Applying an automated NMR-based metabolomic workflow to unveil strawberry molecular mechanisms in vernalization DOI Open Access

Andrea Fernández-Veloso,

Jaime Hiniesta-Valero,

Alejandra Guerra‐Castellano

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Feb. 13, 2024

Abstract Metabolomics is the discipline that aims to determine whole metabolic profile of a complex mixture. These studies are useful capture physiological status an organism at given moment. Even though main technique used in metabolomics Mass Spectrometry coupled chromatography, recent years, interest Nuclear Magnetic Resonance (NMR) increasing because some benefits NMR, i.e., it non-invasive, highly reproducible, and inherently quantitative technique. However, difficulties data analysis comprise one reasons hinder standardization NMR for metabolomic research. In this work, we applied automated workflow NMR-based study vernalization strawberry. Vernalization key process obtaining successful strawberry crop, however, molecular mechanisms behind remain still unknown. We expect work improve knowledge crop metabolism —specifically process— while promoting use conjunction with computational tools agriculture studies.

Language: Английский

Impact of Metabolites from Foodborne Pathogens on Cancer DOI Creative Commons
Alice Njolke Mafe, Dietrich Büsselberg

Foods, Journal Year: 2024, Volume and Issue: 13(23), P. 3886 - 3886

Published: Dec. 1, 2024

Foodborne pathogens are microorganisms that cause illness through contamination, presenting significant risks to public health and food safety. This review explores the metabolites produced by these pathogens, including toxins secondary metabolites, their implications for human health, particularly concerning cancer risk. We examine various such as Salmonella sp., Campylobacter Escherichia coli, Listeria monocytogenes, detailing specific of concern carcinogenic mechanisms. study discusses analytical techniques detecting chromatography, spectrometry, immunoassays, along with challenges associated detection. covers effective control strategies, processing techniques, sanitation practices, regulatory measures, emerging technologies in pathogen control. manuscript considers broader highlighting importance robust policies, awareness, education. identifies research gaps innovative approaches, recommending advancements detection methods, preventive policy improvements better manage foodborne metabolites.

Language: Английский

Citations

12
Cooperative STAT3-NFkB signaling modulates mitochondrial dysfunction and metabolic profiling in hepatocellular carcinoma DOI
Sharmeen Ishteyaque, Gurvinder Singh,

Karan Singh Yadav

et al.

Metabolism, Journal Year: 2024, Volume and Issue: 152, P. 155771 - 155771

Published: Jan. 5, 2024

Language: Английский

Citations

10
Untargeted faecal metabolomics for the discovery of biomarkers and treatment targets for inflammatory bowel diseases DOI
Arnau Vich Vila, Jingwan Zhang, Moting Liu

et al.

Gut, Journal Year: 2024, Volume and Issue: 73(11), P. 1909 - 1920

Published: July 13, 2024

The gut microbiome has been recognised as a key component in the pathogenesis of inflammatory bowel diseases (IBD), and wide range metabolites produced by bacteria are an important mechanism which human interacts with host immunity or metabolism. High-throughput metabolomic profiling novel computational approaches now allow for comprehensive assessment thousands diverse biomaterials, including faecal samples. Several groups metabolites, short-chain fatty acids, tryptophan bile have associated IBD. In this

Language: Английский

Citations

10
Lipidomics of Huntington’s Disease: A Comprehensive Review of Current Status and Future Directions DOI Creative Commons
Ali Yilmaz, Sümeyya Akyol,

Nadia Ashrafi

et al.

