ReviewPLoS pathogens2017
Resolving host-pathogen interactions by dual RNA-seq.
Review in PLoS pathogens, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 159 papers, 2 of them syntheses that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
159 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Computational paradigms for antimicrobial resistance prediction: integrating multi-omics, structural modeling, and foundation artificial intelligence systems.Briefings in bioinformatics · 2026Pooled it
- Urinary tract colonization is enhanced by a plasmid that regulates uropathogenic Acinetobacter baumannii chromosomal genes.Nature communications · 2019Pooled it
- Bacterial small RNAs and extracellular vesicles in inflammatory and osteoimmune diseases: regulatory mechanisms and host-microbe communication.Archives of microbiology · 2026Review
- Convergent methodologies in prosthetic joint infection research: integrating transdisciplinary approaches to understand and prevent biofilm-driven failure of orthopaedic prostheses.Journal of medical microbiology · 2026Review
- Multifunctional biological roles of Fusaric acid and its derivatives in the Diverse Kingdoms of Life: Insights from More Than Nine Decades of Research.Pharmaceutical research · 2026Review
- An anaerobic pathogen rewires host metabolism to fuel oxidative growth in the inflamed gut.Cell · 2026Article
- Transcriptome sequence resource for the hazelnut powdery mildew pathogen Erysiphe corylacearum.Scientific data · 2026Article
- Genome concatenation enables accurate dual RNA-seq mapping for lignocellulolytic fungi in coculture.Scientific reports · 2026Article
- Dual-Transcriptome Dissection of the Mechanisms Underlying Alfalfa Phenotypic Differences Induced by Two Rhizobial Isolates.Microorganisms · 2026Article
- Beyond nocardioform: Transcriptionally active microbes and host responses in equine mucoid placentitis.Equine veterinary journal · 2026Article
- CRAGE-RB-PI-seq reveals transcriptional dynamics of plant-associated bacteria during root colonization.Nature communications · 2026Article
- Integrated Gene Regulatory Network Analysis Reveals Coordinated Transcriptional Reprogramming in thePlants (Basel, Switzerland) · 2026Article
- Network-Driven Insights into Plant Immunity: Integrating Transcriptomic and Proteomic Approaches in Plant-Pathogen Interactions.International journal of molecular sciences · 2026Review
- The transcriptome of dendritic cells redraws the boundaries between pathogenicity and commensalism in yeast.Microbial cell (Graz, Austria) · 2026Article
- Facultative mutualism betweenISME communications · 2026Article
- Transcriptional changes related to metabolic and iron acquisition strategies of avian pathogenicFrontiers in cellular and infection microbiology · 2026Article
- Review
- Integrated dual transcriptome sequencing and experimental validation reveal potential mechanisms of baicalin againstFrontiers in microbiology · 2026Article
- Dual transcriptomic analysis unraveling the immune landscape and host-pathogen interactions duringiScience · 2025Article
- Lactic Acid Bacteria Isolated from Traditional Dry-Cured Fermented Foods with Probiotic Effect: Selection, Mechanisms of Action and Applications.Foods (Basel, Switzerland) · 2025Review
99 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The transcriptome is a powerful proxy for the physiological state of a cell, healthy or diseased. As a result, transcriptome analysis has become a key tool in understanding the molecular changes that accompany bacterial infections of eukaryotic cells. Until recently, such transcriptomic studies have been technically limited to analyzing mRNA expression changes in either the bacterial pathogen or the infected eukaryotic host cell. However, the increasing sensitivity of high-throughput RNA sequencing now enables "dual RNA-seq" studies, simultaneously capturing all classes of coding and noncoding transcripts in both the pathogen and the host. In the five years since the concept of dual RNA-seq was introduced, the technique has been applied to a range of infection models. This has not only led to a better understanding of the physiological changes in pathogen and host during the course of an infection but has also revealed hidden molecular phenotypes of virulence-associated small noncoding RNAs that were not visible in standard infection assays. Here, we use the knowledge gained from these recent studies to suggest experimental and computational guidelines for the design of future dual RNA-seq studies. We conclude this review by discussing prospective applications of the technique.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.