ArticleNucleic acids research2012
The percentage of bacterial genes on leading versus lagging strands is influenced by multiple balancing forces.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Replication-transcription collisions impose DNA strand-specific constraints on gene length in bacteria.PLoS genetics · 2026Article
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- Origin, evolution, and maintenance of gene-strand bias in bacteria.Nucleic acids research · 2024Article
- De novo assembly and comparative genome analysis for polyhydroxyalkanoates-producing Bacillus sp. BNPI-92 strain.Journal, genetic engineering & biotechnology · 2023Article
- Strand asymmetries across genomic processes.Computational and structural biotechnology journal · 2023Review
- Article
- Distinct Expansion of Group II Introns During Evolution of Prokaryotes and Possible Factors Involved in Its Regulation.Frontiers in microbiology · 2022Article
- Integrating metabolomic data with machine learning approach for discovery of Q-markers from Jinqi Jiangtang preparation against type 2 diabetes.Chinese medicine · 2021Article
- Article
- Spatial Patterns of Gene Expression in Bacterial Genomes.Journal of molecular evolution · 2020Article
- Mining Novel Constitutive Promoter Elements in Soil Metagenomic Libraries inFrontiers in microbiology · 2018Article
- Selection for energy efficiency drives strand-biased gene distribution in prokaryotes.Scientific reports · 2017Article
- The Divided Bacterial Genome: Structure, Function, and Evolution.Microbiology and molecular biology reviews : MMBR · 2017Review
- Spatial and Temporal Control of Evolution through Replication-Transcription Conflicts.Trends in microbiology · 2017Article
- A novel skew analysis reveals substitution asymmetries linked to genetic code GC-biases and PolIII a-subunit isoforms.DNA research : an international journal for rapid publication of reports on genes and genomes · 2016Article
- Coevolution of the Organization and Structure of Prokaryotic Genomes.Cold Spring Harbor perspectives in biology · 2016Review
- Essentiality drives the orientation bias of bacterial genes in a continuous manner.Scientific reports · 2015Article
- Analysis of strand-specific RNA-seq data using machine learning reveals the structures of transcription units in Clostridium thermocellum.Nucleic acids research · 2015Article
- Association of purine asymmetry, strand-biased gene distribution and PolC within Firmicutes and beyond: a new appraisal.BMC genomics · 2014Article
- Recent Advances in the Identification of Replication Origins Based on the Z-curve Method.Current genomics · 2014Article
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4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The majority of bacterial genes are located on the leading strand, and the percentage of such genes has a large variation across different bacteria. Although some explanations have been proposed, these are at most partial explanations as they cover only small percentages of the genes and do not even consider the ones biased toward the lagging strand. We have carried out a computational study on 725 bacterial genomes, aiming to elucidate other factors that may have influenced the strand location of genes in a bacterium. Our analyses suggest that (i) genes of some functional categories such as ribosome have higher preferences to be on the leading strands; (ii) genes of some functional categories such as transcription factor have higher preferences on the lagging strands; (iii) there is a balancing force that tends to keep genes from all moving to the leading and more efficient strand and (iv) the percentage of leading-strand genes in an bacterium can be accurately explained based on the numbers of genes in the functional categories outlined in (i) and (ii), genome size and gene density, indicating that these numbers implicitly contain the information about the percentage of genes on the leading versus lagging strand in a genome.
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