Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure
Abstract Biofilm formation is an important mechanism of survival and persistence for many bacterial pathogens. These multicellular communities contain subpopulations of cells that display metabolic and transcriptional diversity along with recalcitrance to antibiotics and host immune defenses. Here,...
Saved in:
| Main Authors: | , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2024-11-01
|
| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-024-54581-8 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850129308307161088 |
|---|---|
| author | Lee E. Korshoj Tammy Kielian |
| author_facet | Lee E. Korshoj Tammy Kielian |
| author_sort | Lee E. Korshoj |
| collection | DOAJ |
| description | Abstract Biofilm formation is an important mechanism of survival and persistence for many bacterial pathogens. These multicellular communities contain subpopulations of cells that display metabolic and transcriptional diversity along with recalcitrance to antibiotics and host immune defenses. Here, we present an optimized bacterial single-cell RNA sequencing method, BaSSSh-seq, to study Staphylococcus aureus diversity during biofilm growth and transcriptional adaptations following immune cell exposure. BaSSSh-seq captures extensive transcriptional heterogeneity during biofilm compared to planktonic growth. We quantify and visualize transcriptional regulatory networks across heterogeneous biofilm subpopulations and identify gene sets that are associated with a trajectory from planktonic to biofilm growth. BaSSSh-seq also detects alterations in biofilm metabolism, stress response, and virulence induced by distinct immune cell populations. This work facilitates the exploration of biofilm dynamics at single-cell resolution, unlocking the potential for identifying biofilm adaptations to environmental signals and immune pressure. |
| format | Article |
| id | doaj-art-2d2976da176f492aa4149d8dd0474b1e |
| institution | OA Journals |
| issn | 2041-1723 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj-art-2d2976da176f492aa4149d8dd0474b1e2025-08-20T02:33:02ZengNature PortfolioNature Communications2041-17232024-11-0115112510.1038/s41467-024-54581-8Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressureLee E. Korshoj0Tammy Kielian1Department of Pathology, Microbiology, and Immunology, University of Nebraska Medical CenterDepartment of Pathology, Microbiology, and Immunology, University of Nebraska Medical CenterAbstract Biofilm formation is an important mechanism of survival and persistence for many bacterial pathogens. These multicellular communities contain subpopulations of cells that display metabolic and transcriptional diversity along with recalcitrance to antibiotics and host immune defenses. Here, we present an optimized bacterial single-cell RNA sequencing method, BaSSSh-seq, to study Staphylococcus aureus diversity during biofilm growth and transcriptional adaptations following immune cell exposure. BaSSSh-seq captures extensive transcriptional heterogeneity during biofilm compared to planktonic growth. We quantify and visualize transcriptional regulatory networks across heterogeneous biofilm subpopulations and identify gene sets that are associated with a trajectory from planktonic to biofilm growth. BaSSSh-seq also detects alterations in biofilm metabolism, stress response, and virulence induced by distinct immune cell populations. This work facilitates the exploration of biofilm dynamics at single-cell resolution, unlocking the potential for identifying biofilm adaptations to environmental signals and immune pressure.https://doi.org/10.1038/s41467-024-54581-8 |
| spellingShingle | Lee E. Korshoj Tammy Kielian Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure Nature Communications |
| title | Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure |
| title_full | Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure |
| title_fullStr | Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure |
| title_full_unstemmed | Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure |
| title_short | Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure |
| title_sort | bacterial single cell rna sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure |
| url | https://doi.org/10.1038/s41467-024-54581-8 |
| work_keys_str_mv | AT leeekorshoj bacterialsinglecellrnasequencingcapturesbiofilmtranscriptionalheterogeneityanddifferentialresponsestoimmunepressure AT tammykielian bacterialsinglecellrnasequencingcapturesbiofilmtranscriptionalheterogeneityanddifferentialresponsestoimmunepressure |