ArticleRNA biology2019
Transcriptomic analyses reveal groups of co-expressed, syntenic lncRNAs in four species of the genus Caenorhabditis.
Article in RNA biology, 2019. 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.
- Correlation of Long Non-Coding RNAs and Gene Expression in Response to Reverse Development of Turritopsis dohrnii.Marine biotechnology (New York, N.Y.) · 2026Article
- Integrative multi-omics analysis widens annotation and functional insights into long non-coding RNAs of Arabidopsis thaliana.Biology direct · 2026Article
- De novo genome assembly, inversion detection, and worldwide adaptation on the invasive species Styela plicata.Scientific reports · 2025Article
- Chromosome-level genome assembly and annotation of the sharpsnout seabream (Diplodus puntazzo).Scientific data · 2025Article
- Long non-coding RNAs mediate fish gene expression in response to ocean acidification.Evolutionary applications · 2024Article
- Functional evolutionary convergence of long noncoding RNAs involved in embryonic development.Communications biology · 2023Article
- The Conservation of Long Intergenic Non-Coding RNAs and Their Response toInternational journal of molecular sciences · 2022Article
- Genomic and functional conservation of lncRNAs: lessons from flies.Mammalian genome : official journal of the International Mammalian Genome Society · 2022Review
- The evolutionary landscape and expression pattern of plant lincRNAs.RNA biology · 2022Article
- The long non-coding RNA landscape of Candida yeast pathogens.Nature communications · 2021Article
- Comparative genomics in the search for conserved long noncoding RNAs.Essays in biochemistry · 2021Article
- Ten Years of Collaborative Progress in the Quest for Orthologs.Molecular biology and evolution · 2021Article
- The landscape of lncRNAs in Cydia pomonella provides insights into their signatures and potential roles in transcriptional regulation.BMC genomics · 2021Article
- Dynamic Expression of Long Non-Coding RNAs Throughout Parasite Sexual and Neural Maturation inNon-coding RNA · 2020Article
- Article
- Single-molecule real-time sequencing of the full-length transcriptome of loquat under low-temperature stress.PloS one · 2020Article
- Microsyntenic Clusters Reveal Conservation of lncRNAs in Chordates Despite Absence of Sequence Conservation.Biology · 2019Article
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Authors and funding
6 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Long non-coding RNAs (lncRNAs) are a heterogeneous class of genes that do not code for proteins. Since lncRNAs (or a fraction thereof) are expected to be functional, many efforts have been dedicated to catalog lncRNAs in numerous organisms, but our knowledge of lncRNAs in non vertebrate species remains very limited. Here, we annotated lncRNAs using transcriptomic data from the same larval stage of four Caenorhabditis species. The number of annotated lncRNAs in self-fertile nematodes was lower than in out-crossing species. We used a combination of approaches to identify putatively homologous lncRNAs: synteny, sequence conservation, and structural conservation. We classified a total of 1,532 out of 7,635 genes from the four species into families of lncRNAs with conserved synteny and expression at the larval stage, suggesting that a large fraction of the predicted lncRNAs may be species specific. Despite both sequence and local secondary structure seem to be poorly conserved, sequences within families frequently shared BLASTn hits and short sequence motifs, which were more likely to be unpaired in the predicted structures. We provide the first multi-species catalog of lncRNAs in nematodes and identify groups of lncRNAs with conserved synteny and expression, that share exposed motifs.
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