ArticleBMC evolutionary biology2010
Pseudogenes as an alternative source of natural antisense transcripts.
Article in BMC evolutionary biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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19 citing papers in PubMed, 43 citations in OpenAlex.
- Human testis-specific TTRP regulates circadian clock as an evolutionarily young natural antisense transcript of PER2.Nature communications · 2026Article
- PΨFinder: a practical tool for the identification and visualization of novel pseudogenes in DNA sequencing data.BMC bioinformatics · 2022Article
- LncRNAs and Chromatin Modifications Pattern mFrontiers in genetics · 2022Review
- Metastatic EMT Phenotype Is Governed by MicroRNA-200-Mediated Competing Endogenous RNA Networks.Cells · 2021Review
- Article
- A Methodology to Study Pseudogenized lincRNAs.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Complex Analysis of Retroposed Genes' Contribution to Human Genome, Proteome and Transcriptome.Genes · 2020Article
- Identification of transcribed protein coding sequence remnants within lincRNAs.Nucleic acids research · 2018Article
- Computational Prediction of Position Effects of Apparently Balanced Human Chromosomal Rearrangements.American journal of human genetics · 2017Article
- Protein-Coding Genes' Retrocopies and Their Functions.Viruses · 2017Review
- RetrogeneDB-a database of plant and animal retrocopies.Database : the journal of biological databases and curation · 2017Article
- The distribution and evolution of Arabidopsis thaliana cis natural antisense transcripts.BMC genomics · 2015Article
- Characterization of human pseudogene-derived non-coding RNAs for functional potential.PloS one · 2014Article
- Regulatory mechanisms of long noncoding RNAs in vertebrate central nervous system development and function.Neuroscience · 2013Review
- Long non-coding RNA in cancer.International journal of molecular sciences · 2013Article
- The complex transcriptional landscape of the anucleate human platelet.BMC genomics · 2013Article
- Natural antisense transcripts in plants: a review and identification in soybean infected with Phakopsora pachyrhizi SuperSAGE library.TheScientificWorldJournal · 2013Review
- Long non-coding RNAs: versatile master regulators of gene expression and crucial players in cancer.American journal of translational research · 2012Article
- Global expression analysis revealed novel gender-specific gene expression features in the blood fluke parasite Schistosoma japonicum.PloS one · 2011Article
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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
backgroundNaturally occurring antisense transcripts (NATs) are non-coding RNAs that may regulate the activity of sense transcripts to which they bind because of complementarity. NATs that are not located in the gene they regulate (trans-NATs) have better chances to evolve than cis-NATs, which is evident when the sense strand of the cis-NAT is part of a protein coding gene. However, the generation of a trans-NAT requires the formation of a relatively large region of complementarity to the gene it regulates.
resultsPseudogene formation may be one evolutionary mechanism that generates trans-NATs to the parental gene. For example, this could occur if the parental gene is regulated by a cis-NAT that is copied as a trans-NAT in the pseudogene. To support this we identified human pseudogenes with a trans-NAT to the parental gene in their antisense strand by analysis of the database of expressed sequence tags (ESTs). We found that the mutations that appeared in these trans-NATs after the pseudogene formation do not show the flat distribution that would be expected in a non functional transcript. Instead, we found higher similarity to the parental gene in a region nearby the 3' end of the trans-NATs.
conclusionsOur results do not imply a functional relation of the trans-NAT arising from pseudogenes over their respective parental genes but add evidence for it and stress the importance of duplication mechanisms of genetic material in the generation of non-coding RNAs. We also provide a plausible explanation for the large transcripts that can be found in the antisense strand of some pseudogenes.
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