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dc.contributor.authorMotwalli, Olaa Amin*
dc.contributor.authorEssack, Magbubah*
dc.contributor.authorJankovic, Boris R.*
dc.contributor.authorJi, Boyang*
dc.contributor.authorLiu, Xinyao*
dc.contributor.authorAnsari, Hifzur*
dc.contributor.authorHoehndorf, Robert*
dc.contributor.authorGao, Xin*
dc.contributor.authorArold, Stefan T.*
dc.contributor.authorMineta, Katsuhiko*
dc.contributor.authorArcher, John*
dc.contributor.authorGojobori, Takashi*
dc.contributor.authorMijakovic, Ivan*
dc.contributor.authorBajic, Vladimir B.*
dc.date.accessioned2017-06-06T07:44:33Z
dc.date.available2017-06-06T07:44:33Z
dc.date.created2017-01-06en
dc.date.issued2017en
dc.identifier.citationOlaa Motwalli, Magbubah Essack, Jankovic, B., Boyang Ji, Xinyao Liu, Hifzur Ansari, … Bajic, V. (2017). In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria. Figshare. https://doi.org/10.6084/m9.figshare.c.3658880en
dc.identifier.doi10.6084/m9.figshare.c.3658880en
dc.identifier.urihttp://hdl.handle.net/10754/624143
dc.description.abstractAbstract Background Finding a source from which high-energy-density biofuels can be derived at an industrial scale has become an urgent challenge for renewable energy production. Some microorganisms can produce free fatty acids (FFA) as precursors towards such high-energy-density biofuels. In particular, photosynthetic cyanobacteria are capable of directly converting carbon dioxide into FFA. However, current engineered strains need several rounds of engineering to reach the level of production of FFA to be commercially viable; thus new chassis strains that require less engineering are needed. Although more than 120 cyanobacterial genomes are sequenced, the natural potential of these strains for FFA production and excretion has not been systematically estimated. Results Here we present the FFA SC (FFASC), an in silico screening method that evaluates the potential for FFA production and excretion of cyanobacterial strains based on their proteomes. A literature search allowed for the compilation of 64 proteins, most of which influence FFA production and a few of which affect FFA excretion. The proteins are classified into 49 orthologous groups (OGs) that helped create rules used in the scoring/ranking of algorithms developed to estimate the potential for FFA production and excretion of an organism. Among 125 cyanobacterial strains, FFASC identified 20 candidate chassis strains that rank in their FFA producing and excreting potential above the specifically engineered reference strain, Synechococcus sp. PCC 7002. We further show that the top ranked cyanobacterial strains are unicellular and primarily include Prochlorococcus (order Prochlorales) and marine Synechococcus (order Chroococcales) that cluster phylogenetically. Moreover, two principal categories of enzymes were shown to influence FFA production the most: those ensuring precursor availability for the biosynthesis of lipids, and those involved in handling the oxidative stress associated to FFA synthesis. Conclusion To our knowledge FFASC is the first in silico method to screen cyanobacteria proteomes for their potential to produce and excrete FFA, as well as the first attempt to parameterize the criteria derived from genetic characteristics that are favorable/non-favorable for this purpose. Thus, FFASC helps focus experimental evaluation only on the most promising cyanobacteria.en
dc.publisherFigshareen
dc.rightsCC BYen
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en
dc.subjectBiochemistryen
dc.subjectGeneticsen
dc.subjectMolecular Biologyen
dc.subjectBiotechnologyen
dc.subjectEvolutionary Biologyen
dc.subjectEcologyen
dc.subjectInorganic Chemistryen
dc.subjectInfectious Diseasesen
dc.titleSupplementary Material for: In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteriaen
dc.typeDataseten
dc.contributor.departmentComputer Science Program*
dc.contributor.departmentComputational Bioscience Research Center (CBRC)*
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division*
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division*
kaust.authorMotwalli, Olaa Amin*
kaust.authorEssack, Magbubah*
kaust.authorJankovic, Boris R.*
kaust.authorHoehndorf, Robert*
kaust.authorGao, Xin*
kaust.authorArold, Stefan T.*
kaust.authorMineta, Katsuhiko*
kaust.authorGojobori, Takashi*
kaust.authorBajic, Vladimir B.*
dc.type.resourceCollectionen
dc.relation.isSupplementToMotwalli O, Essack M, Jankovic BR, Ji B, Liu X, et al. (2017) In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria. BMC Genomics 18. Available: http://dx.doi.org/10.1186/s12864-016-3389-4.en
dc.relation.isSupplementToDOI:10.1186/s12864-016-3389-4en
dc.relation.isSupplementToHANDLE:http://hdl.handle.net/10754/622638en


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