ArticleMolecular genetics and genomics : MGG2020
PacBio single-molecule long-read sequencing shed new light on the transcripts and splice isoforms of the perennial ryegrass.
Article in Molecular genetics and genomics : MGG, 2020. 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, 62 citations in OpenAlex.
- Integrating Full-Length and Second-Generation Transcriptomes to Elucidate the ApNPV-Induced Transcriptional Reprogramming inInsects · 2025Article
- Identification of key genes for triacylglycerol biosynthesis and storage in herbaceous peony (Paeonia lactifolra Pall.) seeds based on full-length transcriptome.BMC genomics · 2024Article
- The genetic variation in drought resistance in eighteen perennial ryegrass varieties and the underlying adaptation mechanisms.BMC plant biology · 2023Article
- PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense.BMC genomics · 2023Article
- Screening and identification of multiple abiotic stress responsive candidate genes based on hybrid-sequencing inHeliyon · 2023Article
- Full-Length Transcriptome Characterization and Functional Analysis of Pathogenesis-Related Proteins inInternational journal of molecular sciences · 2022Article
- Construction of drought stress regulation networks in potato based on SMRT and RNA sequencing data.BMC plant biology · 2022Article
- A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis.Genome biology · 2022Article
- Insights into the Response of Perennial Ryegrass to Abiotic Stress: Underlying Survival Strategies and Adaptation Mechanisms.Life (Basel, Switzerland) · 2022Review
- Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica.BMC plant biology · 2022Article
- Full-length transcriptome sequencing analysis and characterization, development and validation of microsatellite markers inFrontiers in plant science · 2022Article
- Application of third-generation sequencing in cancer research.Medical review (2021) · 2021Article
- Single-Molecule Long-Read Sequencing of Purslane (Plants (Basel, Switzerland) · 2021Article
- The Landscapes of Full-Length Transcripts and Splice Isoforms as Well as Transposons Exonization in the Lepidopteran Model System,Frontiers in genetics · 2021Article
- Article
- Organ-Specific Transcriptome Analysis Identifies Candidate Genes Involved in the Stem Specialization of Bermudagrass (Frontiers in genetics · 2021Article
- Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses inInternational journal of molecular sciences · 2020Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
Abstract
Perennial ryegrass (Lolium perenne), one of the most widely used forage and cool-season turfgrass worldwide, has a breeding history of more than 100 years. However, the current draft genome annotation and transcriptome characterization are incomplete mainly because of the enormous difficulty in obtaining full-length transcripts. To explore the complete structure of the mRNA and improve the current draft genome, we performed PacBio single-molecule long-read sequencing for full-length transcriptome sequencing in perennial ryegrass. We generated 29,175 high-confidence non-redundant transcripts from 15,893 genetic loci, among which more than 66.88% of transcripts and 24.99% of genetic loci were not previously annotated in the current reference genome. The re-annotated 18,327 transcripts enriched the reference transcriptome. Particularly, 6709 alternative splicing events and 23,789 alternative polyadenylation sites were detected, providing a comprehensive landscape of the post-transcriptional regulation network. Furthermore, we identified 218 long non-coding RNAs and 478 fusion genes. Finally, the transcriptional regulation mechanism of perennial ryegrass in response to drought stress based on the newly updated reference transcriptome sequences was explored, providing new information on the underlying transcriptional regulation network. Taken together, we analyzed the full-length transcriptome of perennial ryegrass by PacBio single-molecule long-read sequencing. These results improve our understanding of the perennial ryegrass transcriptomes and refined the annotation of the reference genome.
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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.