ArticleBMC plant biology2014
RNA sequencing-mediated transcriptome analysis of rice plants in endoplasmic reticulum stress conditions.
Article in BMC plant biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 44 citations in OpenAlex.
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- Comprehensive Transcriptome Analysis Reveals Genome-Wide Changes Associated with Endoplasmic Reticulum (ER) Stress in Potato (International journal of molecular sciences · 2022Article
- Susceptibility factor RTP1 negatively regulates Phytophthora parasitica resistance via modulating UPR regulators bZIP60 and bZIP28.Plant physiology · 2021Article
- Quantitative Proteomic Analysis of ER Stress Response Reveals both Common and Specific Features in Two Contrasting Ecotypes ofInternational journal of molecular sciences · 2020Article
- Transcriptome analysis of the almond moth, Cadra cautella, female abdominal tissues and identification of reproduction control genes.BMC genomics · 2019Article
- Modulation of defence and iron homeostasis genes in rice roots by the diazotrophic endophyte Herbaspirillum seropedicae.Scientific reports · 2019Article
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- Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice.Plants (Basel, Switzerland) · 2019Review
- Ocimum metabolomics in response to abiotic stresses: Cold, flood, drought and salinity.PloS one · 2019Article
- Response to Persistent ER Stress in Plants: A Multiphasic Process That Transitions Cells from Prosurvival Activities to Cell Death.The Plant cell · 2018Article
- Comparative Transcriptome Analyses Reveal Potential Mechanisms of Enhanced Drought Tolerance in Transgenic Salvia Miltiorrhiza Plants Expressing AtDREB1A from Arabidopsis.International journal of molecular sciences · 2018Article
- Genome-wide analysis of rice cis-natural antisense transcription under cadmium exposure using strand-specific RNA-Seq.BMC genomics · 2017Article
- Analysis of Genes with Alternatively Spliced Transcripts in the Leaf, Root, Panicle and Seed of Rice Using a Long Oligomer Microarray and RNA-Seq.Molecules and cells · 2017Article
- Processes Underlying a Reproductive Barrier inPlant physiology · 2017Article
- Comparative transcriptomics of rice plants under cold, iron, and salt stresses.Functional & integrative genomics · 2016Article
- Ascribing Functions to Genes: Journey Towards Genetic Improvement of Rice Via Functional Genomics.Current genomics · 2016Article
- Differential Gene Expression between Leaf and Rhizome in Atractylodes lancea: A Comparative Transcriptome Analysis.Frontiers in plant science · 2016Article
- Genome-wide analysis of the endoplasmic reticulum stress response during lignocellulase production in Neurospora crassa.Biotechnology for biofuels · 2015Article
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- Gene profiling of bone around orthodontic mini-implants by RNA-sequencing analysis.BioMed research international · 2015Article
Corrections and comments
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe endoplasmic reticulum (ER) stress response is widely known to function in eukaryotes to maintain the homeostasis of the ER when unfolded or misfolded proteins are overloaded in the ER. To understand the molecular mechanisms of the ER stress response in rice (Oryza sativa L.), we previously analyzed the expression profile of stably transformed rice in which an ER stress sensor/transducer OsIRE1 was knocked-down, using the combination of preliminary microarray and quantitative RT-PCR. In this study, to obtain more detailed expression profiles of genes involved in the initial stages of the ER stress response in rice, we performed RNA sequencing of wild-type and transgenic rice plants produced by homologous recombination in which endogenous genomic OsIRE1 was replaced by missense alleles defective in ribonuclease activity.
resultsAt least 38,076 transcripts were investigated by RNA sequencing, 380 of which responded to ER stress at a statistically significant level (195 were upregulated and 185 were downregulated). Furthermore, we successfully identified 17 genes from the set of 380 ER stress-responsive genes that were not included in the probe set of the currently available microarray chip in rice. Notably, three of these 17 genes were non-annotated genes, even in the latest version of the Rice Annotation Project Data Base (RAP-DB, version IRGSP-1.0).
conclusionsTherefore, RNA sequencing-mediated expression profiling provided valuable information about the ER stress response in rice plants and led to the discovery of new genes related to ER stress.
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