Conservation of mRNA secondary structures may filter out mutations in Escherichia coli evolution

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1、NucleicAcidsResearchAdvanceAccesspublishedJune19,2013NucleicAcidsResearch,2013,1–7doi:10.1093/nar/gkt507ConservationofmRNAsecondarystructuresmayfilteroutmutationsinEscherichiacolievolution11,2,3,AndreyChursov,DmitrijFrishman*andAlexanderShneider*1DepartmentofGenomeOrientedBioinformatic

2、s,TechnischeUniversita¨tMu¨nchen,Wissenschaftzentrum2Weihenstephan,Maximus-von-Imhof-Forum3,D-85354,Freising,Germany,HelmholtzCenterMunich—GermanResearchCenterforEnvironmentalHealth(GmbH),InstituteofBioinformaticsandSystemsBiology,Ingolsta¨dter3Landstraße1,D-85764Neuherberg,GermanyandC

3、ureLab,Inc.,43RyburyHillway,Needham,MA02492,USAReceivedJanuary11,2013;RevisedApril29,2013;AcceptedMay1,2013ABSTRACToftranslationinitiation,elongationandterminationinbothprokaryotesandeukaryotes(4,5).Inparticular,theRecentreportsindicatethatmutationsinviralDownloadedfromanti-correlation

4、betweentranslationefficiencyandthegenomestendtopreserveRNAsecondarystructure,thermodynamicstabilityoflocalsecondarystructureinandthosemutationsthatdisruptsecondarystruc-thevicinityofthetranslationinitiationsitehasbeenthor-turalelementsmayreducegeneexpressionlevels,oughlydocumented(6).RN

5、Ahairpinsarethoughttotherebyservingasafunctionalknockout.InthisbeinvolvedincontrollingmRNAdecay(7),localizationarticle,weexploretheconservationofsecondary(8–10)andinteractionwithothermolecules(11).Overall,http://nar.oxfordjournals.org/structuresofmRNAcodingregions,apreviouslythemRNAcod

6、ingregionsappeartobemorestructuredunknownfactorinbacterialevolution,bycomparingthantheuntranslatedregions(1)andhavelowerthestructuralconsequencesofmutationsinessentialminimumfoldingfreeenergies.Hence,themRNAcodingregionsappeartohavemorestablestructuresandnonessentialEscherichiacoligene

7、saccumulatedthancodon-randomizedsequences(12).Owingtotheover40000generationsinthecourseofthe‘long-needtosimultaneouslypreserveboththefunctionandtermevolutionexperiment’.Wemonitoredthestructureoftheencodedprotein,aswellasthestructuralextenttowhichmutationsinfluenceminimumfreeelementso