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Advanced Research in Plant Metabolomics, 2nd Edition
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Advanced Research in Plant Metabolomics, 2nd Edition

A special issue of Current Issues in Molecular Biology (ISSN 1467-3045). This special issue belongs to the section "Molecular Plant Sciences".

Deadline for manuscript submissions: closed (30 November 2024) | Viewed by 11266

Special Issue Editors

Dr. Chiara Roberta Girelli

E-Mail Website
Guest Editor
Department of Biological and Environmental Sciences and Technologies, University of Salento, Lecce, Italy
Interests: nuclear magnetic resonance (NMR) spectroscopy; chemometrics; foodomics; metabolomics; foodstuff geographical origin and quality assessment
Special Issues, Collections and Topics in MDPI journals
Dr. Laura Del Coco

E-Mail Website
Guest Editor
Department of Biological and Environmental Sciences and Technologies, University of Salento, Via Province of Lecce-Monteroni, 73100 Lecce, Italy
Interests: metabolomic analysis of biofluids (blood, urine, synovial fluid, cell lysates) and plant extracts using NMR spectroscopy and multivariate statistical methods; biomarker detection and molecular characterization in agrifood (EVOOs) and pharmaceuticals and medical use (human diseases); metabolomic analysis for sustainable farming, fisheries, and aquaculture
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Plant metabolomics has already been successfully employed in plant functional genomics, food science, and human nutrition. High-throughput analytical techniques (mass (MS) or nuclear magnetic resonance (NMR) spectroscopy), in combination with statistical methods, aim to characterize plant metabolomes and the role of primary and secondary metabolites as end products of cell pathways. Moreover, metabolomics has emerged as an effective tool in food and nutrition sciences, allowing bioactive compounds, as well as their possible nutraceutical value for human health, to be chemically characterized. This Special Issue will focus on the study of plants’ metabolic profiles and their interaction with external agents (such as environmental variations) or pathogen attack, as well as the detection of relevant biomarkers. In particular, we invite the submission of manuscripts on plant metabolomes, as well as on their application for biomarker detection, quality control, and/or origin discrimination. All studies, including research papers and reviews related to these items, will be considered for publication.

Dr. Chiara Roberta Girelli
Dr. Laura Del Coco
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Current Issues in Molecular Biology is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2200 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • plant fingerprinting
  • plant pathogen interactions
  • secondary metabolites
  • plant physiology
  • metabolomics
  • NMR spectroscopy
  • MS spectroscopy
  • antioxidants
  • phytochemistry
  • food chemistry

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Published Papers (5 papers)

