ArticlePlant physiology2013
Protein-coding cis-natural antisense transcripts have high and broad expression in Arabidopsis.
Article in Plant physiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 22 citations in OpenAlex.
- Phototropin2 3'UTR overlaps with the AT5G58150 gene encoding an inactive RLK kinase.BMC plant biology · 2024Article
- Long noncoding RNAs in Brassica rapa L. following vernalization.Scientific reports · 2019Article
- ArabidopsisPlant physiology · 2018Article
- Widespread antisense transcription of Populus genome under drought.Molecular genetics and genomics : MGG · 2018Article
- Cell-specific cis-natural antisense transcripts (cis-NATs) in the sperm and the pollen vegetative cells ofF1000Research · 2018Article
- Evolutionarily recent, insertional fission of mitochondrial cox2 into complementary genes in bilaterian Metazoa.BMC genomics · 2017Article
- Genome-wide characterization of intergenic polyadenylation sites redefines gene spaces in Arabidopsis thaliana.BMC genomics · 2015Article
- Genome-wide view of natural antisense transcripts in Arabidopsis thaliana.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
- 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
- Natural antisense transcripts of Trifolium repens dehydrins.Plant signaling & behavior · 2013Article
- Natural antisense transcripts in plants: a review and identification in soybean infected with Phakopsora pachyrhizi SuperSAGE library.TheScientificWorldJournal · 2013Review
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pairs of genes within eukaryotic genomes are often located on opposite DNA strands such that transcription generates cis-natural sense antisense transcripts (cis-NATs). This orientation of genes has been associated with the biogenesis of splice variants and natural antisense small RNAs. Here, in an analysis of currently available data, we report that within Arabidopsis (Arabidopsis thaliana), protein-coding cis-NATs are also characterized by high abundance, high coexpression, and broad expression. Our results suggest that a permissive chromatin environment may have led to the proximity of these genes. Compared with other genes, cis-NAT-encoding genes have enriched low-nucleosome-density regions, high levels of histone H3 lysine-9 acetylation, and low levels of H3 lysine-27 trimethylation. Promoters associated with broadly expressed genes are preferentially found in the 5' regulatory sequences of cis-NAT-encoding genes. Our results further suggest that natural antisense small RNA production from cis-NATs is limited. Small RNAs sequenced from natural antisense small RNA biogenesis mutants including dcl1, dcl2, dcl3, and rdr6 map to cis-NATs as frequently as small RNAs sequenced from wild-type plants. Future work will investigate if the positive transcriptional regulation of overlapping protein-coding genes contributes to the prevalence of these genes within other eukaryotic genomes.
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