ArticleBMC plant biology2022
Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor.
Article in BMC plant biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 18 citations in OpenAlex.
- Harnessing microRNA regulatory networks for engineering climate resilience and nutritional enhancement in millets.Stress biology · 2026Review
- MicroRNA networks in rice seeds: unveiling key regulators of development, germination, and rice resilience under climate changes.Journal of experimental botany · 2026Review
- ComparativeFrontiers in plant science · 2026Article
- The expression of Aldo-keto reductase gene OsKOB1 coordinates ABA homeostasis and antioxidant defense to maintain seed vigor under osmotic stress.Scientific reports · 2025Article
- Comparative miRNAome combined with transcriptome and degradome analysis reveals a novel miRNA-mRNA regulatory network associated with starch metabolism affecting pre-harvest sprouting resistance in wheat.BMC plant biology · 2025Article
- Integrating QTL mapping, BSA-seq and RNA-seq to identify candidate genes regulating seed storability from Dongxiang wild rice.Frontiers in plant science · 2025Article
- Integrated analysis of transcriptome, sRNAome, and degradome involved in the drought-response of maize Zhengdan958.Open life sciences · 2025Article
- Insights into the Early Steps of the Symbiotic Interaction between Soybean (Journal of agricultural and food chemistry · 2024Article
- Integrated Analysis of miRNAome and Transcriptome Identify Regulators of Elm Seed Aging.Plants (Basel, Switzerland) · 2023Article
- Identification of miRNAs Mediating Seed Storability of Maize during Germination Stage by High-Throughput Sequencing, Transcriptome and Degradome Sequencing.International journal of molecular sciences · 2022Article
- Understanding of Hormonal Regulation in Rice Seed Germination.Life (Basel, Switzerland) · 2022Review
- Correction: Degradome sequencing reveals an integrative miRNA-mediated gene interaction network regulating rice seed vigor.BMC plant biology · 2022Article
Corrections and comments
- Erratum issued
Authors and funding
10 authors at 1 institution in 1 country.
Funding
Abstract
backgroundIt is well known that seed vigor is essential for agricultural production and rice (Oryza sativa L.) is one of the most important crops in the world. Though we previously reported that miR164c regulates rice seed vigor, but whether and how other miRNAs cooperate with miR164c to regulate seed vigor is still unknown.
resultsBased on degradome data of six RNA samples isolated from seeds of the wild-type (WT) indica rice cultivar 'Kasalath' as well as two modified lines in 'Kasalath' background (miR164c-silenced line [MIM164c] and miR164c overexpression line [OE164c]), which were subjected to either no aging treatment or an 8-day artificial aging treatment, 1247 different target transcripts potentially cleaved by 421 miRNAs were identified. The miRNA target genes were functionally annotated via GO and KEGG enrichment analyses. By STRING database assay, a miRNA-mediated gene interaction network regulating seed vigor in rice was revealed, which comprised at least four interconnected pathways: the miR5075-mediated oxidoreductase related pathway, the plant hormone related pathway, the miR164e related pathway, and the previously reported RPS27AA related pathway. Knockout and overexpression of the target gene Os02g0817500 of miR5075 decreased and enhanced seed vigor, respectively. By Y2H assay, the proteins encoded by five seed vigor-related genes, Os08g0295100, Os07g0633100, REFA1, OsPER1 and OsGAPC3, were identified to interact with Os02g0817500.
conclusionsmiRNAs cooperate to regulate seed vigor in rice via an integrative gene interaction network comprising miRNA target genes and other functional genes. The result provided a basis for fully understanding the molecular mechanisms of seed vigor regulation.
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