Search results for "correlated evolution"

showing 2 items of 2 documents

Protein-protein interactions can be predicted using coiled coil co-evolution patterns

2016

AbstractProtein-protein interactions are sometimes mediated by coiled coil structures. The evolutionary conservation of interacting orthologs in different species, along with the presence or absence of coiled coils in them, may help in the prediction of interacting pairs. Here, we illustrate how the presence of coiled coils in a protein can be exploited as a potential indicator for its interaction with another protein with coiled coils. The prediction capability of our strategy improves when restricting our dataset to highly reliable, known protein-protein interactions. Our study of the co-evolution of coiled coils demonstrates that pairs of interacting proteins can be distinguished from no…

0301 basic medicineStatistics and ProbabilityComputational biologyCorrelated evolutionGeneral Biochemistry Genetics and Molecular BiologyProtein Structure SecondaryProtein–protein interactionConserved sequenceEvolution Molecular03 medical and health sciencesProtein-protein interactionModelling and SimulationImmunology and Microbiology(all)Coiled coilGeneticsCoiled coilPhysicsMedicine(all)030102 biochemistry & molecular biologyGeneral Immunology and MicrobiologyAgricultural and Biological Sciences(all)Models GeneticBiochemistry Genetics and Molecular Biology(all)Applied MathematicsA proteinProteinsGeneral Medicine030104 developmental biologyModeling and SimulationGeneral Agricultural and Biological SciencesJournal of Theoretical Biology
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Testing the Domino Theory of Gene Loss in Buchnera aphidicola: The Relevance of Epistatic Interactions

2018

The domino theory of gene loss states that when some particular gene loses its function and cripples a cellular function, selection will relax in all functionally related genes, which may allow for the non-functionalization and loss of these genes. Here we study the role of epistasis in determining the pattern of gene losses in a set of genes participating in cell envelope biogenesis in the endosymbiotic bacteria Buchnera aphidicola. We provide statistical evidence indicating pairs of genes in B. aphidicola showing correlated gene loss tend to have orthologs in Escherichia coli known to have alleviating epistasis. In contrast, pairs of genes in B. aphidicola not showing correlated gene loss…

0301 basic medicinemedicine.disease_causeGenomeGeneral Biochemistry Genetics and Molecular BiologyArticlegene interactions03 medical and health sciencesmedicinecorrelated evolutionlcsh:Sciencegenome reductionEscherichia coliGeneEcology Evolution Behavior and SystematicsGeneticsbiologyPaleontologybiology.organism_classification030104 developmental biologySpace and Planetary Scienceendosymbiotic bacteriaProteomeEpistasislcsh:QBuchneraBiogenesisFunction (biology)Life
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