and its importance throughout plant evolution remain mysterious. Specialized metabolites and their corresponding biosynthetic genes are crucial to understand the reason for the prevalence of certain metabolism. Even though mass spectrometry-based metabolomics has enabled us to acquire data about the structural properties of unknown specialized metaboli ...
DOI:
10.1016/j.pbi.2020.02.009

11. Systems metabolomics: from metabolomic snapshots to design principles

Author:
Damiani, Chiara; Gaglio, Daniela; Sacco, Elena; Alberghina, Lilia; Vanoni, Marco
Source:
Current opinion in biotechnology 2020 v.63 pp. 190-199
ISSN:
0958-1669
Subject:
metabolomics,   etc   ; artificial intelligence; metabolic diseases; metabolism; models; neoplasms; neurodegenerative diseases; nutrition;     Show all 8 Subjects
Abstract:
... Metabolomics is a rapidly expanding technology that finds increasing application in a variety of fields, form metabolic disorders to cancer, from nutrition and wellness to design and optimization of cell factories. The integration of metabolic snapshots with metabolic fluxes, physiological readouts, metabolic models, and knowledge-informed Artificial Intelligence tools, is required to obtain a sys ...
DOI:
10.1016/j.copbio.2020.02.013

12. A UHPLC-HRMS based metabolomics and chemoinformatics approach to chemically distinguish ‘super foods’ from a variety of plant-based foods

Author:
Di Ottavio, Francesca; Gauglitz, Julia M.; Ernst, Madeleine; Panitchpakdi, Morgan W.; Fanti, Federico; Compagnone, Dario; Dorrestein, Pieter C.; Sergi, Manuel
Source:
Food chemistry 2020 v.313 pp. 126071
ISSN:
0308-8146
Subject:
metabolomics,   etc   ; antioxidants; chemoinformatics; computer simulation; data collection; isoflavonoids; isoquinolines; lipids; plant-based foods;     Show all 9 Subjects
Abstract:
... The aim of this study was to investigate if the declared benefits associated with superfoods are related to a specific molecular composition. For this purpose, untargeted metabolomics and molecular networking were used to obtain an overview of all features, focusing on compounds with anti-inflammatory, antioxidant or antimicrobial properties.565 plant-based food samples were analyzed using UHPLC-H ...
DOI:
10.1016/j.foodchem.2019.126071

13. Introduction of a new method for two-dimensional NMR quantitative analysis in metabolomics studies

Author:
Jiang, Lin; Howlett, Kevin; Patterson, Kristen; Wang, Bo
Source:
Analytical biochemistry 2020 v.597 pp. 113692
ISSN:
0003-2697
Subject:
metabolomics,   etc   ; Begonia; case studies; metabolites; nuclear magnetic resonance spectroscopy; plant extracts; quantitative analysis; statistical analysis;     Show all 8 Subjects
Abstract:
... NMR is one of the most important platforms for metabolomic studies. Though 2D NMR has been applied in metabolomics, most applications have mainly focused on metabolite identification whilst limitations causing a bottle-neck for applying high-throughput 2D NMR data for quantity related statistical analysis lies on the data interpretation methods. In this study, instead of using the traditional meth ...
DOI:
10.1016/j.ab.2020.113692

14. MS2 and LC libraries for untargeted metabolomics: Enhancing method development and identification confidence

Author:
Folberth, Julica; Begemann, Kimberly; Jöhren, Olaf; Schwaninger, Markus; Othman, Alaa
Source:
Journal of chromatography 2020 v.1145 pp. 122105
ISSN:
1570-0232
Subject:
metabolomics,   etc   ; blood serum; humans; liquid chromatography; metabolites; metabolome; tandem mass spectrometry;     Show all 7 Subjects
Abstract:
... As part of the “omics” technologies in the life sciences, metabolomics is becoming increasingly important. In untargeted metabolomics, unambiguous metabolite identification and the inevitable coverage bias that comes with the selection of analytical conditions present major challenges. Reliable compound annotation is essential for translating metabolomics data into meaningful biological informatio ...
DOI:
10.1016/j.jchromb.2020.122105

15. Investigation on the influence of isolated environment on human psychological and physiological health

Author:
Meng, Chen; Wang, Wei; Hao, Zikai; Liu, Hong
Source:
The Science of the total environment 2020 v.716 pp. 136972
ISSN:
0048-9697
Subject:
metabolomics,   etc   ; Prevotella; anxiety; cortisol; feces; hormone secretion; intestinal microorganisms; melatonin; metabolism; metabolites; solar radiation; tryptophan; urine;     Show all 13 Subjects
Abstract:
... Crewmembers are working and living in isolated environment lacking natural light and perception. Although their health problems have been documented, the mechanism has not been thoroughly investigated. The aim of the present study is to investigate the psychological and physiological influences of isolated environment on crewmember's health. On account of complexity of the isolated environment, it ...
DOI:
10.1016/j.scitotenv.2020.136972