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Research

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12 pages, 2331 KiB  
Article
Liquid Chromatography‒Tandem Mass Spectrometry Analysis of Primary Metabolites and Phenolic Acids Across Five Citrus Species
by Yujiao Peng, Xueyu Cui, Manman Sun, Xiaojuan Huang, Ke Tang, Baoqing Hu and Hongze Liao
Curr. Issues Mol. Biol. 2025, 47(4), 223; https://doi.org/10.3390/cimb47040223 - 26 Mar 2025
Viewed by 286
Abstract
Citrus is a globally consumed fruit with great popularity, yet systematic analyses of primary metabolites across major varieties remain scarce, with phenolic acids as an auxiliary focus due to their flavor relevance. In this study, the primary metabolites and phenolic acids of five [...] Read more.
Citrus is a globally consumed fruit with great popularity, yet systematic analyses of primary metabolites across major varieties remain scarce, with phenolic acids as an auxiliary focus due to their flavor relevance. In this study, the primary metabolites and phenolic acids of five citrus varieties were analyzed via liquid chromatography‒tandem mass spectrometry (LC–MS/MS). The analysis revealed that five different citrus varieties contained 342 primary metabolites and 77 phenolic acids. The PCA clearly distinguished the metabolites of various citrus varieties. Compared with the pomelo group, the lemon group presented the most differentially abundant metabolites, whereas the kumquat and navel orange groups presented the fewest. An examination of metabolic pathways with notable disparities revealed that phenylpropanoid biosynthesis and the biosynthesis of amino acids significantly varied between varieties. This study elucidates primary metabolic networks underlying citrus flavor diversification, with phenolic acids providing secondary modulation insights. Moreover, this study provides a theoretical foundation for enhancing the flavor of citrus fruits. Full article
(This article belongs to the Special Issue Advanced Research in Plant Metabolomics, 2nd Edition)
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21 pages, 11996 KiB  
Article
Molecular and Metabolic Regulation of Flavonoid Biosynthesis in Two Varieties of Dendrobium devonianum
by Ran Pu, Yawen Wu, Tian Bai, Yue Li, Xuejiao Li, Nengbo Li, Ying Zhou and Jingli Zhang
Curr. Issues Mol. Biol. 2024, 46(12), 14270-14290; https://doi.org/10.3390/cimb46120855 - 18 Dec 2024
Viewed by 990
Abstract
Dendrobium devonianum is an important medicinal plant, rich in flavonoid, with various pharmacological activities such as stomachic and antioxidant properties. In this study, we integrated metabolome and transcriptome analyses to reveal metabolite and gene expression profiles of D. devonianum, both green (GDd) and [...] Read more.
Dendrobium devonianum is an important medicinal plant, rich in flavonoid, with various pharmacological activities such as stomachic and antioxidant properties. In this study, we integrated metabolome and transcriptome analyses to reveal metabolite and gene expression profiles of D. devonianum, both green (GDd) and purple-red (RDd) of semi-annual and annual stems. A total of 244 flavonoid metabolites, mainly flavones and flavonols, were identified and annotated. Cyanidin and delphinidin were the major anthocyanidins, with cyanidin-3-O-(6″-O-p-Coumaroyl) glucoside and delphinidin-3-O-(6″-O-p-coumaroyl) glucoside being the highest relative content in the RDd. Differential metabolites were significantly enriched, mainly in flavonoid biosynthesis, anthocyanin biosynthesis, and flavone and flavonol biosynthesis pathways. Transcriptomic analysis revealed that high expression levels of structural genes for flavonoid and anthocyanin biosynthesis were the main reasons for color changes in D. devonianum stems. Based on correlation analysis and weighted gene co-expression network analysis (WGCNA) analysis, CHS2 (chalcone synthase) and UGT77B2 (anthocyanidin 3-O-glucosyltransferase) were identified as important candidate genes involved in stem pigmentation. In addition, key transcription factors (TFs), including three bHLH (bHLH3, bHLH4, bHLH5) and two MYB (MYB1, MYB2), which may be involved in the regulation of flavonoid biosynthesis, were identified. This study provides new perspectives on D. devonianum efficacy components and the Dendrobium flavonoids and stem color regulation. Full article
(This article belongs to the Special Issue Advanced Research in Plant Metabolomics, 2nd Edition)
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17 pages, 3384 KiB  
Article
Identification of Primary Metabolite Profiles Reveals Quality Characteristics of Citrus maxima ‘Shatian Yu’ from Different Origins
by Yujiao Peng, Meixin Li, Fangfei Song, Shuilan Liu, Yuxiang Qin, Baoqing Hu and Xueyu Cui
Curr. Issues Mol. Biol. 2024, 46(11), 12830-12846; https://doi.org/10.3390/cimb46110764 - 11 Nov 2024
Cited by 1 | Viewed by 863
Abstract
Citrus maxima ‘Shatian Yu’ displays varying nutritional profiles influenced by its production area. This study evaluated pomelo fruits from four primary and one developing ‘Shatian Yu’ production area. Notably, ‘Shatian Yu’ from the Guilin area exhibited higher sugar and alcohol content, suggesting enhanced [...] Read more.
Citrus maxima ‘Shatian Yu’ displays varying nutritional profiles influenced by its production area. This study evaluated pomelo fruits from four primary and one developing ‘Shatian Yu’ production area. Notably, ‘Shatian Yu’ from the Guilin area exhibited higher sugar and alcohol content, suggesting enhanced taste. Principal component analysis and OPLS-DA revealed significant metabolite differences among production areas. In Guilin, variations were observed in a few substances, including sugars, alcohols, and phenolic acids. When compared with Rong City, Guilin showed a decrease in four phenolic acids and an increase in three organic acids, eighteen amino acids, eighteen lipids, and one vitamin. This comprehensive analysis provides valuable insights for the development of ‘Shatian Yu’ cultivation, highlighting the impact of production areas on fruit quality. Full article
(This article belongs to the Special Issue Advanced Research in Plant Metabolomics, 2nd Edition)
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16 pages, 8350 KiB  
Article
Multi-Omics Analyses Unravel Metabolic and Transcriptional Differences in Tender Shoots from Two Sechium edule Varieties
by Zhihui Du, Fei Qu, Chaojun Zhang, Zhilin Chen, Yurong Li and Linhong Wen
Curr. Issues Mol. Biol. 2023, 45(11), 9060-9075; https://doi.org/10.3390/cimb45110568 - 13 Nov 2023
Cited by 1 | Viewed by 1298
Abstract
Chaylte vine, the tender shoot of Sechium edule, is popular among vegetable consumers because of its high nutritional content, crisp texture, and unique flavor. Existing studies on the nutrient composition of chaylte vines are mostly simple chemical determinations, which have limited the [...] Read more.
Chaylte vine, the tender shoot of Sechium edule, is popular among vegetable consumers because of its high nutritional content, crisp texture, and unique flavor. Existing studies on the nutrient composition of chaylte vines are mostly simple chemical determinations, which have limited the breeding of specialized cultivars and the development of related industries. Using metabolomics combined with transcriptomics, this study analyzed the metabolic characteristics and related molecular mechanisms of two common varieties of chaylte vines: green-skinned (SG) and white-skinned (SW). Between the two varieties, a total of 277 differentially accumulated metabolites (DAMs) and 739 differentially expressed genes (DEGs) were identified. Furthermore, chemical assays demonstrated that the SW exhibited a higher total flavonoid content and antioxidant capacity. In conclusion, it was found that the SG samples exhibited a higher diversity of flavonoid subclasses compared to the SW samples, despite having a lower total flavonoid content. This inconsistent finding was likely due to the differential expression of the phenylalanine ammonia-lyase (PAL) and chalcone synthase (CHS) genes in the two varieties. These results laid the foundation for investigating the mechanisms involved in flavonoid regulation and the breeding of specialized S. edule cultivars for chaylte vine production. Full article
(This article belongs to the Special Issue Advanced Research in Plant Metabolomics, 2nd Edition)
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Review

