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Metabolites
Special Issues
Pathway Mapping
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Pathway Mapping

A special issue of Metabolites (ISSN 2218-1989).

Deadline for manuscript submissions: closed (31 July 2018) | Viewed by 5743

Special Issue Editors

Dr. Thusitha W. Rupasinghe

E-Mail Website
Guest Editor
School of BioSciences, University of Melbourne, Parkville, VIC 3052, Australia
Interests: lipidomics; metabolomics; bioanalytics; fluxomics; analytical chemistry; plant physiology
Special Issues, Collections and Topics in MDPI journals
Dr. Darren J. Creek

E-Mail Website
Guest Editor
Monash Institute of Pharmaceutical Sciences, Faculty of Pharmacy and Pharmaceutical Sciences, Monash University (Parkville campus), 381 Royal Parade, Parkville, VIC 3052, Australia
Interests: metabolomics; lipidomics; proteomics; drug discovery; malaria; tropical medicine

Special Issue Information

Dear Colleagues,

Pathway mapping plays an important role in metabolomics studies, allowing the analysis of metabolic networks from a systems biology perspective. This Special Issue is focused on advanced tools and methodologies for pathway mapping and applications that demonstrate the critical role of pathway mapping in metabolomics studies. These approaches include the incorporation of isotopic labeled precursor compounds to study the metabolic architecture of pathways within a system, and new developments in pathway mapping tools that use genomic databases or models to improve the biochemical interpretation of metabolomics data. Topics to be covered in this Special Issue focus on recent developments and applications of pathway mapping approaches in biological systems, use of isotopic labeling with advanced technologies to monitor changes in metabolic pathways and software for pathway-centric data processing and visualization of metabolomics data.

Dr. Thusitha W. Rupasinghe
Dr. Darren J. Creek
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. Metabolites 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 2700 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

  • pathway mapping
  • fluxomics
  • isotopic labeling
  • mass spectrometry
  • metabolomics

Published Papers (1 paper)

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Research

13 pages, 2021 KiB  
Article
Intracellular Fate of Universally Labelled 13C Isotopic Tracers of Glucose and Xylose in Central Metabolic Pathways of Xanthomonas oryzae
by Manu Shree and Shyam K. Masakapalli
Metabolites 2018, 8(4), 66; https://doi.org/10.3390/metabo8040066 - 15 Oct 2018
Cited by 6 | Viewed by 4994
Abstract
The goal of this study is to map the metabolic pathways of poorly understood bacterial phytopathogen, Xanthomonas oryzae (Xoo) BXO43 fed with plant mimicking media XOM2 containing glutamate, methionine and either 40% [13C5] xylose or 40% [13C [...] Read more.
The goal of this study is to map the metabolic pathways of poorly understood bacterial phytopathogen, Xanthomonas oryzae (Xoo) BXO43 fed with plant mimicking media XOM2 containing glutamate, methionine and either 40% [13C5] xylose or 40% [13C6] glucose. The metabolic networks mapped using the KEGG mapper and the mass isotopomer fragments of proteinogenic amino acids derived from GC-MS provided insights into the activities of Xoo central metabolic pathways. The average 13C in histidine, aspartate and other amino acids confirmed the activities of PPP, the TCA cycle and amino acid biosynthetic routes, respectively. The similar labelling patterns of amino acids (His, Ala, Ser, Val and Gly) from glucose and xylose feeding experiments suggests that PPP would be the main metabolic route in Xoo. Owing to the lack of annotated gene phosphoglucoisomerase in BXO43, the 13C incorporation in alanine could not be attributed to the competing pathways and hence warrants additional positional labelling experiments. The negligible presence of 13C incorporation in methionine brings into question its potential role in metabolism and pathogenicity. The extent of the average 13C labelling in several amino acids highlighted the contribution of pre-existing pools that need to be accounted for in 13C-flux analysis studies. This study provided the first qualitative insights into central carbon metabolic pathway activities in Xoo. Full article
(This article belongs to the Special Issue Pathway Mapping)
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