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Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities

Bacillus subtilis can form various types of spatially organised communities on surfaces, such as colonies, pellicles and submerged biofilms. These communities share similarities and differences, and phenotypic heterogeneity has been reported for each type of community. Here, we studied spatial trans...

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Autores principales: Dergham, Yasmine, Le Coq, Dominique, Nicolas, Pierre, Bidnenko, Elena, Dérozier, Sandra, Deforet, Maxime, Huillet, Eugénie, Sanchez-Vizuete, Pilar, Deschamps, Julien, Hamze, Kassem, Briandet, Romain
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10661151/
https://www.ncbi.nlm.nih.gov/pubmed/37985771
http://dx.doi.org/10.1038/s41467-023-43386-w
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author Dergham, Yasmine
Le Coq, Dominique
Nicolas, Pierre
Bidnenko, Elena
Dérozier, Sandra
Deforet, Maxime
Huillet, Eugénie
Sanchez-Vizuete, Pilar
Deschamps, Julien
Hamze, Kassem
Briandet, Romain
author_facet Dergham, Yasmine
Le Coq, Dominique
Nicolas, Pierre
Bidnenko, Elena
Dérozier, Sandra
Deforet, Maxime
Huillet, Eugénie
Sanchez-Vizuete, Pilar
Deschamps, Julien
Hamze, Kassem
Briandet, Romain
author_sort Dergham, Yasmine
collection PubMed
description Bacillus subtilis can form various types of spatially organised communities on surfaces, such as colonies, pellicles and submerged biofilms. These communities share similarities and differences, and phenotypic heterogeneity has been reported for each type of community. Here, we studied spatial transcriptional heterogeneity across the three types of surface-associated communities. Using RNA-seq analysis of different regions or populations for each community type, we identified genes that are specifically expressed within each selected population. We constructed fluorescent transcriptional fusions for 17 of these genes, and observed their expression in submerged biofilms using time-lapse confocal laser scanning microscopy (CLSM). We found mosaic expression patterns for some genes; in particular, we observed spatially segregated cells displaying opposite regulation of carbon metabolism genes (gapA and gapB), indicative of distinct glycolytic or gluconeogenic regimes coexisting in the same biofilm region. Overall, our study provides a direct comparison of spatial transcriptional heterogeneity, at different scales, for the three main models of B. subtilis surface-associated communities.
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spelling pubmed-106611512023-11-20 Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities Dergham, Yasmine Le Coq, Dominique Nicolas, Pierre Bidnenko, Elena Dérozier, Sandra Deforet, Maxime Huillet, Eugénie Sanchez-Vizuete, Pilar Deschamps, Julien Hamze, Kassem Briandet, Romain Nat Commun Article Bacillus subtilis can form various types of spatially organised communities on surfaces, such as colonies, pellicles and submerged biofilms. These communities share similarities and differences, and phenotypic heterogeneity has been reported for each type of community. Here, we studied spatial transcriptional heterogeneity across the three types of surface-associated communities. Using RNA-seq analysis of different regions or populations for each community type, we identified genes that are specifically expressed within each selected population. We constructed fluorescent transcriptional fusions for 17 of these genes, and observed their expression in submerged biofilms using time-lapse confocal laser scanning microscopy (CLSM). We found mosaic expression patterns for some genes; in particular, we observed spatially segregated cells displaying opposite regulation of carbon metabolism genes (gapA and gapB), indicative of distinct glycolytic or gluconeogenic regimes coexisting in the same biofilm region. Overall, our study provides a direct comparison of spatial transcriptional heterogeneity, at different scales, for the three main models of B. subtilis surface-associated communities. Nature Publishing Group UK 2023-11-20 /pmc/articles/PMC10661151/ /pubmed/37985771 http://dx.doi.org/10.1038/s41467-023-43386-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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Dergham, Yasmine
Le Coq, Dominique
Nicolas, Pierre
Bidnenko, Elena
Dérozier, Sandra
Deforet, Maxime
Huillet, Eugénie
Sanchez-Vizuete, Pilar
Deschamps, Julien
Hamze, Kassem
Briandet, Romain
Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities
title Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities
title_full Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities
title_fullStr Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities
title_full_unstemmed Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities
title_short Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities
title_sort direct comparison of spatial transcriptional heterogeneity across diverse bacillus subtilis biofilm communities
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10661151/
https://www.ncbi.nlm.nih.gov/pubmed/37985771
http://dx.doi.org/10.1038/s41467-023-43386-w
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