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13 pages, 1742 KiB  
Review
Plant Metabolomics: Current Initiatives and Future Prospects
by Sudha Manickam, Veera Ranjani Rajagopalan, Rohit Kambale, Raghu Rajasekaran, Selvaraju Kanagarajan and Raveendran Muthurajan
Curr. Issues Mol. Biol. 2023, 45(11), 8894-8906; https://doi.org/10.3390/cimb45110558 - 8 Nov 2023
Cited by 31 | Viewed by 7184
Abstract
Plant metabolomics is a rapidly advancing field of plant sciences and systems biology. It involves comprehensive analyses of small molecules (metabolites) in plant tissues and cells. These metabolites include a wide range of compounds, such as sugars, amino acids, organic acids, secondary metabolites [...] Read more.
Plant metabolomics is a rapidly advancing field of plant sciences and systems biology. It involves comprehensive analyses of small molecules (metabolites) in plant tissues and cells. These metabolites include a wide range of compounds, such as sugars, amino acids, organic acids, secondary metabolites (e.g., alkaloids and flavonoids), lipids, and more. Metabolomics allows an understanding of the functional roles of specific metabolites in plants’ physiology, development, and responses to biotic and abiotic stresses. It can lead to the identification of metabolites linked with specific traits or functions. Plant metabolic networks and pathways can be better understood with the help of metabolomics. Researchers can determine how plants react to environmental cues or genetic modifications by examining how metabolite profiles change under various crop stages. Metabolomics plays a major role in crop improvement and biotechnology. Integrating metabolomics data with other omics data (genomics, transcriptomics, and proteomics) provides a more comprehensive perspective of plant biology. This systems biology approach enables researchers to understand the complex interactions within organisms. Full article
(This article belongs to the Special Issue Advanced Research in Plant Metabolomics, 2nd Edition)
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