ArticleComparative and functional genomics2010
Codon Usage Patterns in Corynebacterium glutamicum: Mutational Bias, Natural Selection and Amino Acid Conservation.
Article in Comparative and functional genomics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
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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
14 citing papers in PubMed, 31 citations in OpenAlex.
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- Investigating the Ocular Surface Microbiome: What Can It Tell Us?Clinical ophthalmology (Auckland, N.Z.) · 2023Review
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- Strain heterogeneity, cooccurrence network, taxonomic composition and functional profile of the healthy ocular surface microbiome.Eye and vision (London, England) · 2021Article
- Dysbiosis of urine microbiota in obstructive urinary retention patients revealed by next-generation sequencing.Annals of clinical microbiology and antimicrobials · 2021Article
- Alterations in the Ocular Surface Microbiome in Traumatic Corneal Ulcer Patients.Investigative ophthalmology & visual science · 2020Article
- Comprehensive profiling of codon usage signatures and codon context variations in the genus Ustilago.World journal of microbiology & biotechnology · 2019Article
- Intergeneric Relationships within the Early-Diverging Angiosperm Family Nymphaeaceae Based on Chloroplast Phylogenomics.International journal of molecular sciences · 2018Article
- Comparative evolutionary genomics of Corynebacterium with special reference to codon and amino acid usage diversities.Genetica · 2018Article
- Genome-Wide Analysis of the Synonymous Codon Usage Patterns in Riemerella anatipestifer.International journal of molecular sciences · 2016Article
- Comparative investigation of the various determinants that influence the codon and amino acid usage patterns in the genus Bifidobacterium.World journal of microbiology & biotechnology · 2015Article
- Ornithine cyclodeaminase-based proline production by Corynebacterium glutamicum.Microbial cell factories · 2013Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The alternative synonymous codons in Corynebacterium glutamicum, a well-known bacterium used in industry for the production of amino acid, have been investigated by multivariate analysis. As C. glutamicum is a GC-rich organism, G and C are expected to predominate at the third position of codons. Indeed, overall codon usage analyses have indicated that C and/or G ending codons are predominant in this organism. Through multivariate statistical analysis, apart from mutational selection, we identified three other trends of codon usage variation among the genes. Firstly, the majority of highly expressed genes are scattered towards the positive end of the first axis, whereas the majority of lowly expressed genes are clustered towards the other end of the first axis. Furthermore, the distinct difference in the two sets of genes was that the C ending codons are predominate in putatively highly expressed genes, suggesting that the C ending codons are translationally optimal in this organism. Secondly, the majority of the putatively highly expressed genes have a tendency to locate on the leading strand, which indicates that replicational and transciptional selection might be invoked. Thirdly, highly expressed genes are more conserved than lowly expressed genes by synonymous and nonsynonymous substitutions among orthologous genes fromthe genomes of C. glutamicum and C. diphtheriae. We also analyzed other factors such as the length of genes and hydrophobicity that might influence codon usage and found their contributions to be weak.
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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.