LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation
Abstract Accurate lipid annotation is crucial for understanding the role of lipids in health and disease and identifying therapeutic targets. However, annotating the wide variety of lipid species in biological samples remains challenging in untargeted lipidomic studies. In this work, we present a li...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2024-01-01
|
| Series: | Communications Biology |
| Online Access: | https://doi.org/10.1038/s42003-023-05680-7 |
| _version_ | 1797362974270160896 |
|---|---|
| author | Belén Fernández Requena Sajid Nadeem Vineel P. Reddy Vanessa Naidoo Joel N. Glasgow Adrie J. C. Steyn Coral Barbas Carolina Gonzalez-Riano |
| author_facet | Belén Fernández Requena Sajid Nadeem Vineel P. Reddy Vanessa Naidoo Joel N. Glasgow Adrie J. C. Steyn Coral Barbas Carolina Gonzalez-Riano |
| author_sort | Belén Fernández Requena |
| collection | DOAJ |
| description | Abstract Accurate lipid annotation is crucial for understanding the role of lipids in health and disease and identifying therapeutic targets. However, annotating the wide variety of lipid species in biological samples remains challenging in untargeted lipidomic studies. In this work, we present a lipid annotation workflow based on LC-MS and MS/MS strategies, the combination of four bioinformatic tools, and a decision tree to support the accurate annotation and semi-quantification of the lipid species present in lung tissue from control mice. The proposed workflow allowed us to generate a lipid lung-based ATLAS (LiLA), which was then employed to unveil the lipidomic signatures of the Mycobacterium tuberculosis infection at two different time points for a deeper understanding of the disease progression. This workflow, combined with manual inspection strategies of MS/MS data, can enhance the annotation process for lipidomic studies and guide the generation of sample-specific lipidome maps. LiLA serves as a freely available data resource that can be employed in future studies to address lipidomic alterations in mice lung tissue. |
| first_indexed | 2024-03-08T16:14:45Z |
| format | Article |
| id | doaj.art-d27ebf910c40418eb18bdda32715c24a |
| institution | Directory Open Access Journal |
| issn | 2399-3642 |
| language | English |
| last_indexed | 2024-03-08T16:14:45Z |
| publishDate | 2024-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Communications Biology |
| spelling | doaj.art-d27ebf910c40418eb18bdda32715c24a2024-01-07T12:40:08ZengNature PortfolioCommunications Biology2399-36422024-01-017111610.1038/s42003-023-05680-7LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotationBelén Fernández Requena0Sajid Nadeem1Vineel P. Reddy2Vanessa Naidoo3Joel N. Glasgow4Adrie J. C. Steyn5Coral Barbas6Carolina Gonzalez-Riano7Centro de Metabolómica y Bioanálisis (CEMBIO), Facultad de Farmacia, Universidad San Pablo-CEU, CEU Universities, Urbanización MontepríncipeDepartment of Microbiology, University of Alabama at BirminghamDepartment of Microbiology, University of Alabama at BirminghamAfrica Health Research InstituteDepartment of Microbiology, University of Alabama at BirminghamDepartment of Microbiology, University of Alabama at BirminghamCentro de Metabolómica y Bioanálisis (CEMBIO), Facultad de Farmacia, Universidad San Pablo-CEU, CEU Universities, Urbanización MontepríncipeCentro de Metabolómica y Bioanálisis (CEMBIO), Facultad de Farmacia, Universidad San Pablo-CEU, CEU Universities, Urbanización MontepríncipeAbstract Accurate lipid annotation is crucial for understanding the role of lipids in health and disease and identifying therapeutic targets. However, annotating the wide variety of lipid species in biological samples remains challenging in untargeted lipidomic studies. In this work, we present a lipid annotation workflow based on LC-MS and MS/MS strategies, the combination of four bioinformatic tools, and a decision tree to support the accurate annotation and semi-quantification of the lipid species present in lung tissue from control mice. The proposed workflow allowed us to generate a lipid lung-based ATLAS (LiLA), which was then employed to unveil the lipidomic signatures of the Mycobacterium tuberculosis infection at two different time points for a deeper understanding of the disease progression. This workflow, combined with manual inspection strategies of MS/MS data, can enhance the annotation process for lipidomic studies and guide the generation of sample-specific lipidome maps. LiLA serves as a freely available data resource that can be employed in future studies to address lipidomic alterations in mice lung tissue.https://doi.org/10.1038/s42003-023-05680-7 |
| spellingShingle | Belén Fernández Requena Sajid Nadeem Vineel P. Reddy Vanessa Naidoo Joel N. Glasgow Adrie J. C. Steyn Coral Barbas Carolina Gonzalez-Riano LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation Communications Biology |
| title | LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation |
| title_full | LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation |
| title_fullStr | LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation |
| title_full_unstemmed | LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation |
| title_short | LiLA: lipid lung-based ATLAS built through a comprehensive workflow designed for an accurate lipid annotation |
| title_sort | lila lipid lung based atlas built through a comprehensive workflow designed for an accurate lipid annotation |
| url | https://doi.org/10.1038/s42003-023-05680-7 |
| work_keys_str_mv | AT belenfernandezrequena lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT sajidnadeem lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT vineelpreddy lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT vanessanaidoo lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT joelnglasgow lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT adriejcsteyn lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT coralbarbas lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation AT carolinagonzalezriano lilalipidlungbasedatlasbuiltthroughacomprehensiveworkflowdesignedforanaccuratelipidannotation |