RNA polymerase mutants found through adaptive evolution reprogram Escherichia coli for optimal growth in minimal media

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dc.contributor.authorConrad, Tom M.ko
dc.contributor.authorFrazier, Michaelko
dc.contributor.authorJoyce, Andrew R.ko
dc.contributor.authorCho, Byung-Kwanko
dc.contributor.authorKnight, Eric M.ko
dc.contributor.authorLewis, Nathan E.ko
dc.contributor.authorLandick, Robertko
dc.contributor.authorPalsson, Bernhard O.ko
dc.date.accessioned2013-03-09T20:00:46Z-
dc.date.available2013-03-09T20:00:46Z-
dc.date.created2012-02-06-
dc.date.created2012-02-06-
dc.date.issued2010-11-
dc.identifier.citationPROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, v.107, no.47, pp.20500 - 20505-
dc.identifier.issn0027-8424-
dc.identifier.urihttp://hdl.handle.net/10203/97350-
dc.description.abstractSpecific small deletions within the rpoC gene encoding the beta'-subunit of RNA polymerase (RNAP) are found repeatedly after adaptation of Escherichia coli K-12 MG1655 to growth in minimal media. Here we present a multiscale analysis of these mutations. At the physiological level, the mutants grow 60% faster than the parent strain and convert the carbon source 15-35% more efficiently to biomass, but grow about 30% slower than the parent strain in rich medium. At the molecular level, the kinetic parameters of the mutated RNAP were found to be altered, resulting in a 4- to 30-fold decrease in open complex longevity at an rRNA promoter and a similar to 10-fold decrease in transcriptional pausing, with consequent increase in transcript elongation rate. At a genome-scale, systems biology level, gene expression changes between the parent strain and adapted RNAP mutants reveal large-scale systematic transcriptional changes that influence specific cellular processes, including strong down-regulation of motility, acid resistance, fimbria, and curlin genes. RNAP genome-binding maps reveal redistribution of RNAP that may facilitate relief of a metabolic bottleneck to growth. These findings suggest that reprogramming the kinetic parameters of RNAP through specific mutations allows regulatory adaptation for optimal growth in new environments.-
dc.languageEnglish-
dc.publisherNATL ACAD SCIENCES-
dc.subjectAMINO-ACID STARVATION-
dc.subjectTRANSCRIPTION ELONGATION-
dc.subjectSTRINGENT RESPONSE-
dc.subjectGENE-EXPRESSION-
dc.subjectRPOB MUTANTS-
dc.subjectARRAY DATA-
dc.subjectMUTATIONS-
dc.subjectPPGPP-
dc.subjectTERMINATION-
dc.subjectINITIATION-
dc.titleRNA polymerase mutants found through adaptive evolution reprogram Escherichia coli for optimal growth in minimal media-
dc.typeArticle-
dc.identifier.wosid000284529000065-
dc.identifier.scopusid2-s2.0-78650546051-
dc.type.rimsART-
dc.citation.volume107-
dc.citation.issue47-
dc.citation.beginningpage20500-
dc.citation.endingpage20505-
dc.citation.publicationnamePROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA-
dc.identifier.doi10.1073/pnas.0911253107-
dc.contributor.localauthorCho, Byung-Kwan-
dc.contributor.nonIdAuthorConrad, Tom M.-
dc.contributor.nonIdAuthorFrazier, Michael-
dc.contributor.nonIdAuthorJoyce, Andrew R.-
dc.contributor.nonIdAuthorKnight, Eric M.-
dc.contributor.nonIdAuthorLewis, Nathan E.-
dc.contributor.nonIdAuthorLandick, Robert-
dc.contributor.nonIdAuthorPalsson, Bernhard O.-
dc.type.journalArticleArticle-
dc.subject.keywordAuthorkinetics-
dc.subject.keywordAuthorstringent response-
dc.subject.keywordAuthortranscription-
dc.subject.keywordPlusAMINO-ACID STARVATION-
dc.subject.keywordPlusTRANSCRIPTION ELONGATION-
dc.subject.keywordPlusSTRINGENT RESPONSE-
dc.subject.keywordPlusGENE-EXPRESSION-
dc.subject.keywordPlusRPOB MUTANTS-
dc.subject.keywordPlusARRAY DATA-
dc.subject.keywordPlusMUTATIONS-
dc.subject.keywordPlusPPGPP-
dc.subject.keywordPlusTERMINATION-
dc.subject.keywordPlusINITIATION-
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