ArticleGenome biology2009
Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L.).
Article in Genome biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 67 papers.
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Who cites it
67 citing papers in PubMed, 152 citations in OpenAlex.
- Transcriptional and post-transcriptional regulatory networks controlling cotton fibre development.Plant molecular biology · 2026Review
- Ghr-miR166b-GhHB14 Pair With GhDLO1 Partner Mediates Cotton Plant Defence Against Verticillium dahliae.Molecular plant pathology · 2025Article
- Blooming resilience: transcriptomic insights into cotton flower responses to boll weevil infestation.Plant cell reports · 2025Article
- GhLPF1 Associated Network Is Involved with Cotton Lint Percentage Regulation Revealed by the Integrative Analysis of Spatial Transcriptome.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- GhSBI1, a CUP-SHAPED COTYLEDON 2 homologue, modulates branch internode elongation in cotton.Plant biotechnology journal · 2024Article
- Coordination of floral and fiber development in cotton (Gossypium) by hormone- and flavonoid-signalling associated regulatory miRNAs.Plant molecular biology · 2023Article
- A high-quality assembled genome and its comparative analysis decode the adaptive molecular mechanism of the number one Chinese cotton variety CRI-12.GigaScience · 2022Article
- Transcriptional Landscape of Cotton Fiber Development and Its Alliance With Fiber-Associated Traits.Frontiers in plant science · 2022Article
- An overview of salinity stress, mechanism of salinity tolerance and strategies for its management in cotton.Frontiers in plant science · 2022Review
- The emerging role of small RNAs in ovule development, a kind of magic.Plant reproduction · 2021Review
- Article
- LCM and RNA-seq analyses revealed roles of cell cycle and translational regulation and homoeolog expression bias in cotton fiber cell initiation.BMC genomics · 2021Article
- A Malvaceae-specific miRNA targeting the newly duplicated GaZIP1L to regulate ZnScience China. Life sciences · 2021Article
- Characterization of the regulation mechanism of grapevine microRNA172 family members during flower development.BMC plant biology · 2020Article
- Identification and profiling of microRNAs and differentially expressed genes during anther development between a genetic male-sterile mutant and its wildtype cotton via high-throughput RNA sequencing.Molecular genetics and genomics : MGG · 2020Article
- Small RNA sequencing revealed various microRNAs involved in ethylene-triggered flowering process in Aechmea fasciata.Scientific reports · 2020Article
- Analysis of the MIR160 gene family and the role of MIR160a_A05 in regulating fiber length in cotton.Planta · 2019Article
- Identification and profiling of upland cotton microRNAs at fiber initiation stage under exogenous IAA application.BMC genomics · 2019Article
- Identification of miRNAs involved in fruit ripening by deep sequencing of Olea europaea L. transcriptome.PloS one · 2019Article
- In silico identification and computational characterization of endogenous small interfering RNAs from diverse grapevine tissues and stages.Genes & genomics · 2018Article
7 more citing papers are in PubMed but not listed here.
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Authors and funding
10 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCotton fiber development undergoes rapid and dynamic changes in a single cell type, from fiber initiation, elongation, primary and secondary wall biosynthesis, to fiber maturation. Previous studies showed that cotton genes encoding putative MYB transcription factors and phytohormone responsive factors were induced during early stages of ovule and fiber development. Many of these factors are targets of microRNAs (miRNAs) that mediate target gene regulation by mRNA degradation or translational repression.
resultsHere we sequenced and analyzed over 4 million small RNAs derived from fiber and non-fiber tissues in cotton. The 24-nucleotide small interfering RNAs (siRNAs) were more abundant and highly enriched in ovules and fiber-bearing ovules relative to leaves. A total of 31 miRNA families, including 27 conserved, 4 novel miRNA families and a candidate-novel miRNA, were identified in at least one of the cotton tissues examined. Among 32 miRNA precursors representing 19 unique miRNA families identified, 7 were previously reported, and 25 new miRNA precursors were found in this study. Sequencing, miRNA microarray, and small RNA blot analyses showed a trend of repression of miRNAs, including novel miRNAs, during ovule and fiber development, which correlated with upregulation of several target genes tested. Moreover, 223 targets of cotton miRNAs were predicted from the expressed sequence tags derived from cotton tissues, including ovules and fibers. The cotton miRNAs examined triggered cleavage in the predicted sites of the putative cotton targets in ovules and fibers.
conclusionsEnrichment of siRNAs in ovules and fibers suggests active small RNA metabolism and chromatin modifications during fiber development, whereas general repression of miRNAs in fibers correlates with upregulation of a dozen validated miRNA targets encoding transcription and phytohormone response factors, including the genes found to be highly expressed in cotton fibers. Rapid and dynamic changes in siRNAs and miRNAs may contribute to ovule and fiber development in allotetraploid cotton.
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