The impact of single-cell genomics on the field of mycobacterial infection
Genome sequencing projects of humans and other organisms reinforced that the complexity of biological systems is largely attributed to the tight regulation of gene expression at the epigenome and RNA levels. As a consequence, plenty of technological developments arose to increase the sequencing reso...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2022-09-01
|
| Series: | Frontiers in Microbiology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2022.989464/full |
| _version_ | 1818030254632992768 |
|---|---|
| author | Inês Geraldes Inês Geraldes Mónica Fernandes Mónica Fernandes Alexandra G. Fraga Alexandra G. Fraga Nuno S. Osório Nuno S. Osório |
| author_facet | Inês Geraldes Inês Geraldes Mónica Fernandes Mónica Fernandes Alexandra G. Fraga Alexandra G. Fraga Nuno S. Osório Nuno S. Osório |
| author_sort | Inês Geraldes |
| collection | DOAJ |
| description | Genome sequencing projects of humans and other organisms reinforced that the complexity of biological systems is largely attributed to the tight regulation of gene expression at the epigenome and RNA levels. As a consequence, plenty of technological developments arose to increase the sequencing resolution to the cell dimension creating the single-cell genomics research field. Single-cell RNA sequencing (scRNA-seq) is leading the advances in this topic and comprises a vast array of different methodologies. scRNA-seq and its variants are more and more used in life science and biomedical research since they provide unbiased transcriptomic sequencing of large populations of individual cells. These methods go beyond the previous “bulk” methodologies and sculpt the biological understanding of cellular heterogeneity and dynamic transcriptomic states of cellular populations in immunology, oncology, and developmental biology fields. Despite the large burden caused by mycobacterial infections, advances in this field obtained via single-cell genomics had been comparatively modest. Nonetheless, seminal research publications using single-cell transcriptomics to study host cells infected by mycobacteria have become recently available. Here, we review these works summarizing the most impactful findings and emphasizing the different and recent single-cell methodologies used, potential issues, and problems. In addition, we aim at providing insights into current research gaps and potential future developments related to the use of single-cell genomics to study mycobacterial infection. |
| first_indexed | 2024-12-10T05:32:40Z |
| format | Article |
| id | doaj.art-3d60c1c91e79419caeb76f69fb3717f3 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-10T05:32:40Z |
| publishDate | 2022-09-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-3d60c1c91e79419caeb76f69fb3717f32022-12-22T02:00:29ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2022-09-011310.3389/fmicb.2022.989464989464The impact of single-cell genomics on the field of mycobacterial infectionInês Geraldes0Inês Geraldes1Mónica Fernandes2Mónica Fernandes3Alexandra G. Fraga4Alexandra G. Fraga5Nuno S. Osório6Nuno S. Osório7Life and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga, PortugalICVS/3B's—PT Government Associate Laboratory, Braga, PortugalLife and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga, PortugalICVS/3B's—PT Government Associate Laboratory, Braga, PortugalLife and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga, PortugalICVS/3B's—PT Government Associate Laboratory, Braga, PortugalLife and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga, PortugalICVS/3B's—PT Government Associate Laboratory, Braga, PortugalGenome sequencing projects of humans and other organisms reinforced that the complexity of biological systems is largely attributed to the tight regulation of gene expression at the epigenome and RNA levels. As a consequence, plenty of technological developments arose to increase the sequencing resolution to the cell dimension creating the single-cell genomics research field. Single-cell RNA sequencing (scRNA-seq) is leading the advances in this topic and comprises a vast array of different methodologies. scRNA-seq and its variants are more and more used in life science and biomedical research since they provide unbiased transcriptomic sequencing of large populations of individual cells. These methods go beyond the previous “bulk” methodologies and sculpt the biological understanding of cellular heterogeneity and dynamic transcriptomic states of cellular populations in immunology, oncology, and developmental biology fields. Despite the large burden caused by mycobacterial infections, advances in this field obtained via single-cell genomics had been comparatively modest. Nonetheless, seminal research publications using single-cell transcriptomics to study host cells infected by mycobacteria have become recently available. Here, we review these works summarizing the most impactful findings and emphasizing the different and recent single-cell methodologies used, potential issues, and problems. In addition, we aim at providing insights into current research gaps and potential future developments related to the use of single-cell genomics to study mycobacterial infection.https://www.frontiersin.org/articles/10.3389/fmicb.2022.989464/fullsingle-cell RNA sequencing (scRNAseq)mycobacteriatuberculosislepraesingle-cellomics |
| spellingShingle | Inês Geraldes Inês Geraldes Mónica Fernandes Mónica Fernandes Alexandra G. Fraga Alexandra G. Fraga Nuno S. Osório Nuno S. Osório The impact of single-cell genomics on the field of mycobacterial infection Frontiers in Microbiology single-cell RNA sequencing (scRNAseq) mycobacteria tuberculosis leprae single-cell omics |
| title | The impact of single-cell genomics on the field of mycobacterial infection |
| title_full | The impact of single-cell genomics on the field of mycobacterial infection |
| title_fullStr | The impact of single-cell genomics on the field of mycobacterial infection |
| title_full_unstemmed | The impact of single-cell genomics on the field of mycobacterial infection |
| title_short | The impact of single-cell genomics on the field of mycobacterial infection |
| title_sort | impact of single cell genomics on the field of mycobacterial infection |
| topic | single-cell RNA sequencing (scRNAseq) mycobacteria tuberculosis leprae single-cell omics |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2022.989464/full |
| work_keys_str_mv | AT inesgeraldes theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT inesgeraldes theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT monicafernandes theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT monicafernandes theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT alexandragfraga theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT alexandragfraga theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT nunososorio theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT nunososorio theimpactofsinglecellgenomicsonthefieldofmycobacterialinfection AT inesgeraldes impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT inesgeraldes impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT monicafernandes impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT monicafernandes impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT alexandragfraga impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT alexandragfraga impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT nunososorio impactofsinglecellgenomicsonthefieldofmycobacterialinfection AT nunososorio impactofsinglecellgenomicsonthefieldofmycobacterialinfection |