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Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species
Proteogenomic methodologies have enabled the identification of protein sequences in wild species without annotated genomes, shedding light on molecular mechanisms affected by pollution. However, proteomic resources for sentinel species are limited, and organ-level investigations are necessary to exp...
Autores principales: | , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10514328/ https://www.ncbi.nlm.nih.gov/pubmed/37735452 http://dx.doi.org/10.1038/s41597-023-02545-w |
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author | Leprêtre, Maxime Degli Esposti, Davide Sugier, Kevin Espeyte, Anabelle Gaillard, Jean-Charles Delorme, Nicolas Duflot, Aurélie Bonnard, Isabelle Coulaud, Romain Boulangé-Lecomte, Céline Xuereb, Benoît Palos Ladeiro, Mélissa Geffard, Alain Geffard, Olivier Armengaud, Jean Chaumot, Arnaud |
author_facet | Leprêtre, Maxime Degli Esposti, Davide Sugier, Kevin Espeyte, Anabelle Gaillard, Jean-Charles Delorme, Nicolas Duflot, Aurélie Bonnard, Isabelle Coulaud, Romain Boulangé-Lecomte, Céline Xuereb, Benoît Palos Ladeiro, Mélissa Geffard, Alain Geffard, Olivier Armengaud, Jean Chaumot, Arnaud |
author_sort | Leprêtre, Maxime |
collection | PubMed |
description | Proteogenomic methodologies have enabled the identification of protein sequences in wild species without annotated genomes, shedding light on molecular mechanisms affected by pollution. However, proteomic resources for sentinel species are limited, and organ-level investigations are necessary to expand our understanding of their molecular biology. This study presents proteomic resources obtained from proteogenomic analyses of key organs (hepatopancreas, gills, hemolymph) from three established aquatic sentinel invertebrate species of interest in ecotoxicological/ecological research and environmental monitoring: Gammarus fossarum, Dreissena polymorpha, and Palaemon serratus. Proteogenomic analyses identified thousands of proteins for each species, with over 90% of them being annotated to putative function. Functional analysis validated the relevance of the proteomic atlases by revealing similarities in functional annotation of catalogues of proteins across analogous organs in the three species, while deep contrasts between functional profiles are delimited across different organs in the same organism. These organ-level proteomic atlases are crucial for future research on these sentinel animals, aiding in the evaluation of aquatic environmental risks and providing a valuable resource for ecotoxicological studies. |
format | Online Article Text |
id | pubmed-10514328 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-105143282023-09-23 Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species Leprêtre, Maxime Degli Esposti, Davide Sugier, Kevin Espeyte, Anabelle Gaillard, Jean-Charles Delorme, Nicolas Duflot, Aurélie Bonnard, Isabelle Coulaud, Romain Boulangé-Lecomte, Céline Xuereb, Benoît Palos Ladeiro, Mélissa Geffard, Alain Geffard, Olivier Armengaud, Jean Chaumot, Arnaud Sci Data Data Descriptor Proteogenomic methodologies have enabled the identification of protein sequences in wild species without annotated genomes, shedding light on molecular mechanisms affected by pollution. However, proteomic resources for sentinel species are limited, and organ-level investigations are necessary to expand our understanding of their molecular biology. This study presents proteomic resources obtained from proteogenomic analyses of key organs (hepatopancreas, gills, hemolymph) from three established aquatic sentinel invertebrate species of interest in ecotoxicological/ecological research and environmental monitoring: Gammarus fossarum, Dreissena polymorpha, and Palaemon serratus. Proteogenomic analyses identified thousands of proteins for each species, with over 90% of them being annotated to putative function. Functional analysis validated the relevance of the proteomic atlases by revealing similarities in functional annotation of catalogues of proteins across analogous organs in the three species, while deep contrasts between functional profiles are delimited across different organs in the same organism. These organ-level proteomic atlases are crucial for future research on these sentinel animals, aiding in the evaluation of aquatic environmental risks and providing a valuable resource for ecotoxicological studies. Nature Publishing Group UK 2023-09-21 /pmc/articles/PMC10514328/ /pubmed/37735452 http://dx.doi.org/10.1038/s41597-023-02545-w Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Data Descriptor Leprêtre, Maxime Degli Esposti, Davide Sugier, Kevin Espeyte, Anabelle Gaillard, Jean-Charles Delorme, Nicolas Duflot, Aurélie Bonnard, Isabelle Coulaud, Romain Boulangé-Lecomte, Céline Xuereb, Benoît Palos Ladeiro, Mélissa Geffard, Alain Geffard, Olivier Armengaud, Jean Chaumot, Arnaud Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
title | Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
title_full | Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
title_fullStr | Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
title_full_unstemmed | Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
title_short | Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
title_sort | organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species |
topic | Data Descriptor |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10514328/ https://www.ncbi.nlm.nih.gov/pubmed/37735452 http://dx.doi.org/10.1038/s41597-023-02545-w |
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