Pathway Mapping

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

Deadline for manuscript submissions: closed (31 July 2018) | Viewed by 5959

Special Issue Editors

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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

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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

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

Published Papers (1 paper)

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13 pages, 2021 KiB  
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; - 15 Oct 2018
Cited by 6 | Viewed by 5142
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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