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

Author

Listed:
  • Yasmine Dergham

    (INRAE, AgroParisTech, Micalis Institute
    Lebanese University, Faculty of Science)

  • Dominique Coq

    (INRAE, AgroParisTech, Micalis Institute
    INRAE, AgroParisTech, Micalis Institute)

  • Pierre Nicolas

    (Université Paris-Saclay, INRAE, MAIAGE)

  • Elena Bidnenko

    (INRAE, AgroParisTech, Micalis Institute)

  • Sandra Dérozier

    (Université Paris-Saclay, INRAE, MAIAGE)

  • Maxime Deforet

    (Sorbonne Université, CNRS, Institut de Biologie Paris-Seine, Laboratoire Jean Perrin)

  • Eugénie Huillet

    (INRAE, AgroParisTech, Micalis Institute)

  • Pilar Sanchez-Vizuete

    (INRAE, AgroParisTech, Micalis Institute)

  • Julien Deschamps

    (INRAE, AgroParisTech, Micalis Institute)

  • Kassem Hamze

    (Lebanese University, Faculty of Science)

  • Romain Briandet

    (INRAE, AgroParisTech, Micalis Institute)

Abstract

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.

Suggested Citation

  • Yasmine Dergham & Dominique Coq & Pierre Nicolas & Elena Bidnenko & Sandra Dérozier & Maxime Deforet & Eugénie Huillet & Pilar Sanchez-Vizuete & Julien Deschamps & Kassem Hamze & Romain Briandet, 2023. "Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-43386-w
    DOI: 10.1038/s41467-023-43386-w
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    References listed on IDEAS

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    1. Song Lin Chua & Yang Liu & Joey Kuok Hoong Yam & Yicai Chen & Rebecca Munk Vejborg & Bryan Giin Chyuan Tan & Staffan Kjelleberg & Tim Tolker-Nielsen & Michael Givskov & Liang Yang, 2014. "Dispersed cells represent a distinct stage in the transition from bacterial biofilm to planktonic lifestyles," Nature Communications, Nature, vol. 5(1), pages 1-12, December.
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