ArticleScientific reports2022
Long non-coding RNAs as the regulatory hubs in rice response to salt stress.
Article in Scientific reports, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 35 citations in OpenAlex.
- Genome-Wide Meta-QTL Analysis and InDel Markers for Salt Tolerance in Rice: Bridging the Gap from Genomics to Breeding.Rice (New York, N.Y.) · 2026Article
- Long Noncoding RNAs as Emerging Regulators of Seed Development, Germination, and Senescence.International journal of molecular sciences · 2025Review
- Advances in Functional Genomics for Exploring Abiotic Stress Tolerance Mechanisms in Cereals.Plants (Basel, Switzerland) · 2025Review
- Genome-wide association mapping and transcriptional analysis uncover genetic determinants of minor tocopherols in rice seeds.Scientific reports · 2025Article
- Review
- LncRNA-Mediated Tissue-Specific Plastic Responses to Salinity Changes in Oysters.International journal of molecular sciences · 2025Article
- Integrative RNA-seq and ATAC-seq analysis unveils antioxidant defense mechanisms in salt-tolerant rice variety Pokkali.BMC 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
- Insights into the Epigenetic Basis of Plant Salt Tolerance.International journal of molecular sciences · 2024Review
- Transcriptomic analysis reveals the regulatory mechanisms of messenger RNA (mRNA) and long non-coding RNA (lncRNA) in response to waterlogging stress in rye (Secale cereale L.).BMC plant biology · 2024Article
- Long Noncoding RNAs in Response to Hyperosmolarity Stress, but Not Salt Stress, Were Mainly Enriched in the Rice Roots.International journal of molecular sciences · 2024Article
- The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling.Non-coding RNA · 2024Review
- Genome-Wide Identification and Characterization of Long Non-Coding RNAs Associated with Floral Scent Formation in Jasmine (Biomolecules · 2023Article
- Roles of long non-coding RNAs in plant immunity.PLoS pathogens · 2023Review
- Transcriptomic Complexity of Culm Growth and Development in Different Types of Moso Bamboo.International journal of molecular sciences · 2023Review
- Genome-wide identification of long non-coding RNAs and their potential functions in radish response to salt stress.Frontiers in genetics · 2023Article
- Plant long non-coding RNAs: identification and analysis to unveil their physiological functions.Frontiers in plant science · 2023Review
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Salinity seriously constrains growth and fertility of rice worldwide. Long non-coding RNAs (lncRNAs) play crucial roles in plant abiotic stress response. However, salt responsive lncRNAs are poorly understood in rice. Herein, salt responsive lncRNAs (DE-lncRNAs) were identified in FL478 (salt tolerant) compared to its susceptible parent (IR29) using RNA-seq in root tissues at seedling stage. In FL478 and IR29, 8724 and 9235 transcripts with length of > 200 bp were nominated as potential lncRNAs, respectively. Rigorous filtering left four (in FL478) and nine (in IR29) DE-lncRNAs with only 2 DE-lncRNAs in common. ATAC-seq data showed that the genomic regions of all four lncRNAs in FL478 and 6/9 in IR29 are significantly accessible for transcription. Weighted correlation network analysis (WGCNA) revealed that lncRNA.2-FL was highly correlated with 173 mRNAs as trans-targets and a gene encoding pentatricopeptide repeat (PPR) protein was predicted as cis-target of lncRNA.2-FL. In silico mutagenesis analysis proposed the same transcription factor binding sites (TFBSs) in vicinity of the trans- and cis-regulatory target genes of lncRNA.2-FL, which significantly affect their transcription start site (TSS). This study provides new insights into involvement of the DE-lncRNAs in rice response to salt stress. Among them, lncRNA.2-FL may play a significant regulatory role in the salt stress tolerance of FL478.
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