ArticleGenome biology and evolution2013
All or nothing: protein complexes flip essentiality between distantly related eukaryotes.
Article in Genome biology and evolution, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
17 citing papers in PubMed, 42 citations in OpenAlex.
- Recent advances in the characterization of essential genes and development of a database of essential genes.iMeta · 2024Review
- Recovering false negatives in CRISPR fitness screens with JLOE.Nucleic acids research · 2023Article
- Article
- Article
- Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes.Genome biology and evolution · 2022Article
- Mitotic spindle formation in the absence of Polo kinase.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Evolutionary rewiring of regulatory networks contributes to phenotypic differences between human and mouse orthologous genes.Nucleic acids research · 2022Article
- Paralog buffering contributes to the variable essentiality of genes in cancer cell lines.PLoS genetics · 2019Article
- Link clustering explains non-central and contextually essential genes in protein interaction networks.Scientific reports · 2019Article
- Emerging and evolving concepts in gene essentiality.Nature reviews. Genetics · 2018Review
- A centrality measure for cycles and subgraphs II.Applied network science · 2018Article
- A High-Resolution Genome-Wide CRISPR/Cas9 Viability Screen Reveals Structural Features and Contextual Diversity of the Human Cell-Essential Proteome.Molecular and cellular biology · 2018Article
- Computational discovery of pathway-level genetic vulnerabilities in non-small-cell lung cancer.Bioinformatics (Oxford, England) · 2016Article
- Why are essential genes essential? - The essentiality ofMicrobial cell (Graz, Austria) · 2015Review
- Protein complexes in bacteria.PLoS computational biology · 2015Article
- Identification of Essential Proteins Based on a New Combination of Local Interaction Density and Protein Complexes.PloS one · 2015Article
- Protein-protein Interaction Networks of E. coli and S. cerevisiae are similar.Scientific reports · 2014Article
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 2 institutions in 2 countries.
Funding
Abstract
In the budding yeast Saccharomyces cerevisiae, the subunits of any given protein complex are either mostly essential or mostly nonessential, suggesting that essentiality is a property of molecular machines rather than individual components. There are exceptions to this rule, however, that is, nonessential genes in largely essential complexes and essential genes in largely nonessential complexes. Here, we provide explanations for these exceptions, showing that redundancy within complexes, as revealed by genetic interactions, can explain many of the former cases, whereas "moonlighting," as revealed by membership of multiple complexes, can explain the latter. Surprisingly, we find that redundancy within complexes cannot usually be explained by gene duplication, suggesting alternate buffering mechanisms. In the distantly related Schizosaccharomyces pombe, we observe the same phenomenon of modular essentiality, suggesting that it may be a general feature of eukaryotes. Furthermore, we show that complexes flip essentiality in a cohesive fashion between the two species, that is, they tend to change from mostly essential to mostly nonessential, or vice versa, but not to mixed patterns. We show that these flips in essentiality can be explained by differing lifestyles of the two yeasts. Collectively, our results support a previously proposed model where proteins are essential because of their involvement in essential functional modules rather than because of specific topological features such as degree or centrality.
Indexed as
Identifiers
What OpenQuestion holds
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.