Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells.
Yuichi Taniguchi,Paul J. Choi,Gene-Wei Li,Huiyi Chen,Mohan Babu,Jeremy Hearn,Andrew Emili,X. Sunney Xie +7 more
Reads0
Chats0
TLDR
System-wide analyses of protein and mRNA expression in individual cells with single-molecule sensitivity using a newly constructed yellow fluorescent protein fusion library for Escherichia coli found that almost all protein number distributions can be described by the gamma distribution with two fitting parameters which, at low expression levels, have clear physical interpretations as the transcription rate and protein burst size.Abstract:
Protein and messenger RNA (mRNA) copy numbers vary from cell to cell in isogenic bacterial populations. However, these molecules often exist in low copy numbers and are difficult to detect in single cells. We carried out quantitative system-wide analyses of protein and mRNA expression in individual cells with single-molecule sensitivity using a newly constructed yellow fluorescent protein fusion library for Escherichia coli. We found that almost all protein number distributions can be described by the gamma distribution with two fitting parameters which, at low expression levels, have clear physical interpretations as the transcription rate and protein burst size. At high expression levels, the distributions are dominated by extrinsic noise. We found that a single cell's protein and mRNA copy numbers for any given gene are uncorrelated.read more
Citations
More filters
Journal ArticleDOI
Protein-to-mRNA Ratios Are Conserved between Pseudomonas aeruginosa Strains
TL;DR: This work systematically investigated the transcriptome and proteome of two closely related Pseudomonas aeruginosa strains, PAO1 and PA14, under identical experimental conditions, thus controlling for environmental effects and found that several metabolic, virulence, and antibiotic resistance genes are differentially expressed between the two strains.
Journal ArticleDOI
Systems-level effects of ectopic galectin-7 reconstitution in cervical cancer and its microenvironment
Juan Carlos Higareda-Almaraz,Juan Sebastian Ruiz-Moreno,Juan Sebastian Ruiz-Moreno,Jana Klimentova,Daniela Barbieri,Raquel Salvador-Gallego,Raquel Salvador-Gallego,Regina Ly,Ilse A. Valtierra-Gutiérrez,Christiane Dinsart,Gabriel A. Rabinovich,Jiri Stulik,Frank Rösl,Bladimiro Rincon-Orozco,Bladimiro Rincon-Orozco +14 more
TL;DR: Gal-7 re-expression affects the regulation of molecular networks in cervical cancer that are involved in diverse cancer hallmarks, such as metabolism, growth control, invasion and evasion of apoptosis, where networks involved in its configuration and in immune surveillance are particularly affected.
BookDOI
Preface.Pathogenesis of Mycobacterium tuberculosis and its interaction with the host organism.
Jean Pieters,John D. McKinney +1 more
TL;DR: A Single-Cell Perspective on Non-Growing but Metabolically Active (NGMA) Bacteria Giulia Manina and John D. McKinney Mycobacterium tuberculosis Metabolism and Host Interaction: Mysteries and Paradoxes Sabine Ehrt and Kyu Rhee Surviving the Macrophage: Tools and Tricks Employed by MyCobacterial Protein Secretion as discussed by the authors.
Journal ArticleDOI
Mitochondria and the non-genetic origins of cell-to-cell variability: More is different
TL;DR: How differences in the mitochondrial content of each cell contribute to heterogeneity in gene products is discussed, which ultimately leads to phenotypic diversity.
Journal ArticleDOI
Noise in bacterial gene expression
TL;DR: Noise within gene expression is influenced by a combination of both intrinsic and extrinsic factors, and mechanistic understanding of this process at the molecular level is still rather limited.
References
More filters
疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A
TL;DR: PfPMP1)与感染红细胞、树突状组胞以及胎盘的单个或多个受体作用,在黏附及免疫逃避中起关键的作�ly.
Journal ArticleDOI
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection.
Tomoya Baba,Takeshi Ara,Miki Hasegawa,Yuki Takai,Yoshiko Okumura,Miki Baba,Kirill A. Datsenko,Masaru Tomita,Barry L. Wanner,Hirotada Mori,Hirotada Mori +10 more
TL;DR: These mutants—the ‘Keio collection’—provide a new resource not only for systematic analyses of unknown gene functions and gene regulatory networks but also for genome‐wide testing of mutational effects in a common strain background, E. coli K‐12 BW25113.
Journal ArticleDOI
Stochastic Gene Expression in a Single Cell
TL;DR: This work constructed strains of Escherichia coli that enable detection of noise and discrimination between the two mechanisms by which it is generated and reveals how low intracellular copy numbers of molecules can fundamentally limit the precision of gene regulation.
Journal ArticleDOI
Global analysis of protein localization in budding yeast
Won-Ki Huh,James V. Falvo,Luke C. Gerke,Adam S. Carroll,Russell W. Howson,Jonathan S. Weissman,Erin K. O'Shea +6 more
TL;DR: The construction and analysis of a collection of yeast strains expressing full-length, chromosomally tagged green fluorescent protein fusion proteins helps reveal the logic of transcriptional co-regulation, and provides a comprehensive view of interactions within and between organelles in eukaryotic cells.
Journal ArticleDOI
Fabrication of microfluidic systems in poly(dimethylsiloxane)
J.C. McDonald,David C. Duffy,Janelle R. Anderson,Daniel T. Chiu,Hongkai Wu,Olivier Schueller,George M. Whitesides +6 more
TL;DR: Fabrication of microfluidic devices in poly(dimethylsiloxane) (PDMS) by soft lithography provides faster, less expensive routes to devices that handle aqueous solutions.