Rapid Classification of Coffee Products by Data Mining Models from Direct Electrospray and Plasma-Based Mass Spectrometry Analyses

Gamboa-Becerra, Roberto; Montero-Vargas, Josaphat Miguel; Martínez‐Jarquín, Sandra; Gálvez-Ponce, Eligio; Moreno-Pedraza, Abigail; Winkler, Robert

doi:10.1007/s12161-016-0696-y

Cited by 27 publications

(13 citation statements)

References 39 publications

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“…For data mining and model building, we used the R package Rattle (27) and the mean values from triplicate experiments. We applied a hierarchical clustering analysis (HCA) to the filtered data to create metabolic heat maps and evaluated differences in the metabolic profiles (66).…”

Section: Methodsmentioning

confidence: 99%

Trichoderma atroviride from Predator to Prey: Role of the Mitogen-Activated Protein Kinase Tmk3 in Fungal Chemical Defense against Fungivory by Drosophila melanogaster Larvae

Atriztán-Hernández

Moreno-Pedraza

Winkler

et al. 2019

Appl Environ Microbiol

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The response to injury represents an important strategy for animals and plants to survive mechanical damage and predation. Plants respond to injury by activating a defense response that includes the production of an important variety of compounds that help them withstand predator attack and recover from mechanical injury (MI). Similarly, the filamentous fungusTrichoderma atrovirideresponds to MI by strongly modifying its transcriptional profile and producing asexual reproduction structures (conidia). Here, we analyzed whether the response to MI inT. atrovirideis related to a possible predator defense mechanism from a metabolic perspective. We found that the production of specific groups of secondary metabolites increases in response to MI but is reduced after fungivory byDrosophila melanogasterlarvae. We further show that fungivory results in repression of the expression of genes putatively involved in the regulation of secondary metabolite production inT. atroviride. Activation of secondary metabolite production appears to depend on the mitogen-activated protein kinase (MAPK) Tmk3. Interestingly,D. melanogasterlarvae preferred to feed on atmk3gene replacement mutant rather than on the wild-type strain. Consumption of the mutant strain, however, resulted in increased larval mortality.IMPORTANCEFungi, like other organisms, have natural predators, including fungivorous nematodes and arthropods that use them as an important food source. Thus, they require mechanisms to detect and respond to injury.Trichoderma atrovirideresponds to mycelial injury by rapidly regenerating its hyphae and developing asexual reproduction structures. Whether this injury response is associated with attack by fungivorous insects is unknown. Therefore, determining the possible conservation of a defense mechanism to predation inT. atrovirideand plants and elucidating the mechanisms involved in the establishment of this response is of major interest. Here, we describe the chemical response ofT. atrovirideto mechanical injury and fungivory and the role of a MAPK pathway in the regulation of this response.

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Section: Methodsmentioning

confidence: 99%

Trichoderma atroviride from Predator to Prey: Role of the Mitogen-Activated Protein Kinase Tmk3 in Fungal Chemical Defense against Fungivory by Drosophila melanogaster Larvae

Atriztán-Hernández

Moreno-Pedraza

Winkler

et al. 2019

Appl Environ Microbiol

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“…However, an excess of hypoxia stress leads to the expression of CHGs and flavor alteration by the accumulation of fermentative products (Cukrov et al, 2016). As mentioned before, the threshold between conservation and fermentation is highly variable in fruits and vegetables (Beaudry, 1999); therefore, a solution to further monitor this balance is the use of metabolomic fingerprinting by combining state-of-the-art analytical methods, informatics, and agronomical knowledge, as recently shown for coffee (Gamboa-Becerra et al, 2017). The use of tissue or developmental stage-specific promoters to drive the timely expression of RNAi constructs against transcripts of ethylene receptors or fermentative enzymes may also render interesting biotechnological prototypes for fruit conservation technology.…”

Section: Biotechnological Success and Explorationsmentioning

confidence: 99%

Submergence and Waterlogging Stress in Plants: A Review Highlighting Research Opportunities and Understudied Aspects

et al. 2019

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Soil flooding creates composite and complex stress in plants known as either submergence or waterlogging stress depending on the depth of the water table. In nature, these stresses are important factors dictating the species composition of the ecosystem. On agricultural land, they cause economic damage associated with longterm social consequences. The understanding of the plant molecular responses to these two stresses has benefited from research studying individual components of the stress, in particular low-oxygen stress. To a lesser extent, other associated stresses and plant responses have been incorporated into the molecular framework, such as ion and ROS signaling, pathogen susceptibility, and organ-specific expression and development. In this review, we aim to highlight known or suspected components of submergence/waterlogging stress that have not yet been thoroughly studied at the molecular level in this context, such as miRNA and retrotransposon expression, the influence of light/dark cycles, protein isoforms, root architecture, sugar sensing and signaling, post-stress molecular events, heavy-metal and salinity stress, and mRNA dynamics (splicing, sequestering, and ribosome loading). Finally, we explore biotechnological strategies that have applied this molecular knowledge to develop cultivars resistant to flooding or to offer alternative uses of flooding-prone soils, like bioethanol and biomass production.

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“…Apart from these portable MS detectors, a benchtop miniature of the MS system, named Mini 12, was developed. As an ambient ionization source with an MS analyzer, it is capable of producing quantitative data for small volume samples; it is thus able to trace chemical markers in food matrices [62].…”

Section: Gc-ms and Lc-msmentioning

confidence: 99%

Application of the Metabolomics Approach in Food Authentication

2021

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The authentication of food products is essential for food quality and safety. Authenticity assessments are important to ensure that the ingredients or contents of food products are legitimate and safe to consume. The metabolomics approach is an essential technique that can be utilized for authentication purposes. This study aimed to summarize food authentication through the metabolomics approach, to study the existing analytical methods, instruments, and statistical methods applied in food authentication, and to review some selected food commodities authenticated using metabolomics-based methods. Various databases, including Google Scholar, PubMed, Scopus, etc., were used to obtain previous research works relevant to the objectives. The review highlights the role of the metabolomics approach in food authenticity. The approach is technically implemented to ensure consumer protection through the strict inspection and enforcement of food labeling. Studies have shown that the study of metabolomics can ultimately detect adulterant(s) or ingredients that are added deliberately, thus compromising the authenticity or quality of food products. Overall, this review will provide information on the usefulness of metabolomics and the techniques associated with it in successful food authentication processes, which is currently a gap in research that can be further explored and improved.

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Rapid Classification of Coffee Products by Data Mining Models from Direct Electrospray and Plasma-Based Mass Spectrometry Analyses

Cited by 27 publications

References 39 publications

Trichoderma atroviride from Predator to Prey: Role of the Mitogen-Activated Protein Kinase Tmk3 in Fungal Chemical Defense against Fungivory by Drosophila melanogaster Larvae

Trichoderma atroviride from Predator to Prey: Role of the Mitogen-Activated Protein Kinase Tmk3 in Fungal Chemical Defense against Fungivory by Drosophila melanogaster Larvae

Submergence and Waterlogging Stress in Plants: A Review Highlighting Research Opportunities and Understudied Aspects

Application of the Metabolomics Approach in Food Authentication

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