ArticlePloS one2012
Transcriptome and proteome dynamics of a light-dark synchronized bacterial cell cycle.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.
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Who cites it
86 citing papers in PubMed, 166 citations in OpenAlex.
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- Impact of different 3D culture environments on spheroid morphology, drug response, and invasion in pancreatic cancer cells.BMC research notes · 2025Article
- Metaproteomic Dataset on Semi-Diurnal Variability of the Bacterioplankton Communities During a Spring Phytoplankton Bloom in the North Sea.Proteomics · 2025Article
- Activating Cancer Hallmarks through Changes in mRNA/Protein Regulation.Journal of proteome research · 2025Article
- Are We There Yet? Assessing the Readiness of Single-Cell Proteomics to Answer Biological Hypotheses.Journal of proteome research · 2025Review
- Characterization of extracellular vesicles released fromPhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- A framework for understanding collective microbiome metabolism.Nature microbiology · 2024Review
- Diel Cycle Proteomics: Illuminating Molecular Dynamics in Purple Bacteria for Optimized Biotechnological Applications.International journal of molecular sciences · 2024Article
- Emergence of metabolic coupling to the heterotrophISME communications · 2024Article
- Frequency of change determines effectiveness of microbial response strategies.The ISME journal · 2023Article
- A Reduction of Transcriptional Regulation in Aquatic Oligotrophic Microorganisms Enhances Fitness in Nutrient-Poor Environments.Microbiology and molecular biology reviews : MMBR · 2023Review
- Tracking nitrogen allocation to proteome biosynthesis in a marine microbial community.Nature microbiology · 2023Article
- Protein prediction models support widespread post-transcriptional regulation of protein abundance by interacting partners.PLoS computational biology · 2022Article
- Availability of vitamin BThe ISME journal · 2022Article
- Why Environmental Biomarkers Work: Transcriptome-Proteome Correlations and Modeling of Multistressor Experiments in the Marine BacteriumJournal of proteome research · 2022Article
- The Lack of the TetR-Like Repressor GeneFrontiers in cellular and infection microbiology · 2022Article
- Global Proteomics Analysis of Bone Marrow: Establishing Talin-1 and Centrosomal Protein of 55 kDa as Potential Molecular Signatures for Myelodysplastic Syndromes.Frontiers in oncology · 2022Article
- Diel Protein Regulation of Marine Picoplanktonic Communities Assessed by Metaproteomics.Microorganisms · 2021Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGrowth of the ocean's most abundant primary producer, the cyanobacterium Prochlorococcus, is tightly synchronized to the natural 24-hour light-dark cycle. We sought to quantify the relationship between transcriptome and proteome dynamics that underlie this obligate photoautotroph's highly choreographed response to the daily oscillation in energy supply. METHODOLOGY/PRINCIPAL
findingsUsing RNA-sequencing transcriptomics and mass spectrometry-based quantitative proteomics, we measured timecourses of paired mRNA-protein abundances for 312 genes every 2 hours over a light-dark cycle. These temporal expression patterns reveal strong oscillations in transcript abundance that are broadly damped at the protein level, with mRNA levels varying on average 2.3 times more than the corresponding protein. The single strongest observed protein-level oscillation is in a ribonucleotide reductase, which may reflect a defense strategy against phage infection. The peak in abundance of most proteins also lags that of their transcript by 2-8 hours, and the two are completely antiphase for some genes. While abundant antisense RNA was detected, it apparently does not account for the observed divergences between expression levels. The redirection of flux through central carbon metabolism from daytime carbon fixation to nighttime respiration is associated with quite small changes in relative enzyme abundances. CONCLUSIONS/SIGNIFICANCE: Our results indicate that expression responses to periodic stimuli that are common in natural ecosystems (such as the diel cycle) can diverge significantly between the mRNA and protein levels. Protein expression patterns that are distinct from those of cognate mRNA have implications for the interpretation of transcriptome and metatranscriptome data in terms of cellular metabolism and its biogeochemical impact.
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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.