ArticleScientific reports2020
Global identification of a marine diatom long noncoding natural antisense transcripts (NATs) and their response to phosphate fluctuations.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed, 18 citations in OpenAlex.
- LncPlankton: a comprehensive database of candidate lncRNAs from marine microbial eukaryotes.NAR genomics and bioinformatics · 2025Article
- DiatOmicBase: a versatile gene-centered platform for mining functional omics data in diatom research.The Plant journal : for cell and molecular biology · 2025Article
- Genome-Wide Identification and Characterization of miRNAs and Natural Antisense Transcripts Show the Complexity of Gene Regulatory Networks for Secondary Metabolism inInternational journal of molecular sciences · 2024Article
- Therapeutic potential of natural antisense transcripts and various mechanisms involved for clinical applications and disease prevention.RNA biology · 2024Review
- Global identification of natural antisense transcripts iniScience · 2023Article
- Light-dependent signal transduction in the marine diatomProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Differential expression patterns of long noncoding RNAs in a pleiomorphic diatom and relation to hyposalinity.Scientific reports · 2023Article
- Transcriptomic and metabolic signatures of diatom plasticity to light fluctuations.Plant physiology · 2022Article
- Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros.PLoS biology · 2022Article
- Identification of novel, functional, long noncoding RNAs involved in programmed, large-scale genome rearrangements.RNA (New York, N.Y.) · 2022Article
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
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Abstract
Often ignored and regarded as mere transcriptional noise, long noncoding RNAs (lncRNAs) are starting to be considered key regulators of gene expression across the Eukarya domain of life. In the model diatom Phaeodactylum tricornutum, we have previously reported the occurrence of 1,510 intergenic lncRNAs (lincRNAs), many of which displaying specific patterns of expression under phosphate fluctuation (Pi). Using strand-specific RNA-sequencing data we now expand the repertoire of P. tricornutum lncRNAs by identifying 2,628 novel natural antisense transcripts (NATs) that cover 21.5% of the annotated genomic loci. We found that NAT expression is tightly regulated by phosphate depletion and other naturally occurring environmental stresses. Furthermore, we identified 121 phosphate stress responsive NAT-mRNA pairs, the great majority of which showing a positive correlation (concordant pairs) and a small fraction with negative correlation (discordant pairs). Taken together our results show that NATs are highly abundant transcripts in P. tricornutum and that their expression is under tight regulation by nutrient and environmental stresses. Furthermore, our results suggest that in P. tricornutum Pi stress response NAT pairs predominantly regulate positively the expression of their cognate sense genes, the latter being involved in several biological processes underlying the control of cellular homeostasis under stress.
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