Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory
Structurally diverse, specialized lipids are crucial components of microbial membranes and other organelles and play essential roles in ecological functioning. The detection of such lipids in the environment can reveal not only the occurrence of specific microbes but also the physicochemical conditi...
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doaj-74d681163d574f79b3a5e8d3c1d26b752021-07-12T09:17:28ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2021-07-011210.3389/fmicb.2021.659315659315Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information TheorySu Ding0Nicole J. Bale1Ellen C. Hopmans2Laura Villanueva3Laura Villanueva4Milou G. I. Arts5Stefan Schouten6Stefan Schouten7Jaap S. Sinninghe Damsté8Jaap S. Sinninghe Damsté9Department of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Earth Sciences, Faculty of Geosciences, Utrecht University, Utrecht, NetherlandsDepartment of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Earth Sciences, Faculty of Geosciences, Utrecht University, Utrecht, NetherlandsDepartment of Marine Microbiology and Biogeochemistry, NIOZ Royal Institute for Sea Research, Texel, NetherlandsDepartment of Earth Sciences, Faculty of Geosciences, Utrecht University, Utrecht, NetherlandsStructurally diverse, specialized lipids are crucial components of microbial membranes and other organelles and play essential roles in ecological functioning. The detection of such lipids in the environment can reveal not only the occurrence of specific microbes but also the physicochemical conditions to which they are adapted to. Traditionally, liquid chromatography coupled with mass spectrometry allowed for the detection of lipids based on chromatographic separation and individual peak identification, resulting in a limited data acquisition and targeting of certain lipid groups. Here, we explored a comprehensive profiling of microbial lipids throughout the water column of a marine euxinic basin (Black Sea) using ultra high-pressure liquid chromatography coupled with high-resolution tandem mass spectrometry (UHPLC-HRMS/MS). An information theory framework combined with molecular networking based on the similarity of the mass spectra of lipids enabled us to capture lipidomic diversity and specificity in the environment, identify novel lipids, differentiate microbial sources within a lipid group, and discover potential biomarkers for biogeochemical processes. The workflow presented here allows microbial ecologists and biogeochemists to process quickly and efficiently vast amounts of lipidome data to understand microbial lipids characteristics in ecosystems.https://www.frontiersin.org/articles/10.3389/fmicb.2021.659315/fullmicrobial membrane lipidslipidomeBlack Seamolecular networkinformation theorymass spectometry |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Su Ding Nicole J. Bale Ellen C. Hopmans Laura Villanueva Laura Villanueva Milou G. I. Arts Stefan Schouten Stefan Schouten Jaap S. Sinninghe Damsté Jaap S. Sinninghe Damsté |
spellingShingle |
Su Ding Nicole J. Bale Ellen C. Hopmans Laura Villanueva Laura Villanueva Milou G. I. Arts Stefan Schouten Stefan Schouten Jaap S. Sinninghe Damsté Jaap S. Sinninghe Damsté Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory Frontiers in Microbiology microbial membrane lipids lipidome Black Sea molecular network information theory mass spectometry |
author_facet |
Su Ding Nicole J. Bale Ellen C. Hopmans Laura Villanueva Laura Villanueva Milou G. I. Arts Stefan Schouten Stefan Schouten Jaap S. Sinninghe Damsté Jaap S. Sinninghe Damsté |
author_sort |
Su Ding |
title |
Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory |
title_short |
Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory |
title_full |
Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory |
title_fullStr |
Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory |
title_full_unstemmed |
Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory |
title_sort |
lipidomics of environmental microbial communities. ii: characterization using molecular networking and information theory |
publisher |
Frontiers Media S.A. |
series |
Frontiers in Microbiology |
issn |
1664-302X |
publishDate |
2021-07-01 |
description |
Structurally diverse, specialized lipids are crucial components of microbial membranes and other organelles and play essential roles in ecological functioning. The detection of such lipids in the environment can reveal not only the occurrence of specific microbes but also the physicochemical conditions to which they are adapted to. Traditionally, liquid chromatography coupled with mass spectrometry allowed for the detection of lipids based on chromatographic separation and individual peak identification, resulting in a limited data acquisition and targeting of certain lipid groups. Here, we explored a comprehensive profiling of microbial lipids throughout the water column of a marine euxinic basin (Black Sea) using ultra high-pressure liquid chromatography coupled with high-resolution tandem mass spectrometry (UHPLC-HRMS/MS). An information theory framework combined with molecular networking based on the similarity of the mass spectra of lipids enabled us to capture lipidomic diversity and specificity in the environment, identify novel lipids, differentiate microbial sources within a lipid group, and discover potential biomarkers for biogeochemical processes. The workflow presented here allows microbial ecologists and biogeochemists to process quickly and efficiently vast amounts of lipidome data to understand microbial lipids characteristics in ecosystems. |
topic |
microbial membrane lipids lipidome Black Sea molecular network information theory mass spectometry |
url |
https://www.frontiersin.org/articles/10.3389/fmicb.2021.659315/full |
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