ArticleVirus evolution2020
Properties and abundance of overlapping genes in viruses.
Article in Virus evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 1 of them a synthesis that pooled it.
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Who cites it
30 citing papers in PubMed, 1 synthesis or guideline pooled it, 49 citations in OpenAlex.
- Pooled it
- Genome-wide comparative analysis reveals distinct evolutionary patterns of overlapping genes in prokaryotes and eukaryotes.Heredity · 2026Article
- Human SRD5A1 as a case of gene expression indel-resistance in triple-coding region.Genome biology · 2026Article
- Design of overlapping genes using deep generative models of protein sequences.bioRxiv : the preprint server for biology · 2025Article
- An Actively Homing Insertion Element in a Phage Methylase Contains a Hidden HNH Endonuclease.Genes · 2025Article
- Designing a simple and efficient phage biocontainment system using the amber suppressor initiator tRNA.Archives of virology · 2024Article
- Article
- How antisense transcripts can evolve to encode novel proteins.Nature communications · 2024Article
- Conditional splicing system for tight control of viral overlapping genes.Journal of virology · 2024Article
- Article
- A novel ambigrammatic mycovirus, PsV5, works hand in glove with wheat stripe rust fungus to facilitate infection.Plant communications · 2023Article
- Three Novel Antisense Overlapping Genes in E. coli O157:H7 EDL933.Microbiology spectrum · 2023Article
- Cis-mediated interactions of the SARS-CoV-2 frameshift RNA alter its conformations and affect function.Nucleic acids research · 2023Article
- Transcriptional analysis in bacteriophage Fc02 ofFrontiers in microbiology · 2023Article
- On the Occurrence and Multimerization of Two-Polypeptide Phage Endolysins Encoded in Single Genes.Microbiology spectrum · 2022Article
- Article
- Overlapping genes in natural and engineered genomes.Nature reviews. Genetics · 2022Review
- Article
- Assembly and Annotation of Escherichia coli Bacteriophage U115.Microbiology resource announcements · 2022Article
- Gene Overlapping as a Modulator ofMicroorganisms · 2022Article
Corrections and comments
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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
Overlapping genes are commonplace in viruses and play an important role in their function and evolution. However, aside from studies on specific groups of viruses, relatively little is known about the extent and nature of gene overlap and its determinants in viruses as a whole. Here, we present an extensive characterisation of gene overlap in viruses through an analysis of reference genomes present in the NCBI virus genome database. We find that over half the instances of gene overlap are very small, covering <10 nt, and 84 per cent are <50 nt in length. Despite this, 53 per cent of all viruses still contained a gene overlap of 50 nt or larger. We also investigate several predictors of gene overlap such as genome structure (single- and double-stranded RNA and DNA), virus family, genome length, and genome segmentation. This revealed that gene overlap occurs more frequently in DNA viruses than in RNA viruses, and more frequently in single-stranded viruses than in double-stranded viruses. Genome segmentation is also associated with gene overlap, particularly in single-stranded DNA viruses. Notably, we observed a large range of overlap frequencies across families of all genome types, suggesting that it is a common evolutionary trait that provides flexible genome structures in all virus families.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.