To metabolomics and beyond: a technological portfolio to investigate cancer metabolism

Signal Transduction and Targeted Therapy, Journal Year: 2023, Volume and Issue: 8(1)

Published: March 22, 2023

Abstract Tumour cells have exquisite flexibility in reprogramming their metabolism order to support tumour initiation, progression, metastasis and resistance therapies. These reprogrammed activities include a complete rewiring of the bioenergetic, biosynthetic redox status sustain increased energetic demand cells. Over last decades, cancer field has seen an explosion new biochemical technologies giving more tools than ever before navigate this complexity. Within cell or tissue, metabolites constitute direct signature molecular phenotype thus profiling concrete clinical applications oncology. Metabolomics fluxomics, are key technological approaches that mainly revolutionized enabling researchers both qualitative mechanistic model cancer. Furthermore, upgrade from bulk single-cell analysis provided unprecedented opportunity investigate biology at cellular resolution allowing depth quantitative complex heterogenous diseases. More recently, advent functional genomic screening allowed identification pathways, processes, biomarkers novel therapeutic targets concert with other allow patient stratification treatment regimens. This review is intended be guide for metabolism, highlighting current emerging technologies, emphasizing advantages, disadvantages potential leading development innovative anti-cancer

Language: Английский

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Volatile compounds in human breath: critical review and meta-analysis

Journal of Breath Research, Journal Year: 2022, Volume and Issue: 16(2), P. 024001 - 024001

Published: Feb. 4, 2022

Volatile compounds contained in human breath reflect the inner workings of body. A large number studies have been published that link individual components to disease, but diagnostic applications remain limited, part due inconsistent and conflicting identification biomarkers. New approaches are therefore required identify effective biomarker targets. Here, volatile organic identified literature from four metabolically physiologically distinct diseases grouped into chemical functional groups (e.g. methylated hydrocarbons or aldehydes; based on known metabolic enzymatic pathways) support discovery provide new insight existing data. Using this grouping approach, principal component analysis doubled explanatory capacity 19.1% 38% relative single compound approaches. Random forest linear discriminant reveal 93% classification accuracy for cancer. This review meta-analysis provides future research design by identifying associated with disease. By incorporating our understanding complexities body, along accounting variability methodological analytical approaches, work demonstrates a suite targeted, biomarkers, rather than compounds, will improve success application.

Language: Английский

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Automating the design-build-test-learn cycle towards next-generation bacterial cell factories

New Biotechnology, Journal Year: 2023, Volume and Issue: 74, P. 1 - 15

Published: Jan. 31, 2023

Automation is playing an increasingly significant role in synthetic biology. Groundbreaking technologies, developed over the past 20 years, have enormously accelerated construction of efficient microbial cell factories. Integrating state-of-the-art tools (e.g. for genome engineering and analytical techniques) into design-build-test-learn cycle (DBTLc) will shift metabolic paradigm from almost artisanal labor towards a fully automated workflow. Here, we provide perspective on how DBTLc could be harnessed to construct next-generation bacterial factories fast, high-throughput fashion. Innovative toolsets approaches that pushed boundaries each segment are reviewed this end. We also present most recent efforts automation DBTLc, which heralds autonomous pipeline biology near future.

Language: Английский

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High-Resolution Mass Spectrometry for Human Exposomics: Expanding Chemical Space Coverage

Environmental Science & Technology, Journal Year: 2024, Volume and Issue: 58(29), P. 12784 - 12822

Published: July 10, 2024

In the modern "omics" era, measurement of human exposome is a critical missing link between genetic drivers and disease outcomes. High-resolution mass spectrometry (HRMS), routinely used in proteomics metabolomics, has emerged as leading technology to broadly profile chemical exposure agents related biomolecules for accurate measurement, high sensitivity, rapid data acquisition, increased resolution space. Non-targeted approaches are increasingly accessible, supporting shift from conventional hypothesis-driven, quantitation-centric targeted analyses toward data-driven, hypothesis-generating exposome-wide profiling. However, HRMS-based exposomics encounters unique challenges. New analytical computational infrastructures needed expand analysis coverage through streamlined, scalable, harmonized workflows pipelines that permit longitudinal tracking, retrospective validation, multi-omics integration meaningful health-oriented inferences. this article, we survey literature on state-of-the-art technologies, review current informatic pipelines, provide an up-to-date reference exposomic chemists, toxicologists, epidemiologists, care providers, stakeholders health sciences medicine. We propose efforts benchmark fit-for-purpose platforms expanding space, including gas/liquid chromatography-HRMS (GC-HRMS LC-HRMS), discuss opportunities, challenges, strategies advance burgeoning field exposome.

