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  • Probe-based bacterial single-cell RNA sequencing predicts . . .
    ProBac-seq is a method that uses libraries of DNA probes and commercial microfluidics for single-cell RNA-seq, leveraged here to show heterogeneous gene expression in clonal bacterial cultures
  • Bacterial droplet-based single-cell RNA-seq reveals . . . - PubMed
    We introduce BacDrop, a highly scalable technology for bacterial single-cell RNA sequencing that has overcome many challenges hindering the development of scRNA-seq in bacteria BacDrop can be applied to thousands to millions of cells from both gram-negative and gram-positive species It features un …
  • Bacterial droplet-based single-cell RNA-seq reveals . . .
    BacDrop is a droplet-based technology for single-cell RNA-seq in bacteria that can be scaled to millions of bacterial cells or hundreds of samples and was used to elucidate transcriptionally distinct bacterial subpopulations associated with varying phenotypic outcomes linked to antibiotic resistance and persistence
  • Identification of intracellular bacteria from multiple single . . .
    Funding: Support from CCR Single-Cell Analysis Facility for single-cell RNA-seq captures, library preparation, sequencing, and primary data processing was funded by FNLCR contract 75N91019D00024 This work used the computational resources of the NIH HPC Biowulf cluster
  • Single-Cell RNA Sequencing Elucidates the Structure and . . .
    (A) Comparison of the challenges in applying scRNA-seq to bacterial cells Bacterial cells have non-poly-adenylated mRNA transcripts, a low mRNA content, a short half-life, and a high percentage of rRNA composing their transcriptome and have diverse, thick cell walls which make permeabilization difficult (B) Studies that have addressed challenges to apply scRNA-seq to bacteria
  • Bacterial single cell RNA-seq reveals antibiotic resistance . . .
    Single cell analysis of 9,748 bacteria cells again revealed MGE-driven subpopulations: in this case, three unique cell clusters defined by expression of three different transposon genes, IS4321 family transposase (195 cells, 2%), insH transposase (146 cells, 1 5%), and IS110 family transposase (133 cells, 1 4%) With this high-resolution view
  • Microbial single-cell RNA sequencing by split-pool barcoding
    Single-cell RNA sequencing (scRNA-seq) has become an essential tool for characterizing gene expression in eukaryotes, but current methods are incompatible with bacteria Here, we introduce microSPLiT (microbial split-pool ligation transcriptomics), a high-throughput scRNA-seq method for Gram-negative and Gram-positive bacteria that can resolve
  • Bacterial single-cell RNA sequencing captures biofilm . . .
    Here, we present an optimized bacterial single-cell RNA sequencing method, BaSSSh-seq, to study Staphylococcus aureus diversity during biofilm growth and transcriptional adaptations following
  • Frontiers | A Novel Single Cell RNA-seq Analysis of Non . . .
    A Novel Single Cell RNA-seq Analysis of Non-Myeloid Circulating Cells in Late Sepsis Dijoia B Darden 1 Xiaoru Dong 2 Maigan A Brusko 3 Lauren Kelly 1 Brittany Fenner 1 Jaimar C Rincon 1 Marvin L Dirain 1 Ricardo Ungaro 1 Dina C Nacionales 1 Marie Gauthier 4 Michael Kladde 4 Todd M Brusko 3 Azra Bihorac 5 Frederick A Moore 1 Tyler Loftus
  • Microbial single-cell RNA sequencing by split-pool barcoding
    Single-cell RNA sequencing (scRNA-seq) has become an essential tool for characterizing gene expression in eukaryotes, but current methods are incompatible with bacteria Here, we introduce microSPLiT (microbial split-pool ligation transcriptomics), a high-throughput scRNA-seq method for Gram-negative and Gram-positive bacteria that can resolve





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