ArticleBMC genomics2006
Compositional discordance between prokaryotic plasmids and host chromosomes.
Article in BMC genomics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
27 citing papers in PubMed, 63 citations in OpenAlex.
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- Host range of strand-biased circularizing integrative elements: a new class of mobile DNA elements nesting in Gammaproteobacteria.Mobile DNA · 2023Article
- Genomic Signature in Evolutionary Biology: A Review.Biology · 2023Review
- Exploring short k-mer profiles in cells and mobile elements from Archaea highlights the major influence of both the ecological niche and evolutionary history.BMC genomics · 2021Article
- Determination of Plasmid pSN1216-29 Host Range and the Similarity in Oligonucleotide Composition Between Plasmid and Host Chromosomes.Frontiers in microbiology · 2020Article
- Reconsidering plasmid maintenance factors for computational plasmid design.Computational and structural biotechnology journal · 2019Review
- Endogenous and Foreign Nucleoid-Associated Proteins of Bacteria: Occurrence, Interactions and Effects on Mobile Genetic Elements and Host's Biology.Computational and structural biotechnology journal · 2019Review
- PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures.Nucleic acids research · 2018Article
- The Divided Bacterial Genome: Structure, Function, and Evolution.Microbiology and molecular biology reviews : MMBR · 2017Review
- The nucleotide composition of microbial genomes indicates differential patterns of selection on core and accessory genomes.BMC genomics · 2017Article
- Relative entropy differences in bacterial chromosomes, plasmids, phages and genomic islands.BMC genomics · 2012Article
- Genome Signature Difference between Deinococcus radiodurans and Thermus thermophilus.International journal of evolutionary biology · 2012Article
- Validation of bacterial replication termination models using simulation of genomic mutations.PloS one · 2012Article
- Comparative analyses of base compositions, DNA sizes, and dinucleotide frequency profiles in archaeal and bacterial chromosomes and plasmids.International journal of evolutionary biology · 2012Article
- A quantitative account of genomic island acquisitions in prokaryotes.BMC genomics · 2011Article
- The mosaicism of plasmids revealed by atypical genes detection and analysis.BMC genomics · 2011Article
- Abundant oligonucleotides common to most bacteria.PloS one · 2010Article
- Distinguishing microbial genome fragments based on their composition: evolutionary and comparative genomic perspectives.Genome biology and evolution · 2010Article
- Quantitative analysis of replication-related mutation and selection pressures in bacterial chromosomes and plasmids using generalised GC skew index.BMC genomics · 2009Article
- A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes.Genome biology · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMost plasmids depend on the host replication machinery and possess partitioning genes. These properties confine plasmids to a limited range of hosts, yielding a close and presumably stable relationship between plasmid and host. Hence, it is anticipated that due to amelioration the dinucleotide composition of plasmids is similar to that of the genome of their hosts. However, plasmids are also thought to play a major role in horizontal gene transfer and thus are frequently exchanged between hosts, suggesting dinucleotide composition dissimilarity between plasmid and host genome. We compared the dinucleotide composition of a large collection of plasmids with that of their host genomes to shed more light on this enigma.
resultsThe dinucleotide frequency, coined the genome signature, facilitates the identification of putative horizontally transferred DNA in complete genome sequences, since it was found to be typical for a certain genome, and similar between related species. By comparison of the genome signature of 230 plasmid sequences with that of the genome of each respective host, we found that in general the genome signature of plasmids is dissimilar from that of their host genome.
conclusionOur results show that the genome signature of plasmids does not resemble that of their host genome. This indicates either absence of amelioration or a less stable relationship between plasmids and their host. We propose an indiscriminate lifestyle for plasmids preserving the genome signature discordance between these episomes and host chromosomes.
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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.