ArticleMolecular & cellular proteomics : MCP2012
Complementary proteome and transcriptome profiling in phosphate-deficient Arabidopsis roots reveals multiple levels of gene regulation.
Article in Molecular & cellular proteomics : MCP, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 120 papers.
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120 citing papers in PubMed, 275 citations in OpenAlex.
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- Organ-specific transcriptional and metabolic adaptations of potato plants to limited phosphate availability prior and after tuberization.The Plant journal : for cell and molecular biology · 2025Article
- Integrating multi-omics and machine learning for disease resistance prediction in legumes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Too dim, too bright, and just right: Systems analysis of the Chlamydomonas diurnal program under limiting and excess light.The Plant cell · 2025Article
- Transcriptome and translatome comparison of tissues from Arabidopsis thaliana.Scientific data · 2025Article
- Transcriptional and metabolic profiling of sulfur starvation response in two monocots.BMC plant biology · 2024Article
- A CYBDOM protein impacts iron homeostasis and primary root growth under phosphate deficiency in Arabidopsis.Nature communications · 2024Article
- Extensive post-transcriptional regulation revealed by integrative transcriptome and proteome analyses in salicylic acid-induced flowering in duckweed (Frontiers in plant science · 2024Article
- Protein Phosphorylation Orchestrates Acclimations of Arabidopsis Plants to Environmental pH.Molecular & cellular proteomics : MCP · 2024Article
- Fungal Secretomics Through iTRAQ-Based Analysis.Methods in molecular biology (Clifton, N.J.) · 2024Article
- A multi-omic survey of black cottonwood tissues highlights coordinated transcriptomic and metabolomic mechanisms for plant adaptation to phosphorus deficiency.Frontiers in plant science · 2024Article
- Multi-omics reveals largely distinct transcript- and protein-level responses to the environment in an intertidal mussel.The Journal of experimental biology · 2023Article
- Proteomic profile of the germinating seeds reveals enhanced seedling growth in Arabidopsis rpp1a mutant.Plant molecular biology · 2023Article
- Seizure enhances SUMOylation and zinc-finger transcriptional repression in neuronal nuclei.iScience · 2023Article
- Carbon Fluxes in Potato (Biology · 2023Article
- PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense.BMC genomics · 2023Article
- Analysis of companion cell and phloem metabolism using a transcriptome-guided model of Arabidopsis metabolism.Plant physiology · 2023Article
- Mechanism of Mepiquat Chloride Regulating Soybean Response to Drought Stress Revealed by Proteomics.Plants (Basel, Switzerland) · 2023Article
- Candidate regulators of drought stress in tomato revealed by comparative transcriptomic and proteomic analyses.Frontiers in plant science · 2023Article
- Label-Free Quantitative Proteomics in Plant.Methods in molecular biology (Clifton, N.J.) · 2023Article
60 more citing papers are in PubMed but not listed here.
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3 authors at 1 institution in 1 country.
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Abstract
Phosphate (Pi) deficiency impairs plant growth and productivity in many agricultural ecosystems, causing severe reductions in crop yield. To uncover novel aspects in acclimation to Pi starvation, we investigated the correlation between Pi deficiency-induced changes in transcriptome and proteome profiles in Arabidopsis roots. Using exhaustive tandem mass spectrometry-based shotgun proteomics and whole-genome RNA sequencing to generate a nearly complete catalog of expressed mRNAs and proteins, we reliably identified 13,298 proteins and 24,591 transcripts, subsets of 356 proteins and 3106 mRNAs were differentially expressed during Pi deficiency. Most dramatic changes were noticed for genes involved in Pi acquisition and in processes that either liberate Pi or bypass Pi/ATP-consuming metabolic steps, for example during membrane lipid remodeling and glycolytic carbon flux. The concordance between the abundance of mRNA and its encoded protein was generally high for highly up-regulated genes, but the analysis also revealed numerous discordant changes in mRNA/protein pairs, indicative of divergent regulation of transcription and post-transcriptional processes. In particular, a decreased abundance of proteins upon Pi deficiency was not closely correlated with changes in the corresponding mRNAs. In several cases, up-regulation of gene activity was observed solely at the protein level, adding novel aspects to key processes in the adaptation to Pi deficiency. We conclude that integrated measurement and interpretation of changes in protein and transcript abundance are mandatory for generating a complete inventory of the components that are critical in the response to environmental stimuli.
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