Global identification of a marine diatom long noncoding natural antisense transcripts (NATs) and their response to phosphate fluctuations
Autor: | Chris Bowler, Maria Helena Catelli de Carvalho |
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Jazyk: | angličtina |
Rok vydání: | 2020 |
Předmět: |
0301 basic medicine
Cellular homeostasis lcsh:Medicine Plant cell biology Article Non-coding RNAs Phosphates 03 medical and health sciences 0302 clinical medicine Intergenic region Stress Physiological Gene expression Sense (molecular biology) medicine RNA Antisense Phaeodactylum tricornutum Transcriptomics lcsh:Science Gene Diatoms Genetics Multidisciplinary biology Sequence Analysis RNA lcsh:R biology.organism_classification medicine.disease 030104 developmental biology Gene Expression Regulation Nat Phytoplankton RNA Long Noncoding lcsh:Q Transcriptome 030217 neurology & neurosurgery Transcriptional noise |
Zdroj: | Scientific Reports, Vol 10, Iss 1, Pp 1-11 (2020) Scientific Reports Sci Rep |
ISSN: | 2045-2322 |
Popis: | 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. |
Databáze: | OpenAIRE |
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