Metabolites, Journal Year: 2025, Volume and Issue: 15(1), P. 10 - 10

Published: Jan. 2, 2025

Huntington's disease (HD) is a multifaceted neurological disorder characterized by the progressive deterioration of motor, cognitive, and psychiatric functions. Despite limited understanding its pathogenesis, research has implicated abnormal trinucleotide cytosine-adenine-guanine CAG repeat expansion in huntingtin gene (HTT) as critical factor. The development innovative strategies imperative for early detection predictive biomarkers, enabling timely intervention mitigating irreversible cellular damage. Lipidomics, comprehensive analytical approach, emerged an indispensable tool systematically characterizing lipid profiles elucidating their role pathology. A MedLine search was performed to identify studies that use lipidomics characterization HD. Search terms included "Huntington disease"; "lipidomics"; "biomarker discovery"; "NMR"; "Mass spectrometry". This review highlights significance HD diagnosis treatment, exploring changes brain lipids Recent breakthroughs techniques, particularly mass spectrometry NMR spectroscopy, have revolutionized research, researchers gain deeper insights into complex lipidome brain. broad spectrum alterations vital precise diagnostic evaluation effective management. integration with artificial intelligence interdisciplinary collaboration holds promise addressing clinical variability

Language: Английский

Citations

1
Identification of Novel Biomarkers of Spinal Muscular Atrophy and Therapeutic Response by Proteomic and Metabolomic Profiling of Human Biological Fluid Samples DOI Creative Commons
Megi Meneri, Elena Abati, Delia Gagliardi

et al.

Biomedicines, Journal Year: 2023, Volume and Issue: 11(5), P. 1254 - 1254

Published: April 23, 2023

Spinal muscular atrophy (SMA) is a neuromuscular disease resulting from mutations or deletions in SMN1 that lead to progressive death of alpha motor neurons, ultimately leading severe muscle weakness and atrophy, as well premature the absence treatment. Recent approval SMN-increasing medications SMA therapy has altered natural course disease. Thus, accurate biomarkers are needed predict severity, prognosis, drug response, overall treatment efficacy. This article reviews novel non-targeted omics strategies could become useful clinical tools for patients with SMA. Proteomics metabolomics can provide insights into molecular events underlying progression response. High-throughput data have shown untreated different profiles than controls. In addition, who clinically improved after profile those did not. These results glimpse on potential markers assist identifying responders, tracing disease, predicting its outcome. studies been restricted by limited number patients, but approaches feasible unravel severity-specific neuro-proteomic metabolic signatures.

Language: Английский

Citations

17
NMR-based plant metabolomics protocols: a step-by-step guide DOI Creative Commons
Fernanda Maria Marins Ocampos, Ana Júlia Borim de Souza,

Gabriel Henrique Ribeiro

et al.

Frontiers in Natural Products, Journal Year: 2024, Volume and Issue: 3

Published: July 30, 2024

Metabolomics is one of the “omics” sciences that can reveal metabolic phenotype organisms. This capability makes it a valuable tool for plant investigation, as plants present vast chemical diversity. From analytical point view, two main techniques are frequently used in metabolomics and often complementary: Mass spectrometry (MS) Nuclear Magnetic Resonance (NMR) spectroscopy. Here, we describe NMR its applications metabolomics. We start by contextualizing research field to then explore study design, sample collection, preparation, data acquisition, analysis, showing key features achieving quality relevant results. Within these topics, most common databases metabolites identification assignments listed, help shorten laborious task investigation natural products. Concerning parameters, discuss pulse sequences, recommend acquisition examine each sequence provide. Similarly, delve into highlighting commonly chemometric methods how achieve high-quality Therefore, this review aims provide comprehensive guide NMR-based analysis plants.

Language: Английский

Citations

8
How nuclear magnetic resonance contributes to food authentication: current trends and perspectives DOI
Veronica Lolli, Augusta Caligiani

Current Opinion in Food Science, Journal Year: 2024, Volume and Issue: 58, P. 101200 - 101200

Published: July 31, 2024

Language: Английский

Citations

8
A metabolomics perspective on root‐derived plant immunity and phytohormone interaction DOI
Pratibha Demiwal,

Sumedh Tayade,

Shri Ram Yadav

et al.