Language: Английский

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Implementation of liquid chromatography–high resolution mass spectrometry methods for untargeted metabolomic analyses of biological samples: A tutorial

Analytica Chimica Acta, Journal Year: 2020, Volume and Issue: 1105, P. 28 - 44

Published: Jan. 2, 2020

Language: Английский

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Recent trends in application of chemometric methods for GC-MS and GC×GC-MS-based metabolomic studies

TrAC Trends in Analytical Chemistry, Journal Year: 2021, Volume and Issue: 138, P. 116239 - 116239

Published: Feb. 24, 2021

Language: Английский

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Advanced tandem mass spectrometry in metabolomics and lipidomics—methods and applications

Analytical and Bioanalytical Chemistry, Journal Year: 2021, Volume and Issue: 413(24), P. 5927 - 5948

Published: June 18, 2021

Abstract Metabolomics and lipidomics are new drivers of the omics era as molecular signatures selected analytes allow phenotypic characterization serve biomarkers, respectively. The growing capabilities untargeted targeted workflows, which primarily rely on mass spectrometric platforms, enable extensive charting or identification bioactive metabolites lipids. Structural annotation these compounds is key in order to link specific entities defined biochemical functions phenotypes. Tandem spectrometry (MS), first foremost collision-induced dissociation (CID), method choice unveil structural details But CID fragment ions often not sufficient fully characterize analytes. Therefore, recent years have seen a surge alternative tandem MS methodologies that aim offer full In this article, principles, capabilities, drawbacks, applications “advanced spectrometry” strategies will be critically reviewed. This includes methods based electrons, photons, ion/molecule, well ion/ion reactions, combining with concepts from optical spectroscopy making use derivatization strategies. final sections review, combination liquid chromatography imaging highlighted future perspectives for research metabolomics discussed. Graphical abstract

Language: Английский

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Plants Metabolome Study: Emerging Tools and Techniques

Plants, Journal Year: 2021, Volume and Issue: 10(11), P. 2409 - 2409

Published: Nov. 8, 2021

Metabolomics is now considered a wide-ranging, sensitive and practical approach to acquire useful information on the composition of metabolite pool present in any organism, including plants. Investigating metabolomic regulation plants essential understand their adaptation, acclimation defense responses environmental stresses through production numerous metabolites. Moreover, metabolomics can be easily applied for phenotyping plants; thus, it has great potential used genome editing programs develop superior next-generation crops. This review describes recent analytical tools techniques available study metabolome, along with significance sample preparation using targeted non-targeted methods. Advanced tools, like gas chromatography-mass spectrometry (GC-MS), liquid chromatography mass-spectroscopy (LC-MS), capillary electrophoresis-mass (CE-MS), fourier transform ion cyclotron resonance-mass (FTICR-MS) matrix-assisted laser desorption/ionization (MALDI), mobility (IMS) nuclear magnetic resonance (NMR) have speed up precise metabolic profiling Further, we provide complete overview bioinformatics plant metabolome database that utilized advance our knowledge biology.

Language: Английский

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Chromatography hyphenated to high resolution mass spectrometry in untargeted metabolomics for investigation of food (bio)markers

TrAC Trends in Analytical Chemistry, Journal Year: 2020, Volume and Issue: 135, P. 116161 - 116161

Published: Dec. 24, 2020

Language: Английский

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Metabolomic fingerprinting of volatile organic compounds for the geographical discrimination of rice samples from China, Vietnam and India

Food Chemistry, Journal Year: 2020, Volume and Issue: 334, P. 127553 - 127553

Published: July 13, 2020

Language: Английский

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