Research Topic

Single cell RNA-seq analysis of host-virus interaction

About this Research Topic

Host-virus interplay is affected by viral and cellular heterogeneity. Viral heterogeneity (including viral quasispecies as well as mixtures of competent and defective viral particles) can impact the infection ability of a viral population. Similarly, cellular heterogeneity (including differences in composition, cell metabolism or activation status) result in specific cellular environments that are critical for virus progression and the success of antiviral treatments. In this context, identifying viral and cellular heterogeneity is key to dissect complex host- virus interactions. In recent years, single cell transcriptome analysis (scRNA-seq) has been applied to uncover cellular heterogeneity by unbiased classification of individual cells, based on specific transcriptomic signatures.

Therefore, as opposed to bulk cell analyses that may mask rare cell phenotypes and could be difficult to interpret; scRNA-seq has a unique potential to profile both cellular and viral transcriptomes of infected and uninfected cells. Consequently, this cutting-edge technology offers a unique opportunity to identify specific cellular and molecular features promoting or restricting virus replication, to investigate the factors underlying differential clinical outcomes to a given virus across individuals or even different species; and ultimately to discover new targets to inhibit viral spread. Altogether, dissecting host-virus interactions to the level of individual cells will allow to greatly advance in our understanding of viral infections, including emerging viruses such as SARS-CoV2 that recently became a major threat to human health.

Single cell analysis of host-virus interactions is a topic of wide interest across virology, immunology, molecular biology, drug discovery and computational biology. This Research Topic aims to connect researchers with different scientific backgrounds with the common interest of using scRNA-seq to:
(a) identify novel host factors dictating viral tropism and/or playing key roles in shaping the fate of the infection
(b) identify novel roles and functions of immune cells in restricting viral replication;
(c) dissect the kinetic of viral spread across different cell types; and
(d) highlight the use of computational and bioinformatics methods in viral immunology.

We encourage the submission of both Original Research and Review articles on scRNA-seq analysis applied to study, both the immune and non-immune cell repertoire, in the context of viral infections. Computational and bioinformatics Original Research articles are also welcomed.


Keywords: scRNA, RNA sequencing, single cell, host-virus, virus, RNA-Seq analysis, immunology, immune cells, transcriptome, signature, Viruses, Zoonoses, Single cell transcriptomics, Barcoding, Antiviral immune response, Viral tropism, Host-derived targets, Antiviral therapy, Antiviral drug discovery


Important Note: All contributions to this Research Topic must be within the scope of the section and journal to which they are submitted, as defined in their mission statements. Frontiers reserves the right to guide an out-of-scope manuscript to a more suitable section or journal at any stage of peer review.

Host-virus interplay is affected by viral and cellular heterogeneity. Viral heterogeneity (including viral quasispecies as well as mixtures of competent and defective viral particles) can impact the infection ability of a viral population. Similarly, cellular heterogeneity (including differences in composition, cell metabolism or activation status) result in specific cellular environments that are critical for virus progression and the success of antiviral treatments. In this context, identifying viral and cellular heterogeneity is key to dissect complex host- virus interactions. In recent years, single cell transcriptome analysis (scRNA-seq) has been applied to uncover cellular heterogeneity by unbiased classification of individual cells, based on specific transcriptomic signatures.

Therefore, as opposed to bulk cell analyses that may mask rare cell phenotypes and could be difficult to interpret; scRNA-seq has a unique potential to profile both cellular and viral transcriptomes of infected and uninfected cells. Consequently, this cutting-edge technology offers a unique opportunity to identify specific cellular and molecular features promoting or restricting virus replication, to investigate the factors underlying differential clinical outcomes to a given virus across individuals or even different species; and ultimately to discover new targets to inhibit viral spread. Altogether, dissecting host-virus interactions to the level of individual cells will allow to greatly advance in our understanding of viral infections, including emerging viruses such as SARS-CoV2 that recently became a major threat to human health.

Single cell analysis of host-virus interactions is a topic of wide interest across virology, immunology, molecular biology, drug discovery and computational biology. This Research Topic aims to connect researchers with different scientific backgrounds with the common interest of using scRNA-seq to:
(a) identify novel host factors dictating viral tropism and/or playing key roles in shaping the fate of the infection
(b) identify novel roles and functions of immune cells in restricting viral replication;
(c) dissect the kinetic of viral spread across different cell types; and
(d) highlight the use of computational and bioinformatics methods in viral immunology.

We encourage the submission of both Original Research and Review articles on scRNA-seq analysis applied to study, both the immune and non-immune cell repertoire, in the context of viral infections. Computational and bioinformatics Original Research articles are also welcomed.


Keywords: scRNA, RNA sequencing, single cell, host-virus, virus, RNA-Seq analysis, immunology, immune cells, transcriptome, signature, Viruses, Zoonoses, Single cell transcriptomics, Barcoding, Antiviral immune response, Viral tropism, Host-derived targets, Antiviral therapy, Antiviral drug discovery


Important Note: All contributions to this Research Topic must be within the scope of the section and journal to which they are submitted, as defined in their mission statements. Frontiers reserves the right to guide an out-of-scope manuscript to a more suitable section or journal at any stage of peer review.

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Submission Deadlines

06 December 2020 Manuscript
10 January 2021 Manuscript Extension

Participating Journals

Manuscripts can be submitted to this Research Topic via the following journals:

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Topic Editors

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Submission Deadlines

06 December 2020 Manuscript
10 January 2021 Manuscript Extension

Participating Journals

Manuscripts can be submitted to this Research Topic via the following journals:

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