Physiologia Plantarum, Journal Year: 2024, Volume and Issue: 176(1)

Published: Jan. 1, 2024

Abstract A plant's root system is essential to its survival as it supports anchorage and absorbs water minerals from the ground. Several microorganisms interact with roots in rhizosphere, they can be neutral, positive, or negative. Identifying beneficial pathogenic limiting promoting their colonization for survive. Signaling molecules metabolites play an important regulatory role determining root‐microbe associations. Phytohormones modulate plant‐microbe interactions by metabolic reprogramming transmitting long‐range signals, resulting local systemic resistance. Mass spectrometry‐based metabolomics provides a powerful means study interactions. It qualitative quantitative approach mechanisms of also helps understand pathogen‐induced reprogramming. By using metabolomics, one identify biomarker that indicate disease resistance sensitivity roots. Compared other omics methods, still underutilized root‐pathogen interaction studies. is, therefore, vital popularized gain better understanding susceptibility. Through untargeted we insight into plant‐microbial across variety tissues, which us develop more effective crop plant protection measures. In this review, describe current status progress applications studying emphasis on root‐derived phytohormones specialized metabolites. addition, proposed use novel biomarkers during interactions, distinguish resistant genotypes susceptible ones, predict nondestructively early progression.

Language: Английский

Citations

4
Advancements in CHO metabolomics: techniques, current state and evolving methodologies DOI Creative Commons
Rita Singh,

Eram Fatima,

Lovnish Thakur

et al.

Frontiers in Bioengineering and Biotechnology, Journal Year: 2024, Volume and Issue: 12

Published: March 27, 2024

Background: Investigating the metabolic behaviour of different cellular phenotypes, i.e., good/bad grower and/or producer, in production culture is important to identify key metabolite(s)/pathway(s) that regulate cell growth recombinant protein improve overall yield. Currently, LC-MS, GC-MS and NMR are most used advanced technologies for investigating metabolome. Although contributed significantly domain, each technique has its own biasness towards specific metabolites or class due various reasons including variability concept working, sample preparation, metabolite-extraction methods, metabolite identification tools, databases. As a result, application appropriate analytical technique(s) very critical. Purpose scope: This review provides state-of-the-art technological insights overview mechanisms involved regulation improving yield from CHO cultures. Summary conclusion: In this review, advancements metabolomics over last 10 years traced based on bibliometric analysis previous publications discussed. With technical advancement domain NMR, glycolytic nucleotide biosynthesis pathway (glucose, fructose, pyruvate phenylalanine, threonine, tryptophan, arginine, valine, asparagine, serine, etc.) were observed be upregulated exponential-phase thereby potentially associated with regulation, whereas metabolites/intermediates TCA, oxidative phosphorylation (aspartate, glutamate, succinate, malate, fumarate citrate), intracellular NAD+/NADH ratio, glutathione pathways stationary-phase hence increased cell-specific productivity bioprocess. Moreover, bias identification, indicating their complementarity, along number critical gaps pipeline first time discussed here potential remedies. knowledge may help future study designs metabolomic coverage facilitating metabolites/pathways which might get missed otherwise explore full bioprocess performances.

Language: Английский

Citations

4
From flesh to bones: Multi‐omics approaches in forensic science DOI Creative Commons
Noemi Procopio, Andrea Bonicelli

PROTEOMICS, Journal Year: 2024, Volume and Issue: 24(12-13)

Published: April 29, 2024

Abstract Recent advancements in omics techniques have revolutionised the study of biological systems, enabling generation high‐throughput biomolecular data. These innovations found diverse applications, ranging from personalised medicine to forensic sciences. While investigation multiple aspects cells, tissues or entire organisms through integration various approaches (such as genomics, epigenomics, metagenomics, transcriptomics, proteomics and metabolomics) has already been established fields like biomedicine cancer biology, its full potential sciences remains only partially explored. In this review, we presented a comprehensive overview state‐of‐the‐art analytical platforms employed research, with specific emphasis on their application field for identification cadaver cause death. Moreover, conducted critical analysis computational approaches, highlighted latest employing multi‐omics investigations.

Language: Английский

Citations

4