ArticleBMC plant biology2019
Reconstruction of the full-length transcriptome atlas using PacBio Iso-Seq provides insight into the alternative splicing in Gossypium australe.
Article in BMC plant biology, 2019. 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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38 citing papers in PubMed.
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- Transcriptional and post-transcriptional regulatory networks controlling cotton fibre development.Plant molecular biology · 2026Review
- Genome-Wide Identification ofPlants (Basel, Switzerland) · 2025Article
- Comparison of single-cell long-read and short-read transcriptome sequencing via cDNA molecule matching: quality evaluation of the MAS-ISO-seq approach.NAR genomics and bioinformatics · 2025Article
- Full-length transcriptomes of 25 grassland plant species.Scientific data · 2025Article
- Long-read sequencing reveals novel transcript diversity inAnimal cells and systems · 2025Article
- Pan-transcriptomic analysis reveals alternative splicing control of cold tolerance in rice.The Plant cell · 2024Article
- Transcript Isoform Diversity of Y Chromosome Ampliconic Genes of Great Apes Uncovered Using Long Reads and Telomere-to-Telomere Reference Genome Assemblies.bioRxiv : the preprint server for biology · 2024Article
- RVE2, a new regulatory factor in jasmonic acid pathway, orchestrates resistance to Verticillium wilt.Plant biotechnology journal · 2023Article
- Deciphering triterpenoid saponin biosynthesis by leveraging transcriptome response to methyl jasmonate elicitation in Saponaria vaccaria.Nature communications · 2023Article
- Alternative Splicing Variation: Accessing and Exploiting in Crop Improvement Programs.International journal of molecular sciences · 2023Review
- Alternative Splicing during Fiber Development inInternational journal of molecular sciences · 2023Article
- A long-read and short-read transcriptomics approach provides the first high-quality reference transcriptome and genome annotation for Pseudotsuga menziesii (Douglas-fir).G3 (Bethesda, Md.) · 2023Article
- Alternative splicing in ABA signaling during seed germination.Frontiers in plant science · 2023Review
- Full-length fruit transcriptomes of southern highbush (Vaccinium sp.) and rabbiteye (V. virgatum Ait.) blueberry.BMC genomics · 2022Article
- Comprehensive collection of genes and comparative analysis of full-length transcriptome sequences from Japanese larch (Larix kaempferi) and Kuril larch (Larix gmelinii var. japonica).BMC plant biology · 2022Article
- Single-molecule real-time sequencing of the full-length transcriptome of Halophila beccarii.Scientific reports · 2022Article
- Article
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5 authors.
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Abstract
backgroundGossypium australe F. Mueller (2n = 2x = 26, G
resultsHere, we report the first sequencing of the full-length transcriptome of the Australian wild cotton species, G. australe, using Pacific Biosciences single-molecule long-read isoform sequencing (Iso-Seq) from the pooled cDNA of ten tissues to identify transcript loci and splice isoforms. We reconstructed the G. australe full-length transcriptome and identified 25,246 genes, 86 pre-miRNAs and 1468 lncRNAs. Most genes (12,832, 50.83%) exhibited two or more isoforms, suggesting a high degree of transcriptome complexity in G. australe. A total of 31,448 AS events in five major types were found among the 9944 gene loci. Among these five major types, intron retention was the most frequent, accounting for 68.85% of AS events. 29,718 polyadenylation sites were detected from 14,536 genes, 7900 of which have alternative polyadenylation sites (APA). In addition, based on our AS events annotations, RNA-Seq short reads from germinating seeds showed that differential expression of these events occurred during seed germination. Ten AS events that were randomly selected were further confirmed by RT-PCR amplification in leaf and germinating seeds.
conclusionsThe reconstructed gene sequences and their AS in G. australe would provide information for exploring beneficial characteristics in G. australe.
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