2021
Viviparity and habitat restrictions may influence the evolution of male reproductive genes in tsetse fly (Glossina) species
Savini G, Scolari F, Ometto L, Rota-Stabelli O, Carraretto D, Gomulski LM, Gasperi G, Abd-Alla AMM, Aksoy S, Attardo GM, Malacrida AR. Viviparity and habitat restrictions may influence the evolution of male reproductive genes in tsetse fly (Glossina) species. BMC Biology 2021, 19: 211. PMID: 34556101, PMCID: PMC8461966, DOI: 10.1186/s12915-021-01148-4.Peer-Reviewed Original ResearchConceptsMale reproductive genesReproductive genesSelective pressureHabitat restrictionLong evolutionary time scalesFunctional selective pressuresPost-zygotic isolationComparative genomics approachReproductive behaviorEvolutionary time scalesUnique reproductive strategyLong evolutionary historyStrong selective pressureDivergent demographic historiesMale reproductive biologyTsetse fly speciesGenomic conflictAdenotrophic viviparityParental genomesGenomic approachesAllopatric distributionsEvolutionary historyDemographic historyReproductive biologyEvolutionary treeGenomic analyses of new genes and their phenotypic effects reveal rapid evolution of essential functions in Drosophila development
Xia S, VanKuren NW, Chen C, Zhang L, Kemkemer C, Shao Y, Jia H, Lee U, Advani AS, Gschwend A, Vibranovski MD, Chen S, Zhang YE, Long M. Genomic analyses of new genes and their phenotypic effects reveal rapid evolution of essential functions in Drosophila development. PLOS Genetics 2021, 17: e1009654. PMID: 34242211, PMCID: PMC8270118, DOI: 10.1371/journal.pgen.1009654.Peer-Reviewed Original ResearchConceptsNew genesPhenotypic effectsEssential functionsLong evolutionary time scalesDevelopment of DrosophilaEvolutionary time scalesDrosophila developmentDrosophila genusEssential genesGene essentialityRNAi libraryYoung genesGenomic analysisCRISPR knockoutKnockout approachGenetic basisKnockdown experimentsComputational identificationGene effectsGenesDuplicate copiesRapid evolutionDrosophilaKnockdown efficiencyDistant ancestors
2016
Identifying Allosteric Hotspots with Dynamics: Application to Inter- and Intra-species Conservation
Clarke D, Sethi A, Li S, Kumar S, Chang RW, Chen J, Gerstein M. Identifying Allosteric Hotspots with Dynamics: Application to Inter- and Intra-species Conservation. Structure 2016, 24: 826-837. PMID: 27066750, PMCID: PMC4883016, DOI: 10.1016/j.str.2016.03.008.Peer-Reviewed Original ResearchConceptsAllosteric residuesIntra-species conservationEvolutionary time scalesDisease-Associated VariantsProtein conformational changesSelective constraintsAllosteric hotspotsSequencing initiativesOwn proteinsInformation-flow bottlenecksDeep sequencingConformational changesDisease locusBiophysical reasonsResiduesSurface pocketsConservationAllosteryLociSequencingProteinHotspotsPocketPDBVariants
2006
Adaptive Mutations In RNA-Based Regulatory Mechanisms: Computational and Experimental Investigations
Barash D, Sikorski J, Perry E, Nevo E, Nudler E. Adaptive Mutations In RNA-Based Regulatory Mechanisms: Computational and Experimental Investigations. Israel Journal Of Ecology And Evolution 2006, 52: 263-279. DOI: 10.1560/ijee_52_3-4_263.Peer-Reviewed Original ResearchTPP riboswitchRegulatory mechanismsEvolution CanyonTermination efficiencyTranscription terminationNorth-facing slopesAdaptive mutationsEvolutionary time scalesGenetic control elementsRNA genetic control elementsBeneficial fitness effectsClass of RNAsMesic north-facing slopeParticipation of proteinsLevel of RNAModel systemOrganism's fitnessFitness effectsBeneficial mutationsTranslation initiationAncient originGC contentNonrandom mutationsPromoter regionMutational differences
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