ArticleGenome biology2006
An inventory of yeast proteins associated with nucleolar and ribosomal components.
Article in Genome biology, 2006. 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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Who cites it
6 citing papers in PubMed.
- FuNGI: Fungal Nucleolar Genomic Inventory-a comprehensive database of fungal proteins with predicted nucleolar localization signals.Database : the journal of biological databases and curation · 2026Article
- Nucleolar origins: challenging perspectives on evolution and function.Open biology · 2025Review
- Production of nascent ribosome precursors within the nucleolar microenvironment of Saccharomyces cerevisiae.Genetics · 2022Article
- Mass spectrometric identification of proteins that interact through specific domains of the poly(A) binding protein.Molecular genetics and genomics : MGG · 2012Article
- PNAC: a protein nucleolar association classifier.BMC genomics · 2011Article
- Common gene expression strategies revealed by genome-wide analysis in yeast.Genome biology · 2007Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAlthough baker's yeast is a primary model organism for research on eukaryotic ribosome assembly and nucleoli, the list of its proteins that are functionally associated with nucleoli or ribosomes is still incomplete. We trained a naïve Bayesian classifier to predict novel proteins that are associated with yeast nucleoli or ribosomes based on parts lists of nucleoli in model organisms and large-scale protein interaction data sets. Phylogenetic profiling and gene expression analysis were carried out to shed light on evolutionary and regulatory aspects of nucleoli and ribosome assembly.
resultsWe predict that, in addition to 439 known proteins, a further 62 yeast proteins are associated with components of the nucleolus or the ribosome. The complete set comprises a large core of archaeal-type proteins, several bacterial-type proteins, but mostly eukaryote-specific inventions. Expression of nucleolar and ribosomal genes tends to be strongly co-regulated compared to other yeast genes.
conclusionThe number of proteins associated with nucleolar or ribosomal components in yeast is at least 14% higher than known before. The nucleolus probably evolved from an archaeal-type ribosome maturation machinery by recruitment of several bacterial-type and mostly eukaryote-specific factors. Not only expression of ribosomal protein genes, but also expression of genes encoding the 90S processosome, are strongly co-regulated and both regulatory programs are distinct from each other.
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