ArticleInsect molecular biology2017
Single molecule RNA sequencing uncovers trans-splicing and improves annotations in Anopheles stephensi.
Article in Insect molecular biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Splicing as an integrative layer linking cell cycle regulation, epigenetic dynamics, and environmental responses in plants.Frontiers in plant science · 2026Review
- Identification of testis development-related genes by combining Iso-Seq and RNA-Seq inFrontiers in cell and developmental biology · 2024Article
- RNA-Seq-Pop: Exploiting the sequence in RNA sequencing-A Snakemake workflow reveals patterns of insecticide resistance in the malaria vector Anopheles gambiae.Molecular ecology resources · 2023Article
- Genome assembly of the JD17 soybean provides a new reference genome for comparative genomics.G3 (Bethesda, Md.) · 2022Article
- SMRT sequencing of full-length transcriptome of birch-leaf pear (Journal of genetics · 2021Article
- Recent advances and future perspectives in vector-omics.Current opinion in insect science · 2020Review
- Investigation of RNA Editing Sites within Bound Regions of RNA-Binding Proteins.High-throughput · 2019Article
- Transcriptome analysis reveals the effects of grafting on sweetpotato scions during the full blooming stages.Genes & genomics · 2019Article
- De novo RNA-seq and functional annotation of Ornithonyssus bacoti.Experimental & applied acarology · 2018Article
- Long Non-coding RNAs in Endothelial Biology.Frontiers in physiology · 2018Review
- Single-molecule long-read transcriptome profiling of Platysternon megacephalum mitochondrial genome with gene rearrangement and control region duplication.RNA biology · 2018Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Single molecule real-time (SMRT) sequencing has recently been used to obtain full-length cDNA sequences that improve genome annotation and reveal RNA isoforms. Here, we used one such method called isoform sequencing from Pacific Biosciences (PacBio) to sequence a cDNA library from the Asian malaria mosquito Anopheles stephensi. More than 600 000 full-length cDNAs, referred to as reads of insert, were identified. Owing to the inherently high error rate of PacBio sequencing, we tested different approaches for error correction. We found that error correction using Illumina RNA sequencing (RNA-seq) generated more data than using the default SMRT pipeline. The full-length error-corrected PacBio reads greatly improved the gene annotation of Anopheles stephensi: 4867 gene models were updated and 1785 alternatively spliced isoforms were added to the annotation. In addition, six trans-splicing events, where exons from different primary transcripts were joined together, were identified in An. stephensi. All six trans-splicing events appear to be conserved in Culicidae, as they are also found in Anopheles gambiae and Aedes aegypti. The proteins encoded by trans-splicing events are also highly conserved and the orthologues of these proteins are cis-spliced in outgroup species, indicating that trans-splicing may arise as a mechanism to rescue genes that broke up during evolution.
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