16. An analytical retrospection of mass spectrometric tools established for plant tissue culture: Current endeavours and future perspectives

Author:
Chun, Se Chul; Gopal, Judy; Iyyakannu, Sivanesan; Muthu, Manikandan
Source:
Trends in analytical chemistry 2020 v.126 pp. 115843
ISSN:
0165-9936
Subject:
metabolomics,   etc   ; image analysis; mass spectrometry; micropropagation; plant tissues; plantlets; proteomics; tissue culture;     Show all 8 Subjects
Abstract:
... Plant tissue culture is a highly versatile technique which leads to micropropagation of thousands of plantlets from a small portion of the mother plant in vitro. This review for the first time has addressed and presented all the accomplishments made till date through the use of mass spectrometry for plant tissue culture analysis. The achievements enabled through the fusion of these distinctly diff ...
DOI:
10.1016/j.trac.2020.115843

17. Ocotea complex: A metabolomic analysis of a Lauraceae genus

Author:
Antonio, Ananda S.; Veiga-Junior, Valdir F.; Wiedemann, Larissa Silveira Moreira
Source:
Phytochemistry 2020 v.173 pp. 112314
ISSN:
0031-9422
Subject:
metabolomics,   etc   ; DNA; Ocotea; alkaloids; biomarkers; branches; flavonoids; leaves; models; multivariate analysis; species identification;     Show all 11 Subjects
Abstract:
... The genus Ocotea is one of the largest and most economically explored in the Lauraceae family. However, its current industrial use is limited by the difficult identification of Ocotea species. At present, the genus is botanically considered a complex since accurate classification is very difficult to achieve based on taxonomic characteristics. As chemophenetics can aid in Ocotea species identifica ...
DOI:
10.1016/j.phytochem.2020.112314

18. Metabolomics Analysis of Nutrient Metabolism in β-Cells

Author:
Spégel, Peter; Mulder, Hindrik
Source:
Journal of molecular biology 2020 v.432 no.5 pp. 1429-1445
ISSN:
0022-2836
Subject:
metabolomics,   etc   ; body fluids; insulin; islets of Langerhans; metabolism; metabolites; nutrient content; secretion; tissues;     Show all 9 Subjects
Abstract:
... The islets of Langerhans harbor multiple endocrine cell types that continuously respond to circulating nutrient levels in order to adjust their secretion of catabolic and anabolic hormones. Stimulus–secretion coupling in these cells is largely of metabolic nature; that is, metabolism of nutrient fuels yields signals that trigger and amplify secretion of hormones. Hence, metabolism in this micro-or ...
DOI:
10.1016/j.jmb.2019.07.020

19. The era of ‘omics’ technologies in the study of microbiologically influenced corrosion

Author:
Procópio, Luciano
Source:
Biotechnology letters 2020 v.42 no.3 pp. 341-356
ISSN:
0141-5492
Subject:
metabolomics,   etc   ; Archaea; Bacteroidetes; Firmicutes; Proteobacteria; alloys; bacteria; biofilm; corrosion; high-throughput nucleotide sequencing; metagenomics; methanogens;     Show all 12 Subjects
Abstract:
... Efforts to elucidate the relationships between microorganisms and metal corrosion were mainly directed to understanding the formation of biofilm structures grown on corroded surfaces. The emergence of high throughput DNA sequencing techniques has helped in the description of microbial species involved directly and indirectly in the corrosion processes of alloys. Coupled with sequencing from enviro ...
DOI:
10.1007/s10529-019-02789-w

20. User guides for biologists to learn computational methods

Author:
Na, Dokyun
Source:
The journal of microbiology 2020 v.58 no.3 pp. 173-175
ISSN:
1225-8873
Subject:
metabolomics,   etc   ; bioinformatics; computational methodology; drugs; genomics; humans; metabolic engineering; microorganisms; models; proteomics;     Show all 10 Subjects
Abstract:
... System-wide studies of a given molecular type are referred to as “omics.” These include genomics, proteomics, and metabolomics, among others. Recent biotechnological advances allow for high-throughput measurement of cellular components, and thus it becomes possible to take a snapshot of all molecules inside cells, a form of omics study. Advances in computational modeling methods also make it possi ...
DOI:
10.1007/s12275-020-9723-1