ArticleGenome biology2014
Genome-wide screening and functional analysis identify a large number of long noncoding RNAs involved in the sexual reproduction of rice.
Article in Genome biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 276 papers, 1 of them a synthesis that pooled it.
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Who cites it
276 citing papers in PubMed, 1 synthesis or guideline pooled it, 585 citations in OpenAlex.
- Genome-wide lncRNAs identification and association analysis for cold-responsive genes at the booting stage in rice (Oryza sativa L.).The plant genome · 2020Pooled it
- The Landscape of Long Non-Coding RNAs Provides Insights Into the Domestication and Improvement of Pear Fruit.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- RNA regulation in plants.Science China. Life sciences · 2026Review
- Genome-wide identification of long non-coding RNAs revealing their regulatory roles under seed development in ricebean (Vigna umbellata).BMC plant biology · 2026Article
- Transcriptome analysis reveals long noncoding RNAs involved in the tuber anthocyanin synthesis of potato (Solanum tuberosum L.).BMC plant biology · 2026Article
- Blast Resistance Gene Pish Derived Reprogramming of Noncoding RNAs in Rice.Rice (New York, N.Y.) · 2026Article
- In vivo RNA structure influences the translation and stability of plant long non-coding RNAs.Plant communications · 2026Article
- Genome-wide analysis of long noncoding RNAs in response to drought stress in the seeds of Brassica napus.BMC genomics · 2026Article
- Diversity of lncRNAs in the pan-transcriptome of maize inbred lines.BMC genomics · 2026Article
- Reciprocal control of metabolic and chromatin regulators improves rice tolerance to heat.Nature communications · 2025Article
- Review
- Positional frequency chaos game representation for machine learning-based classification of crop lncRNAs.bioRxiv : the preprint server for biology · 2025Article
- The circular RNA circANK suppresses rice resistance to bacterial blight by inhibiting microRNA398b-mediated defense.The Plant cell · 2025Article
- Article
- Integrative GWAS and transcriptomic analyses reveal regulatory genes controlling shoot branching in sunflower.Frontiers in plant science · 2025Article
- The miR3367-lncRNA67-GhCYP724B module regulates male sterility by modulating brassinosteroid biosynthesis and interacting with Aorf27 in Gossypium hirsutum.Journal of integrative plant biology · 2025Article
- Integrative analysis of coding and non-coding RNAs in rice reveals conserved molecular response signatures to heat, drought, and salt stresses.Journal of biosciences · 2025Article
- Non-coding RNA-mediated regulation of seed endosperm development.Frontiers in plant science · 2025Review
- Whole Genome Identification and Integrated Analysis of Long Non-Coding RNAs Responding ABA-Mediated Drought Stress inCurrent issues in molecular biology · 2024Article
- Uncovering the key lncRNAs in regulating cadmium accumulation and translocation in sweet sorghum.Planta · 2024Article
216 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundLong noncoding RNAs (lncRNAs) play important roles in a wide range of biological processes in mammals and plants. However, the systematic examination of lncRNAs in plants lags behind that in mammals. Recently, lncRNAs have been identified in Arabidopsis and wheat; however, no systematic screening of potential lncRNAs has been reported for the rice genome.
resultsIn this study, we perform whole transcriptome strand-specific RNA sequencing (ssRNA-seq) of samples from rice anthers, pistils, and seeds 5 days after pollination and from shoots 14 days after germination. Using these data, together with 40 available rice RNA-seq datasets, we systematically analyze rice lncRNAs and definitively identify lncRNAs that are involved in the reproductive process. The results show that rice lncRNAs have some different characteristics compared to those of Arabidopsis and mammals and are expressed in a highly tissue-specific or stage-specific manner. We further verify the functions of a set of lncRNAs that are preferentially expressed in reproductive stages and identify several lncRNAs as competing endogenous RNAs (ceRNAs), which sequester miR160 or miR164 in a type of target mimicry. More importantly, one lncRNA, XLOC_057324, is demonstrated to play a role in panicle development and fertility. We also develop a source of rice lncRNA-associated insertional mutants.
conclusionsGenome-wide screening and functional analysis enabled the identification of a set of lncRNAs that are involved in the sexual reproduction of rice. The results also provide a source of lncRNAs and associated insertional mutants in rice.
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