ArticlePloS one2012
Identification of gene modules associated with drought response in rice by network-based analysis.
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 40 papers, 2 of them syntheses that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
40 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Gene network modules associated with abiotic stress response in tolerant rice genotypes identified by transcriptome meta-analysis.Functional & integrative genomics · 2020Pooled it
- A Meta-Analysis of Comparative Transcriptomic Data Reveals a Set of Key Genes Involved in the Tolerance to Abiotic Stresses in Rice.International journal of molecular sciences · 2019Pooled it
- Conserved and divergent gene regulatory networks for crop drought resistance.Nature communications · 2026Article
- Genome-wide association study and gene network analysis of drought tolerance in wheat during early growth.Frontiers in plant science · 2026Article
- Molecular mechanisms regulating glucose metabolism in quinoa (Chenopodium quinoa Willd.) seeds under drought stress.BMC plant biology · 2024Article
- Effects of drought stress on photosynthetic physiological characteristics, leaf microstructure, and related gene expression of yellow horn.Plant signaling & behavior · 2023Article
- Delineating the tissue-mediated drought stress governed tuning of conserved miR408 and its targets in rice.Functional & integrative genomics · 2023Article
- Integrative System Biology Analysis of Transcriptomic Responses to Drought Stress in Soybean (Genes · 2022Article
- Integrative omics approaches for biosynthetic pathway discovery in plants.Natural product reports · 2022Review
- Global Integrated Genomic and Transcriptomic Analyses of MYB Transcription Factor Superfamily in C3 Model PlantFrontiers in genetics · 2022Article
- Photosynthetic Carbon Fixation and Sucrose Metabolism Supplemented by Weighted Gene Co-expression Network Analysis in Response to Water Stress in Rice With Overlapping Growth Stages.Frontiers in plant science · 2022Article
- The genome of Cleistogenes songorica provides a blueprint for functional dissection of dimorphic flower differentiation and drought adaptability.Plant biotechnology journal · 2021Article
- Identification of Potential Cytokinin Responsive Key Genes in Rice Treated With Trans-Zeatin Through Systems Biology Approach.Frontiers in genetics · 2021Article
- Modern Approaches for Transcriptome Analyses in Plants.Advances in experimental medicine and biology · 2021Article
- Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses ofGenes · 2020Article
- Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development.BMC genomics · 2019Article
- Differential co-expression networks of long non-coding RNAs and mRNAs in Cleistogenes songorica under water stress and during recovery.BMC plant biology · 2019Article
- Involving community in genes and pathway curation.Database : the journal of biological databases and curation · 2019Article
- Identification of putative drought-responsive genes in rice using gene co-expression analysis.Bioinformation · 2019Article
- Physiological characterization and allelic diversity of selected drought tolerant traditional rice (Physiology and molecular biology of plants : an international journal of functional plant biology · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Understanding the molecular mechanisms that underlie plant responses to drought stress is challenging due to the complex interplay of numerous different genes. Here, we used network-based gene clustering to uncover the relationships between drought-responsive genes from large microarray datasets. We identified 2,607 rice genes that showed significant changes in gene expression under drought stress; 1,392 genes were highly intercorrelated to form 15 gene modules. These drought-responsive gene modules are biologically plausible, with enrichments for genes in common functional categories, stress response changes, tissue-specific expression and transcription factor binding sites. We observed that a gene module (referred to as module 4) consisting of 134 genes was significantly associated with drought response in both drought-tolerant and drought-sensitive rice varieties. This module is enriched for genes involved in controlling the response of the plant to water and embryonic development, including a heat shock transcription factor as the key regulator in the expression of ABRE-containing genes. These results suggest that module 4 is highly conserved in the ABA-mediated drought response pathway in different rice varieties. Moreover, our study showed that many hub genes clustered in rice chromosomes had significant associations with QTLs for drought stress tolerance. The relationship between hub gene clusters and drought tolerance QTLs may provide a key to understand the genetic basis of drought tolerance in rice.
Indexed as
Identifiers
What OpenQuestion holds
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.