ArticlePloS one2008
Uncovering genes with divergent mRNA-protein dynamics in Streptomyces coelicolor.
Article in PloS one, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- Bacterial stress responses lower mRNA-protein level correlations.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
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- Multi-omics reveals largely distinct transcript- and protein-level responses to the environment in an intertidal mussel.The Journal of experimental biology · 2023Article
- Single-cell multi-omics topic embedding reveals cell-type-specific and COVID-19 severity-related immune signatures.Cell reports methods · 2023Article
- Seasonal patterns in microbial carbon and iron transporter expression in the Southern Ocean.Microbiome · 2023Article
- Single-cell multi-omic topic embedding reveals cell-type-specific and COVID-19 severity-related immune signatures.bioRxiv : the preprint server for biology · 2023Article
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- Proteomic Analysis of Hypothalamus and Pituitary Gland in Pre and Postpubertal Brahman Heifers.Frontiers in genetics · 2022Article
- Temporal multiomic modeling reveals a B-cell receptor proliferative program in chronic lymphocytic leukemia.Leukemia · 2021Article
- System-level understanding of gene expression and regulation for engineering secondary metabolite production in Streptomyces.Journal of industrial microbiology & biotechnology · 2020Review
- Age, Sex Hormones, and Circadian Rhythm Regulate the Expression of Amyloid-Beta Scavengers at the Choroid Plexus.International journal of molecular sciences · 2020Article
- Linking regional shifts in microbial genome adaptation with surface ocean biogeochemistry.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2020Article
- TheFrontiers in microbiology · 2020Article
- Quantitative Proteome and Phosphoproteome Analyses ofMolecular & cellular proteomics : MCP · 2018Article
- Translational control plays an important role in the adaptive heat-shock response of Streptomyces coelicolor.Nucleic acids research · 2018Article
- Analysis of essential gene dynamics under antibiotic stress in Streptococcus sanguinis.Microbiology (Reading, England) · 2018Article
- Environmental proteomics reveals taxonomic and functional changes in an enriched aquatic ecosystem.Ecosphere (Washington, D.C) · 2017Article
- Delayed effects of transcriptional responses in Mycobacterium tuberculosis exposed to nitric oxide suggest other mechanisms involved in survival.Scientific reports · 2017Article
- Integrated Translatome and Proteome: Approach for Accurate Portraying of Widespread Multifunctional Aspects ofFrontiers in microbiology · 2017Review
Corrections and comments
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7 authors.
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Abstract
Many biological processes are intrinsically dynamic, incurring profound changes at both molecular and physiological levels. Systems analyses of such processes incorporating large-scale transcriptome or proteome profiling can be quite revealing. Although consistency between mRNA and proteins is often implicitly assumed in many studies, examples of divergent trends are frequently observed. Here, we present a comparative transcriptome and proteome analysis of growth and stationary phase adaptation in Streptomyces coelicolor, taking the time-dynamics of process into consideration. These processes are of immense interest in microbiology as they pertain to the physiological transformations eliciting biosynthesis of many naturally occurring therapeutic agents. A shotgun proteomics approach based on mass spectrometric analysis of isobaric stable isotope labeled peptides (iTRAQ) enabled identification and rapid quantification of approximately 14% of the theoretical proteome of S. coelicolor. Independent principal component analyses of this and DNA microarray-derived transcriptome data revealed that the prominent patterns in both protein and mRNA domains are surprisingly well correlated. Despite this overall correlation, by employing a systematic concordance analysis, we estimated that over 30% of the analyzed genes likely exhibited significantly divergent patterns, of which nearly one-third displayed even opposing trends. Integrating this data with biological information, we discovered that certain groups of functionally related genes exhibit mRNA-protein discordance in a similar fashion. Our observations suggest that differences between mRNA and protein synthesis/degradation mechanisms are prominent in microbes while reaffirming the plausibility of such mechanisms acting in a concerted fashion at a protein complex or sub-pathway level.
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