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Series GSE198433 Query DataSets for GSE198433
Status Public on Jun 21, 2023
Title Paired single-cell host profiling with multiplex-tagged bacterial mutants reveals intracellular virulence-immune networks I
Organism synthetic construct
Experiment type Other
Summary Encounters between host cells and intracellular bacterial pathogens lead to complex phenotypes that determine the outcome of infection. Single-cell RNA-sequencing (scRNA-seq) are increasingly used to study the host factors underlying diverse cellular phenotypes. But current approaches do not permit the simultaneous unbiased study of both host and bacterial factors during infection. Here, we developed scPAIR-seq, an approach to analyze both host and pathogen factors during infection by combining multiplex-tagged mutant bacterial library with scRNA-seq to identify mutant-specific changes in host transcriptomes. We applied scPAIR-seq to macrophages infected with a library of Salmonella Typhimurium secretion system effector mutants. We developed a pipeline to independently analyze redundancy between effectors and mutant-specific unique fingerprints, and mapped the global virulence network of each individual effector by its impact on host immune pathways. ScPAIR-seq is a powerful tool to untangle bacterial virulence strategies and their complex interplay with host defense strategies that drive infection outcome.
 
Overall design Examination of specific detection of tagged bacterial mutants from pooled bacterial culture
 
Contributor(s) Heyman O, Yehezkel D, Blumberger N, Rosenberg G, Mattioli CC, Solomon A, Hoffman D, Ben-Moshe NB, Avraham R
Citation(s) 37399397
Submission date Mar 11, 2022
Last update date Oct 31, 2023
Contact name Noa Bossel Ben-Moshe
Organization name Weizmann
Street address Hertzl Street
City Rehovot
ZIP/Postal code 76100
Country Israel
 
Platforms (1)
GPL19424 Illumina NextSeq 500 (synthetic construct)
Samples (1)
GSM5946813 SPI2_mut_pool
This SubSeries is part of SuperSeries:
GSE198728 Paired single-cell host profiling with multiplex-tagged bacterial mutants reveals intracellular virulence-immune networks
Relations
BioProject PRJNA815293

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE198433_RAW.tar 10.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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