ArticleArchaea (Vancouver, B.C.)2008
Classification and regression tree (CART) analyses of genomic signatures reveal sets of tetramers that discriminate temperature optima of archaea and bacteria.
Article in Archaea (Vancouver, B.C.), 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 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
6 citing papers in PubMed.
- Global microbial DNA signatures of temperature and nutrient limitation across ecosystems.Nature microbiology · 2026Article
- Enhancing Taxonomic Categorization of DNA Sequences with Deep Learning: A Multi-Label Approach.Bioengineering (Basel, Switzerland) · 2023Article
- Environment and taxonomy shape the genomic signature of prokaryotic extremophiles.Scientific reports · 2023Article
- Rapid Bioinformatic Identification of Thermostabilizing Mutations.Biophysical journal · 2015Article
- Comparative analysis to identify determinants of changing life style in Thermosynechococcus elongatus BP-1, a thermophilic cyanobacterium.Bioinformation · 2013Article
- Microbial lifestyle and genome signatures.Current genomics · 2012Article
Corrections and comments
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Authors and funding
3 authors.
Funding
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Abstract
Classification and regression tree (CART) analysis was applied to genome-wide tetranucleotide frequencies (genomic signatures) of 195 archaea and bacteria. Although genomic signatures have typically been used to classify evolutionary divergence, in this study, convergent evolution was the focus. Temperature optima for most of the organisms examined could be distinguished by CART analyses of tetranucleotide frequencies. This suggests that pervasive (nonlinear) qualities of genomes may reflect certain environmental conditions (such as temperature) in which those genomes evolved. The predominant use of GAGA and AGGA as the discriminating tetramers in CART models suggests that purine-loading and codon biases of thermophiles may explain some of the results.
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