ArticleGenome research2011
Transcript amplification from single bacterium for transcriptome analysis.
Article in Genome research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 67 papers.
What it found
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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.
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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.
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Who cites it
67 citing papers in PubMed, 124 citations in OpenAlex.
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- Highly multiplexed spatial transcriptomics in bacteria.Science (New York, N.Y.) · 2025Article
- Dual spatial host-bacterial gene expression in Mycobacterium abscessus respiratory infections.Communications biology · 2024Article
- Highly Multiplexed Spatial Transcriptomics in Bacteria.bioRxiv : the preprint server for biology · 2024Article
- The Advancement and Application of the Single-Cell Transcriptome in Biological and Medical Research.Biology · 2024Review
- Dual RNA-seq in filarial nematodes andFrontiers in microbiology · 2024Article
- Targeted rRNA depletion enables efficient mRNA sequencing in diverse bacterial species and complex co-cultures.mSystems · 2023Article
- Bacterial single-cell transcriptomics: Recent technical advances and future applications in dentistry.The Japanese dental science review · 2023Review
- Model-Based Causal Discovery for Zero-Inflated Count Data.Journal of machine learning research : JMLR · 2023Article
- Interfacing microfluidics with information-rich detection systems for cells, bioparticles, and molecules.Analytical and bioanalytical chemistry · 2022Review
- Review
- mDrop-Seq: Massively Parallel Single-Cell RNA-Seq ofVaccines · 2021Article
- Single-Cell Technologies to Study Phenotypic Heterogeneity and Bacterial Persisters.Microorganisms · 2021Review
- RiboRid: A low cost, advanced, and ultra-efficient method to remove ribosomal RNA for bacterial transcriptomics.PLoS genetics · 2021Article
- Single-cell RNA sequencing in Drosophila: Technologies and applications.Wiley interdisciplinary reviews. Developmental biology · 2021Review
- The Burkholderia pseudomallei intracellular 'TRANSITome'.Nature communications · 2021Article
- Single-cell measurement of plasmid copy number and promoter activity.Nature communications · 2021Article
- Microbial single-cell RNA sequencing by split-pool barcoding.Science (New York, N.Y.) · 2021Article
7 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
6 authors at 2 institutions in 1 country.
Funding
Abstract
Total transcript amplification (TTA) from single eukaryotic cells for transcriptome analysis is established, but TTA from a single prokaryotic cell presents additional challenges with much less starting material, the lack of poly(A)-tails, and the fact that the messages can be polycistronic. Here, we describe a novel method for single-bacterium TTA using a model organism, Burkholderia thailandensis, exposed to a subinhibitory concentration of the antibacterial agent, glyphosate. Utilizing a B. thailandensis microarray to assess the TTA method showed low fold-change bias (less than twofold difference and Pearson correlation coefficient R ≈ 0.87-0.89) and drop-outs (4%-6% of 2842 detectable genes), compared with data obtained from the larger-scale nonamplified RNA samples. Further analysis of the microarray data suggests that B. thailandensis, when exposed to the aromatic amino acid biosynthesis inhibitor glyphosate, induces (or represses) genes to possibly recuperate and balance the intracellular amino acid pool. We validated our single-cell microarray data at the multi-cell and single-cell levels with lacZ and gfp reporter-gene fusions, respectively. Sanger sequencing of 192 clones generated from the TTA product of a single cell, with and without enrichment by elimination of rRNA and tRNA, detected only B. thailandensis sequences with no contamination. These data indicate that RNA-seq of TTA from a single cell is possible using this novel method.
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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.