ArticleBMC plant biology2022
Cross-species transcriptomic analyses reveals common and opposite responses in Arabidopsis, rice and barley following oxidative stress and hormone treatment.
Article in BMC plant biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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14 citing papers in PubMed, 1 synthesis or guideline pooled it, 24 citations in OpenAlex.
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- Integrated metabolome and transcriptome analysis of castor oil accumulation during seed development inFrontiers in plant science · 2026Article
- Species-specific phylloplane responses to changes in external pH.Journal of experimental botany · 2025Article
- Model-to-crop conserved NUE Regulons enhance machine learning predictions of nitrogen use efficiency.The Plant cell · 2025Article
- Effect of aluminium toxicity on GI tagged Kachai lemon seedlings.Physiology and molecular biology of plants : an international journal of functional plant biology · 2024Article
- TCOD: an integrated resource for tropical crops.Nucleic acids research · 2024Article
- Genome-wide identification, characterization, and evolutionary analysis of the barley TALE gene family and its expression profiles in response to exogenous hormones.Frontiers in plant science · 2024Article
- The Potential of CRISPR/Cas Technology to Enhance Crop Performance on Adverse Soil Conditions.Plants (Basel, Switzerland) · 2023Review
- Stress Management in Plants: Examining Provisional and Unique Dose-Dependent Responses.International journal of molecular sciences · 2023Review
- Fusarium Yellows of Ginger (Pathogens (Basel, Switzerland) · 2023Article
- Integrative Multi-Scale Analysis Identifies the Hub Gene TRE1 Associating Trehalose Metabolism With Salinity Tolerance in Rice.Physiologia plantarumArticle
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundFor translational genomics, a roadmap is needed to know the molecular similarities or differences between species, such as model species and crop species. This knowledge is invaluable for the selection of target genes and pathways to alter downstream in response to the same stimuli. Here, the transcriptomic responses to six treatments including hormones (abscisic acid - ABA and salicylic acid - SA); treatments that cause oxidative stress (3-amino-1,2,4-triazole - 3AT, methyl viologen - MV); inhibit respiration (antimycin A - AA) or induce genetic damage (ultraviolet radiation -UV) were analysed and compared between Arabidopsis (Arabidopsis thaliana), barley (Hordeum vulgare) and rice (Oryza sativa).
resultsCommon and opposite responses were identified between species, with the number of differentially expressed genes (DEGs) varying greatly between treatments and species. At least 70% of DEGs overlapped with at least one other treatment within a species, indicating overlapping response networks. Remarkably, 15 to 34% of orthologous DEGs showed opposite responses between species, indicating diversity in responses, despite orthology. Orthologous DEGs with common responses to multiple treatments across the three species were correlated with experimental data showing the functional importance of these genes in biotic/abiotic stress responses. The mitochondrial dysfunction response was revealed to be highly conserved in all three species in terms of responsive genes and regulation via the mitochondrial dysfunction element.
conclusionsThe orthologous DEGs that showed a common response between species indicate conserved transcriptomic responses of these pathways between species. However, many genes, including prominent salt-stress responsive genes, were oppositely responsive in multiple-stresses, highlighting fundamental differences in the responses and regulation of these genes between species. This work provides a resource for translation of knowledge or functions between species.
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