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Biol."],"published-print":{"date-parts":[[2019,3]]},"abstract":"<jats:sec>\n                    <jats:title>Background<\/jats:title>\n                    <jats:p>\n                      In this work, we study two seemingly unrelated aspects of core genetic nonlinear dynamical control of the competence phenotype in\n                      <jats:italic>Bacillus subtilis<\/jats:italic>\n                      , a common Gram\u2010positive bacterium living in the soil.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>We focus on hitherto unchartered aspects of the dynamics by exploring the effect of time\u2010scale separation between transcription and translation and, as well, the effect of intrinsic molecular stochasticity. We consider these aspects of regulatory control as two possible evolutionary handles.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>Hence, using theory and computations, we study how the onset of oscillations breaks the excitability\u2010based competence phenotype in two topologically close evolutionary\u2010competing circuits: the canonical \u201cwild\u2010type\u201d regulation circuit selected by Evolution and the corresponding indirect\u2010feedback inverted circuit that failed to be selected by Evolution, as was shown elsewhere, due to dynamical reasons.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusions<\/jats:title>\n                    <jats:p>\n                      Relying on\n                      <jats:italic>in\u2010silico<\/jats:italic>\n                      perturbation of the living state, we show that the canonical core genetic regulation of excitability\u2010based competence is more robust against switching to phenotype\u2010breaking oscillations than the inverted feedback organism. We show how this is due to time\u2010scale separation and stochasticity.\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.1007\/s40484-018-0151-8","type":"journal-article","created":{"date-parts":[[2018,10,23]],"date-time":"2018-10-23T18:12:14Z","timestamp":1540318334000},"page":"54-68","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Time\u2010scale separation and stochasticity conspire to impact phenotypic dynamics in the canonical and inverted\n                    <i>Bacillus subtilis<\/i>\n                    core genetic regulation circuits"],"prefix":"10.1002","volume":"7","author":[{"given":"Lijie","family":"Hao","sequence":"first","affiliation":[{"name":"<!--1--> School of Mathematics and Systems Science and LMIB Beihang University Beijing 100191 China"}]},{"given":"Zhuoqin","family":"Yang","sequence":"additional","affiliation":[{"name":"<!--1--> School of Mathematics and Systems Science and LMIB Beihang University Beijing 100191 China"}]},{"given":"Marc","family":"Turcotte","sequence":"additional","affiliation":[{"name":"<!--2--> University of Texas at Dallas Richardson TX 75080 USA"}]}],"member":"311","published-online":{"date-parts":[[2019,3]]},"reference":[{"key":"e_1_2_10_2_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature09326"},{"key":"e_1_2_10_3_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2009.07.046"},{"key":"e_1_2_10_4_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0707965104"},{"key":"e_1_2_10_5_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0806349105"},{"key":"e_1_2_10_6_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature04588"},{"key":"e_1_2_10_7_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.1137455"},{"key":"e_1_2_10_8_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.micro.53.1.217"},{"key":"e_1_2_10_9_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.ge.29.120195.002401"},{"key":"e_1_2_10_10_2","doi-asserted-by":"publisher","DOI":"10.1128\/mr.55.3.395-424.1991"},{"key":"e_1_2_10_11_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365\u20102958.1991.tb01820.x"},{"key":"e_1_2_10_12_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2009.06.013"},{"key":"e_1_2_10_13_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.bpj.2010.05.036"},{"key":"e_1_2_10_14_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jmb.2010.09.028"},{"key":"e_1_2_10_15_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.sbi.2013.07.001"},{"key":"e_1_2_10_16_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jmb.2014.04.017"},{"key":"e_1_2_10_17_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598\u2010017\u201007761\u20100"},{"key":"e_1_2_10_18_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev\u2010biophys\u2010070816\u2010033819"},{"key":"e_1_2_10_19_2","doi-asserted-by":"publisher","DOI":"10.1016\/0021\u20109991(76)90041\u20103"},{"key":"e_1_2_10_20_2","doi-asserted-by":"publisher","DOI":"10.1021\/j100540a008"},{"key":"e_1_2_10_21_2","doi-asserted-by":"publisher","DOI":"10.1063\/1.1378322"},{"key":"e_1_2_10_22_2","doi-asserted-by":"publisher","DOI":"10.1016\/0021\u20109991(76)90041\u20103"},{"key":"e_1_2_10_23_2","doi-asserted-by":"publisher","DOI":"10.1021\/j100540a008"},{"key":"e_1_2_10_24_2","volume-title":"Markov Processes: An Introduction for Physical Scientists","author":"Gillespie D. 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