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Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20

Haemophilus influenzae is a gram-negative bacterium of relevant clinical interest. H. influenzae Rd KW20 was the first organism to be sequenced and for which a genome-scale metabolic model (GEM) was developed. However, current H. influenzae GEMs are unable to capture several aspects of metabolome na...

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Autores principales: Fernández-García, Miguel, Ares-Arroyo, Manuel, Wedel, Emilia, Montero, Natalia, Barbas, Coral, Rey-Stolle, Mª Fernanda, González-Zorn, Bruno, García, Antonia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10342370/
https://www.ncbi.nlm.nih.gov/pubmed/37446331
http://dx.doi.org/10.3390/ijms241311150
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author Fernández-García, Miguel
Ares-Arroyo, Manuel
Wedel, Emilia
Montero, Natalia
Barbas, Coral
Rey-Stolle, Mª Fernanda
González-Zorn, Bruno
García, Antonia
author_facet Fernández-García, Miguel
Ares-Arroyo, Manuel
Wedel, Emilia
Montero, Natalia
Barbas, Coral
Rey-Stolle, Mª Fernanda
González-Zorn, Bruno
García, Antonia
author_sort Fernández-García, Miguel
collection PubMed
description Haemophilus influenzae is a gram-negative bacterium of relevant clinical interest. H. influenzae Rd KW20 was the first organism to be sequenced and for which a genome-scale metabolic model (GEM) was developed. However, current H. influenzae GEMs are unable to capture several aspects of metabolome nature related to metabolite pools. To directly and comprehensively characterize the endometabolome of H. influenzae Rd KW20, we performed a multiplatform MS-based metabolomics approach combining LC-MS, GC-MS and CE-MS. We obtained direct evidence of 15–20% of the endometabolome present in current H. influenzae GEMs and showed that polar metabolite pools are interconnected through correlating metabolite islands. Notably, we obtained high-quality evidence of 18 metabolites not previously included in H. influenzae GEMs, including the antimicrobial metabolite cyclo(Leu-Pro). Additionally, we comprehensively characterized and evaluated the quantitative composition of the phospholipidome of H. influenzae, revealing that the fatty acyl chain composition is largely independent of the lipid class, as well as that the probability distribution of phospholipids is mostly related to the conditional probability distribution of individual acyl chains. This finding enabled us to provide a rationale for the observed phospholipid profiles and estimate the abundance of low-level species, permitting the expansion of the phospholipidome characterization through predictive probabilistic modelling.
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spelling pubmed-103423702023-07-14 Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20 Fernández-García, Miguel Ares-Arroyo, Manuel Wedel, Emilia Montero, Natalia Barbas, Coral Rey-Stolle, Mª Fernanda González-Zorn, Bruno García, Antonia Int J Mol Sci Article Haemophilus influenzae is a gram-negative bacterium of relevant clinical interest. H. influenzae Rd KW20 was the first organism to be sequenced and for which a genome-scale metabolic model (GEM) was developed. However, current H. influenzae GEMs are unable to capture several aspects of metabolome nature related to metabolite pools. To directly and comprehensively characterize the endometabolome of H. influenzae Rd KW20, we performed a multiplatform MS-based metabolomics approach combining LC-MS, GC-MS and CE-MS. We obtained direct evidence of 15–20% of the endometabolome present in current H. influenzae GEMs and showed that polar metabolite pools are interconnected through correlating metabolite islands. Notably, we obtained high-quality evidence of 18 metabolites not previously included in H. influenzae GEMs, including the antimicrobial metabolite cyclo(Leu-Pro). Additionally, we comprehensively characterized and evaluated the quantitative composition of the phospholipidome of H. influenzae, revealing that the fatty acyl chain composition is largely independent of the lipid class, as well as that the probability distribution of phospholipids is mostly related to the conditional probability distribution of individual acyl chains. This finding enabled us to provide a rationale for the observed phospholipid profiles and estimate the abundance of low-level species, permitting the expansion of the phospholipidome characterization through predictive probabilistic modelling. MDPI 2023-07-06 /pmc/articles/PMC10342370/ /pubmed/37446331 http://dx.doi.org/10.3390/ijms241311150 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Fernández-García, Miguel
Ares-Arroyo, Manuel
Wedel, Emilia
Montero, Natalia
Barbas, Coral
Rey-Stolle, Mª Fernanda
González-Zorn, Bruno
García, Antonia
Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20
title Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20
title_full Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20
title_fullStr Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20
title_full_unstemmed Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20
title_short Multiplatform Metabolomics Characterization Reveals Novel Metabolites and Phospholipid Compositional Rules of Haemophilus influenzae Rd KW20
title_sort multiplatform metabolomics characterization reveals novel metabolites and phospholipid compositional rules of haemophilus influenzae rd kw20
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10342370/
https://www.ncbi.nlm.nih.gov/pubmed/37446331
http://dx.doi.org/10.3390/ijms241311150
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