ArticleScientific reports2016
De novo transcriptome assembly and analysis of differentially expressed genes of two barley genotypes reveal root-zone-specific responses to salt exposure.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 52 citations in OpenAlex.
- Comparative Transcriptome Analysis of Leaves and Roots Responses in Salt-Tolerant Barley Line CC89/Giza123 Under Salinity Stress.Current issues in molecular biology · 2026Article
- Comparative transcriptome analysis between salt-tolerant and salt-sensitive naked barley landraces under salt stress at the germination stage.BMC plant biology · 2025Article
- Spatiotemporal transcriptomic plasticity in barley roots: unravelling water deficit responses in distinct root zones.BMC genomics · 2024Article
- Plant Age and Soil Texture Rather Than the Presence of Root Hairs Cause Differences in Maize Resource Allocation and Root Gene Expression in the Field.Plants (Basel, Switzerland) · 2022Article
- Effects of Salt Stress on Transcriptional and Physiological Responses in Barley Leaves with Contrasting Salt Tolerance.International journal of molecular sciences · 2022Article
- Omics for the Improvement of Abiotic, Biotic, and Agronomic Traits in Major Cereal Crops: Applications, Challenges, and Prospects.Plants (Basel, Switzerland) · 2021Review
- Transcriptomic Analysis of Salt-Stress-Responsive Genes in Barley Roots and Leaves.International journal of molecular sciences · 2021Article
- Identification of tomato root growth regulatory genes and transcription factors through comparative transcriptomic profiling of different tissues.Physiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- Spatiotemporal Dynamics of Maize (Frontiers in microbiology · 2021Review
- De novo transcriptome assembly, functional annotation, and expression profiling of rye (Secale cereale L.) hybrids inoculated with ergot (Claviceps purpurea).Scientific reports · 2020Article
- Integrative Multi-omics Analyses of Barley Rootzones under Salinity Stress Reveal Two Distinctive Salt Tolerance Mechanisms.Plant communications · 2020Article
- Comparative spatial lipidomics analysis reveals cellular lipid remodelling in different developmental zones of barley roots in response to salinity.Plant, cell & environment · 2020Article
- Overexpression of HbMBF1a, encoding multiprotein bridging factor 1 from the halophyte Hordeum brevisubulatum, confers salinity tolerance and ABA insensitivity to transgenic Arabidopsis thaliana.Plant molecular biology · 2020Article
- Tissue-specific respiratory burst oxidase homolog-dependent H2O2 signaling to the plasma membrane H+-ATPase confers potassium uptake and salinity tolerance in Cucurbitaceae.Journal of experimental botany · 2019Article
- A pan-transcriptome analysis shows that disease resistance genes have undergone more selection pressure during barley domestication.BMC genomics · 2019Article
- Defence transcriptome assembly and pathogenesis related gene family analysis in Pinus tecunumanii (low elevation).BMC genomics · 2018Article
- Variable Levels of Tolerance to Water Stress (Drought) and Associated Biochemical Markers in Tunisian Barley Landraces.Molecules (Basel, Switzerland) · 2018Article
- Effect of salt-stress on gene expression in citrus roots revealed by RNA-seq.Functional & integrative genomics · 2018Article
- High-mass-resolution MALDI mass spectrometry imaging reveals detailed spatial distribution of metabolites and lipids in roots of barley seedlings in response to salinity stress.Metabolomics : Official journal of the Metabolomic Society · 2018Article
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6 authors at 3 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Plant roots are the first organs sensing and responding to salinity stress, manifested differentially between different root types, and also at the individual tissue and cellular level. High genetic diversity and the current lack of an assembled map-based sequence of the barley genome severely limit barley research potential. We used over 580 and 600 million paired-end reads, respectively, to create two de novo assemblies of a barley landrace (Sahara) and a malting cultivar (Clipper) with known contrasting responses to salinity. Generalized linear models were used to statistically access spatial, treatment-related, and genotype-specific responses. This revealed a spatial gene expression gradient along the barley root, with more differentially expressed transcripts detected between different root zones than between treatments. The root transcriptome also showed a gradual transition from transcripts related to sugar-mediated signaling at the root meristematic zone to those involved in cell wall metabolism in the elongation zone, and defense response-related pathways toward the maturation zone, with significant differences between the two genotypes. The availability of these additional transcriptome reference sets will serve as a valuable resource to the cereal research community, and may identify valuable traits to assist in breeding programmes.
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