ArticleBMC genomics2018
Rice nucleosome patterns undergo remodeling coincident with stress-induced gene expression.
Article in BMC genomics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
What it found
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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.
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Who cites it
7 citing papers in PubMed, 17 citations in OpenAlex.
- Characterization of the SWI/SNF complex and nucleosome organization in sorghum.Frontiers in plant science · 2024Article
- Using iRNA-seq analysis to predict gene expression regulatory level and activity in Zea mays tissues.G3 (Bethesda, Md.) · 2022Article
- Research on Earnings Management of Growth Enterprise Market in China Stock Market: Comparative Analysis Based on the BPNN, GBDT, and MLR Models.Computational intelligence and neuroscience · 2022Article
- Characterization of contrasting rice (Oryza sativa L.) genotypes reveals the Pi-efficient schema for phosphate starvation tolerance.BMC plant biology · 2021Article
- A Chromodomain-Helicase-DNA-Binding Factor Functions in Chromatin Modification and Gene Regulation.Plant physiology · 2020Article
- Low-Phosphate Chromatin Dynamics Predict a Cell Wall Remodeling Network in Rice Shoots.Plant physiology · 2020Article
- Rice H2A.Z negatively regulates genes responsive to nutrient starvation but promotes expression of key housekeeping genes.Journal of experimental botany · 2018Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundFormation of nucleosomes along eukaryotic DNA has an impact on transcription. Major transcriptional changes occur in response to low external phosphate (Pi) in plants, but the involvement of chromatin-level mechanisms in Pi starvation responses have not been investigated.
resultsWe mapped nucleosomes along with transcriptional changes after 24-h of Pi starvation in rice (Oryza sativa) by deep sequencing of micrococcal nuclease digested chromatin and ribosome-depleted RNA. We demonstrated that nucleosome patterns at rice genes were affected by both cis- and trans-determinants, including GC content and transcription. Also, categorizing rice genes by nucleosome patterns across the transcription start site (TSS) revealed nucleosome patterns that correlated with distinct functional categories of genes. We further demonstrated that Pi starvation resulted in numerous dynamic nucleosomes, which were enhanced at genes differentially expressed in response to Pi starvation.
conclusionsWe demonstrate that rice nucleosome patterns are suggestive of gene functions, and reveal a link between chromatin remodeling and transcriptional changes in response to deficiency of a major macronutrient. Our findings help to enhance the understanding towards eukaryotic gene regulation at the chromatin level.
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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.