ArticleScientific reports2015
Essentiality drives the orientation bias of bacterial genes in a continuous manner.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Slow RNAPII elongation enhances naive pluripotency rewiring while maintaining high replication fork speed.Science advances · 2026Article
- Transposon-directed insertion-site sequencing (TraDIS) analysis ofMicrobiology spectrum · 2025Article
- Chromosome architecture as a determinant for biosynthetic diversity inMicrobial genomics · 2024Article
- Spatial Patterns of Gene Expression in Bacterial Genomes.Journal of molecular evolution · 2020Article
- Micro-evolution of three Streptococcus species: selection, antigenic variation, and horizontal gene inflow.BMC evolutionary biology · 2019Article
- Reconsidering plasmid maintenance factors for computational plasmid design.Computational and structural biotechnology journal · 2019Review
- The Clash of Macromolecular Titans: Replication-Transcription Conflicts in Bacteria.Annual review of microbiology · 2018Review
- Selection for energy efficiency drives strand-biased gene distribution in prokaryotes.Scientific reports · 2017Article
- Article
- Spatial and Temporal Control of Evolution through Replication-Transcription Conflicts.Trends in microbiology · 2017Article
- Construction and Analysis of Two Genome-Scale Deletion Libraries for Bacillus subtilis.Cell systems · 2017Article
- A Comprehensive Overview of Online Resources to Identify and Predict Bacterial Essential Genes.Frontiers in microbiology · 2017Review
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Studies had found that bacterial genes are preferentially located on the leading strands. Subsequently, the preferences of essential genes and highly expressed genes were compared by classifying all genes into four groups, which showed that the former has an exclusive influence on orientation. However, only some functional classes of essential genes have this orientation bias. Nevertheless, previous studies only performed comparative analyzes by differentiating the orientation bias extent of two types of genes. Thus, it is unclear whether the influence of essentiality on strand bias works continuously. Herein, we found a significant correlation between essentiality and orientation bias extent in 19 of 21 analyzed bacterial genomes, based on quantitative measurement of gene essentiality (or fitness). The correlation coefficient was much higher than that derived from binary essentiality measures (essential or non-essential). This suggested that genes with relatively lower essentiality, i.e., conditionally essential genes, also have some orientation bias, although it is weaker than that of absolutely essential genes. The results demonstrated the continuous influence of essentiality on orientation bias and provided details on this visible structural feature of bacterial genomes. It also proved that Geptop and IFIM could serve as useful resources of bacterial gene essentiality, particularly for quantitative analysis.
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