ArticlePlant physiology2007
Distinct expression patterns of natural antisense transcripts in Arabidopsis.
Article in Plant physiology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed, 99 citations in OpenAlex.
- Mechanism of expression regulation of head-to-head overlapping protein-coding genes INO80E and HIRIP3.Communications biology · 2025Article
- Antisense transcription from stress-responsive transcription factors fine-tunes the cold response in Arabidopsis.The Plant cell · 2024Article
- Genome-wide identification of antisense lncRNAs and their association with susceptibility toFrontiers in immunology · 2022Article
- Promoter switching in response to changing environment and elevated expression of protein-coding genes overlapping at their 5' ends.Scientific reports · 2021Article
- Global identification of Arabidopsis lncRNAs reveals the regulation of MAF4 by a natural antisense RNA.Nature communications · 2018Article
- ArabidopsisPlant physiology · 2018Article
- Cell-specific cis-natural antisense transcripts (cis-NATs) in the sperm and the pollen vegetative cells ofF1000Research · 2018Article
- Sm-Like Protein-Mediated RNA Metabolism Is Required for Heat Stress Tolerance in Arabidopsis.Frontiers in plant science · 2016Article
- Functional and expression analyses of transcripts based on full-length cDNAs of Sorghum bicolor.DNA research : an international journal for rapid publication of reports on genes and genomes · 2015Article
- NERF encodes a RING E3 ligase important for drought resistance and enhances the expression of its antisense gene NFYA5 in Arabidopsis.Nucleic acids research · 2015Article
- Genome-wide identification of long noncoding natural antisense transcripts and their responses to light in Arabidopsis.Genome research · 2014Article
- Full-length enriched cDNA libraries and ORFeome analysis of sugarcane hybrid and ancestor genotypes.PloS one · 2014Article
- Article
- Arabidopsis non-coding RNA regulation in abiotic stress responses.International journal of molecular sciences · 2013Review
- Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data.Genome research · 2013Article
- Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize.Annals of botany · 2013Article
- Prediction and identification of natural antisense transcripts and their small RNAs in soybean (Glycine max).BMC genomics · 2013Article
- Protein-coding cis-natural antisense transcripts have high and broad expression in Arabidopsis.Plant physiology · 2013Article
- Strand-specific RNA-seq reveals widespread occurrence of novel cis-natural antisense transcripts in rice.BMC genomics · 2012Article
- Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation.Nature structural & molecular biology · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It has been shown that overlapping cis-natural antisense transcripts (cis-NATs) can form a regulatory circuit in which small RNAs derived from one transcript regulate stability of the other transcript, which manifests itself as anticorrelated expression. However, little is known about how widespread antagonistic expression of cis-NATs is. We have determined how frequently cis-NAT pairs, which make up 7.4% of annotated transcription units in the Arabidopsis (Arabidopsis thaliana) genome, show anticorrelated expression patterns. Indeed, global expression profiles of pairs of cis-NATs on average have significantly lower pairwise Pearson correlation coefficients than other pairs of neighboring genes whose transcripts do not overlap. However, anticorrelated expression that is greater than expected by chance is found in only a small number of cis-NAT pairs. The degree of anticorrelation does not depend on the length of the overlap or on the distance of the 5' ends of the transcripts. Consistent with earlier findings, cis-NATs do not exhibit an increased likelihood to give rise to small RNAs, as determined from available small RNA sequences and massively parallel signature sequencing tags. However, the overlapping regions of cis-NATs appeared to be enriched for small RNA loci compared to nonoverlapping regions. Furthermore, expression of cis-NATs was not disproportionately affected in various RNA-silencing mutants. Our results demonstrate that there is a trend toward anticorrelated expression of cis-NAT pairs in Arabidopsis, but currently available data do not produce a strong signature of small RNA-mediated silencing for this process.
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