Research Information System
in: Systems Biology Approaches for Host-Pathogen Interaction Analysis, Mohd. Tashfeen Ashraf,Abdul Arif Khan,Fahad M. Aldakheel, Editor, Elsevier Science, Oxford/Amsterdam , Massachusetts, pp.190-210, 2024
Recent
developments in high-throughput sequencing-based transcriptomics have expanded
our understanding of host-pathogen interactions over the course of infection.
Taking advantage of high-resolution spatiotemporal transcriptomics, we can
measure simultaneously the expression profile of coding and non-coding genes in
both pathogen and host without the need to physically separate their cells or
RNA. Through this approach, known as “dual transcriptomics” or “RNA-Seq”, a
range of immunological, metabolic and physiological changes can be identified
in both pathogen and host by in-depth analysis of inter-species gene regulatory
networks. For these reasons, dual RNA-Seq has emerged as the high-throughput
method of choice for elucidating the molecular mechanisms underlying
host-pathogen interactions, examining the genetic characteristics of key
virulence genes, assessing whole-body pathogen load and identifying potential
pathways for therapeutic targets. In this chapter, we review the most recent
theoretical and experimental progress in dual RNA-Seq studies, best practices
in analyzing dual RNA-Seq data, emerging applications and ongoing challenges.
This chapter provides a good starting point for researchers interested in
harnessing the potential of dual RNA-Seq.