ArticleProceedings of the National Academy of Sciences of the United States of America2005
Genomic and proteomic comparisons between bacterial and archaeal genomes and related comparisons with the yeast and fly genomes.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2005. 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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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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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
12 citing papers in PubMed, 37 citations in OpenAlex.
- The landscape of microbial phenotypic traits and associated genes.Nucleic acids research · 2016Article
- The Code of Silence: Widespread Associations Between Synonymous Codon Biases and Gene Function.Journal of molecular evolution · 2016Review
- Deconstruction of archaeal genome depict strategic consensus in core pathways coding sequence assembly.PloS one · 2015Article
- Inferring gene function from evolutionary change in signatures of translation efficiency.Genome biology · 2014Article
- Genomics of the proteorhodopsin-containing marine flavobacterium Dokdonia sp. strain MED134.Applied and environmental microbiology · 2011Article
- Absence of diauxie during simultaneous utilization of glucose and Xylose by Sulfolobus acidocaldarius.Journal of bacteriology · 2011Article
- Genes optimized by evolution for accurate and fast translation encode in Archaea and Bacteria a broad and characteristic spectrum of protein functions.BMC genomics · 2010Article
- Translational selection is ubiquitous in prokaryotes.PLoS genetics · 2010Article
- Distinguishing features of delta-proteobacterial genomes.Proceedings of the National Academy of Sciences of the United States of America · 2006Article
- Lost in translation: translational interference from a recurrent mutation in exon 1 of MECP2.Journal of medical genetics · 2006Article
- Statistical signals in bioinformatics.Proceedings of the National Academy of Sciences of the United States of America · 2005Review
- Predicted highly expressed genes in archaeal genomes.Proceedings of the National Academy of Sciences of the United States of America · 2005Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Bacterial, archaeal, yeast, and fly genomes are compared with respect to predicted highly expressed (PHX) genes and several genomic properties. There is a striking difference in the status of PHX ribosomal protein (RP) genes where the archaeal genome generally encodes more RP genes and fewer PHX RPs compared with bacterial genomes. The increase in RPs in archaea and eukaryotes compared with that in bacteria may reflect a more complex set of interactions in archaea and eukaryotes in regulating translation, e.g., differences in structure requiring scaffolding of longer rRNA molecules, expanded interactions with the chaperone machinery, and, in eukaryotic interactions with endoplasmic reticulum components. The yeast genome is similar to fast-growing bacteria in PHX genes but also features several cytoskeletal genes, including actin and tropomyosin, and several signal transduction regulatory proteins from the 14.3.3 family. The most PHX genes of Drosophila encode cytoskeletal and exoskeletal proteins. We found that the preference of a microorganism for an anaerobic metabolism correlates with the number of PHX enzymes of the glycolysis pathway that well exceeds the number of PHX enzymes acting in the tricarboxylic acid cycle. Conversely, if the number of PHX enzymes of the tricarboxylic acid cycle well exceeds the PHX enzymes of glycolysis, an aerobic metabolism is preferred. Where the numbers are approximately commensurate, a facultative growth behavior prevails.
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