ArticlePloS one2010
Inferring the ancient history of the translation machinery and genetic code via recapitulation of ribosomal subunit assembly orders.
Article in PloS one, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Article
- TwinCons: Conservation score for uncovering deep sequence similarity and divergence.PLoS computational biology · 2021Article
- Identification of a circular code periodicity in the bacterial ribosome: origin of codon periodicity in genes?RNA biology · 2020Article
- Circular code motifs in the ribosome: a missing link in the evolution of translation?RNA (New York, N.Y.) · 2019Article
- The ribosome challenge to the RNA world.Journal of molecular evolution · 2015Review
- How amino acids and peptides shaped the RNA world.Life (Basel, Switzerland) · 2015Review
- 'Geoarchaeote NAG1' is a deeply rooting lineage of the archaeal order Thermoproteales rather than a new phylum.The ISME journal · 2014Article
- The evolution of the ribosome and the genetic code.Life (Basel, Switzerland) · 2014Article
- RBF1, a plant homolog of the bacterial ribosome-binding factor RbfA, acts in processing of the chloroplast 16S ribosomal RNA.Plant physiology · 2014Article
- Molecular paleontology: a biochemical model of the ancestral ribosome.Nucleic acids research · 2013Article
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Authors and funding
3 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Universally conserved positions in ribosomal proteins have significant biases in amino acid usage, likely indicating the expansion of the genetic code at the time leading up to the most recent common ancestor(s) (MRCA). Here, we apply this principle to the evolutionary history of the ribosome before the MRCA. It has been proposed that the experimentally determined order of assembly for ribosomal subunits recapitulates their evolutionary chronology. Given this model, we produce a probabilistic evolutionary ordering of the universally conserved small subunit (SSU) and large subunit (LSU) ribosomal proteins. Optimizing the relative ordering of SSU and LSU evolutionary chronologies with respect to minimizing differences in amino acid usage bias, we find strong compositional evidence for a more ancient origin for early LSU proteins. Furthermore, we find that this ordering produces several trends in specific amino acid usages compatible with models of genetic code evolution.
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