ArticleBMC evolutionary biology2009
A comparative analysis of divergently-paired genes (DPGs) among Drosophila and vertebrate genomes.
Article in BMC evolutionary biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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34 citing papers in PubMed, 43 citations in OpenAlex.
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- Drosophila architectural proteins M1BP and Opbp cooperatively form the active promoter of a ribosomal protein gene.Epigenetics & chromatin · 2025Article
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- Retinoblastoma protein activity revealed by CRISPRi study of divergent Rbf1 and Rbf2 paralogs.G3 (Bethesda, Md.) · 2024Article
- RNA polymerases reshape chromatin architecture and couple transcription on individual fibers.Molecular cell · 2024Article
- RNA polymerases reshape chromatin and coordinate transcription on individual fibers.bioRxiv : the preprint server for biology · 2023Article
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- Regulatory mechanisms ensuring coordinated expression of functionally related genes.Trends in genetics : TIG · 2022Review
- The Dm-Myb Oncoprotein Contributes to Insulator Function and Stabilizes Repressive H3K27me3 PcG Domains.Cell reports · 2020Article
- Transcription start site analysis reveals widespread divergent transcription in D. melanogaster and core promoter-encoded enhancer activities.Nucleic acids research · 2018Article
- Histone modifications facilitate the coexpression of bidirectional promoters in rice.BMC genomics · 2016Article
- Functional characterization of open chromatin in bidirectional promoters of rice.Scientific reports · 2016Article
- Roles for the Histone Modifying and Exchange Complex NuA4 in Cell Cycle Progression in Drosophila melanogaster.Genetics · 2016Article
- Regulation of cell-to-cell variability in divergent gene expression.Nature communications · 2016Article
- Precision Medicine: What Do We Expect in the Scope of Basic Biomedical Sciences?Genomics, proteomics & bioinformatics · 2016Article
- Decoupling of divergent gene regulation by sequence-specific DNA binding factors.Nucleic acids research · 2015Article
- Bidirectional promoters of insects: genome-wide comparison, evolutionary implication and influence on gene expression.Journal of molecular biology · 2015Article
- dREAM co-operates with insulator-binding proteins and regulates expression at divergently paired genes.Nucleic acids research · 2014Article
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDivergently-paired genes (DPGs) are defined as two adjacent genes that are transcribed toward the opposite direction (or from different DNA strands) and shared their transcription start sites (TSSs) less than 1,000 base pairs apart. DPGs are products of a common organizational feature among eukaryotic genes yet to be surveyed across divergent genomes over well-defined evolutionary distances since mutations in the sequence between a pair of DPGs may result in alternations in shared promoters and thus affect the function of both genes. By sharing promoters, the gene pairs take the advantage of co-regulation albeit bearing doubled mutational burdens in maintaining their normal functions.
resultsDrosophila melanogaster has a significant fraction (31.6% of all genes) of DPGs which are remarkably conserved relative to its gene density as compared to other eukaryotes. Our survey and comparative analysis revealed different evolutionary patterns among DPGs between insect and vertebrate lineages. The conservation of DPGs in D. melanogaster is of significance as they are mostly housekeeping genes characterized by the absence of TATA box in their promoter sequences. The combination of Initiator and Downstream Promoter Element may play an important role in regulating DPGs in D. melanogaster, providing an excellent niche for studying the molecular details for transcription regulations.
conclusionDPGs appear to have arisen independently among different evolutionary lineages, such as the insect and vertebrate lineages, and exhibit variable degrees of conservation. Such architectural organizations, including convergently-paired genes (CPGs) may associate with transcriptional regulation and have significant functional relevance.
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