ArticleGenome research2016
Genome-wide dynamics of alternative polyadenylation in rice.
Article in Genome research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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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
38 citing papers in PubMed, 80 citations in OpenAlex.
- Identification of specific transcripts for plant heat stress tolerance through genome-wide analysis of SIZ1-dependent alternative polyadenylation.Stress biology · 2026Article
- Alternative Polyadenylation Dynamics During the Rice Blast Immune Response.Molecular plant pathology · 2026Article
- Co-transcriptional gene regulation in plants.aBIOTECH · 2026Review
- PolyAseqTrap: a universal tool for genome-wide identification and quantification of polyadenylation sites from different 3' end sequencing data.Genome biology · 2026Article
- Polyadenylation Complex CFII Recognizes Downstream Cis-element for Pre-mRNA Polyadenylation Through Interaction with an RNA-Binding Protein in Arabidopsis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- A cis-natural antisense RNA regulates alternative polyadenylation of SlSPX5 under Pi starvation in tomato.Nature communications · 2025Article
- Alternative polyadenylation and metabolic profiling in young panicle development of hybrid rice and its parents.Rice (New York, N.Y.) · 2025Article
- The Arabidopsis U1 snRNP regulates mRNA 3'-end processing.Nature plants · 2024Article
- Genome-wide characterization of post-transcriptional processes related to wood formation in Dalbergia odorifera.BMC genomics · 2024Article
- Alternative polyadenylation profiles of susceptible and resistant rice (Oryza sativa L.) in response to bacterial leaf blight using RNA-seq.BMC plant biology · 2024Article
- Dynamics of alternative polyadenylation in single root cells ofFrontiers in plant science · 2024Article
- Full-length transcriptome sequencing provides insights into alternative splicing under cold stress in peanut.Frontiers in plant science · 2024Article
- Comprehensive Profiling of Alternative Splicing and Alternative Polyadenylation during Fruit Ripening in Watermelon (International journal of molecular sciences · 2023Article
- Stress responses of plants through transcriptome plasticity by mRNA alternative polyadenylation.Molecular horticulture · 2023Review
- Alternative 3'-untranslated regions regulate high-salt tolerance of Spartina alterniflora.Plant physiology · 2023Article
- Natural variation in the plant polyadenylation complex.Frontiers in plant science · 2023Article
- Drought induces epitranscriptome and proteome changes in stem-differentiating xylem of Populus trichocarpa.Plant physiology · 2022Article
- Construction of drought stress regulation networks in potato based on SMRT and RNA sequencing data.BMC plant biology · 2022Article
- Full-length transcriptome sequencing reveals the molecular mechanism of potato seedlings responding to low-temperature.BMC plant biology · 2022Article
- Divergence in the Regulation of the Salt Tolerant Response BetweenFrontiers in plant science · 2022Article
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alternative polyadenylation (APA), in which a transcript uses one of the poly(A) sites to define its 3'-end, is a common regulatory mechanism in eukaryotic gene expression. However, the potential of APA in determining crop agronomic traits remains elusive. This study systematically tallied poly(A) sites of 14 different rice tissues and developmental stages using the poly(A) tag sequencing (PAT-seq) approach. The results indicate significant involvement of APA in developmental and quantitative trait loci (QTL) gene expression. About 48% of all expressed genes use APA to generate transcriptomic and proteomic diversity. Some genes switch APA sites, allowing differentially expressed genes to use alternate 3' UTRs. Interestingly, APA in mature pollen is distinct where differential expression levels of a set of poly(A) factors and different distributions of APA sites are found, indicating a unique mRNA 3'-end formation regulation during gametophyte development. Equally interesting, statistical analyses showed that QTL tends to use APA for regulation of gene expression of many agronomic traits, suggesting a potential important role of APA in rice production. These results provide thus far the most comprehensive and high-resolution resource for advanced analysis of APA in crops and shed light on how APA is associated with trait formation in eukaryotes.
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Registered trials
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.