Conservation and Rewiring of Functional Modules Revealed by an Epistasis Map in Fission Yeast

By Assen Roguev, Sourav Bandyopadhyay, M. Zofall, Ke Zhang, Tamás Fischer, Sean R. Collins, Hongjing Qu, M. Shales, Han-Oh Park, J. Hayles and 6 more. 2008

375 citations recorded by the source corpus.

An epistasis map (E-MAP) was constructed in the fission yeast, Schizosaccharomyces pombe, by systematically measuring the phenotypes associated with pairs of mutations. This high-density, quantitative genetic interaction map focused on various aspects of chromosome function, including transcription regulation and DNA repair/replication. The E-MAP uncovered a previously unidentified component of the RNA interference (RNAi) machinery (rsh1) and linked the RNAi pathway to several other biological processes. Comparison of the S. pombe E-MAP to an analogous genetic map from the budding yeast revealed that, whereas negative interactions were conserved between genes involved in similar biological processes, positive interactions and overall genetic profiles between pairs of genes coding for physically associated proteins were even more conserved. Hence, conservation occurs at the level of the functional module (protein complex), but the genetic cross talk between modules can differ substantially.

Subfields: Molecular Biology

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Citations in the corpus

An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man (vol 140, pg 744, 2010) (2010, neutral): “A comparison of genetic networks (synthetic lethal and epistatic interactions) also found extreme rates of divergence (Roguev et al., 2008).”
Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe (2010, background): “For example, a partial collection of the viable haploid deletions has been distributed to ∼25 laboratories and studies from two laboratories have shown that there is considerable conservation of synthetic lethal genetic interactions with budding yeast as well as rewiring of some functionally conserv”
Tn-seq; high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms (2009, background): “Other large categories include uncharacterized genes (13) and transcriptional regulators (6).”
A global interaction network maps a wiring diagram of cellular function (2016, background): “It is clear that the digenic interactions we have mapped in yeast can be conserved in different yeast species over hundreds of millions of years of evolution (49, 50).”
A proteome-wide fission yeast interactome reveals network evolution principles from yeasts to human (2016, background): “…basis of genetic interactions, it has been earlier hypothesized that while individual functional modules (legend continued on next page) Cell 164 , 310–323, January 14, 2016 ª 2016 Elsevier Inc. 315 are conserved, inter-modular connectivity could be rewired across evolution (Roguev et al., 2008).”
Phenotypic Landscape of a Bacterial Cell (2010, neutral): “pombe (Roguev et al., 2008).”
Differential network biology (2012, methodology): “For example, Roguev et al (2008) revealed that protein complexes were highly conserved between the different yeasts, but that the genetic interactions between protein complexes had diverged signiﬁcantly.”
An atlas of combinatorial transcriptional regulation in mouse and man (2010, neutral): “A comparison of genetic networks (synthetic lethal and epistatic interactions) also found extreme rates of divergence (Roguev et al., 2008).”
Structure and dynamics of molecular networks: A novel paradigm of drug discovery: A comprehensive review (2012, background): “It is plausible that many genetic interactions identified in these unicellular organisms can be relevant for all other eukaryotes (Tong et al., 2004; Dixon et al., 2008, 2009; Roguev et al., 2008; Costanzo et al., 2010).”
Quantitative analysis of fitness and genetic interactions in yeast on a genome scale (2010, positive): “Although our primary goal was to develop a scoring system for extracting accurate fitness estimates and genetic interactions from genome-scale screens in budding yeast, our methodology can be applied to map genetic interactions in other organisms, including different yeast specie”