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dc.contributor.authorZhang, Zhang
dc.contributor.authorYu, Jun
dc.date.accessioned2015-05-07T13:23:10Z
dc.date.available2015-05-07T13:23:10Z
dc.date.issued2011-06-24
dc.identifier.citationOn the Organizational Dynamics of the Genetic Code 2011, 9 (1-2):21 Genomics, Proteomics & Bioinformatics
dc.identifier.issn16720229
dc.identifier.pmid21641559
dc.identifier.doi10.1016/S1672-0229(11)60004-1
dc.identifier.urihttp://hdl.handle.net/10754/552438
dc.description.abstractThe organization of the canonical genetic code needs to be thoroughly illuminated. Here we reorder the four nucleotides—adenine, thymine, guanine and cytosine—according to their emergence in evolution, and apply the organizational rules to devising an algebraic representation for the canonical genetic code. Under a framework of the devised code, we quantify codon and amino acid usages from a large collection of 917 prokaryotic genome sequences, and associate the usages with its intrinsic structure and classification schemes as well as amino acid physicochemical properties. Our results show that the algebraic representation of the code is structurally equivalent to a content-centric organization of the code and that codon and amino acid usages under different classification schemes were correlated closely with GC content, implying a set of rules governing composition dynamics across a wide variety of prokaryotic genome sequences. These results also indicate that codons and amino acids are not randomly allocated in the code, where the six-fold degenerate codons and their amino acids have important balancing roles for error minimization. Therefore, the content-centric code is of great usefulness in deciphering its hitherto unknown regularities as well as the dynamics of nucleotide, codon, and amino acid compositions.
dc.publisherElsevier BV
dc.relation.urlhttp://linkinghub.elsevier.com/retrieve/pii/S1672022911600041
dc.rightsArchived with thanks to Genomics, Proteomics & Bioinformatics. http://creativecommons.org/licenses/by-nc-sa/3.0/
dc.subjectgenetic code
dc.subjectcodon
dc.subjectGC content
dc.subjectpurine content
dc.subjectorganizational dynamics
dc.subjectcompositional dynamics
dc.titleOn the Organizational Dynamics of the Genetic Code
dc.typeArticle
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.contributor.departmentPlant Stress Genomics Research Lab
dc.identifier.journalGenomics, Proteomics & Bioinformatics
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionCAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China
kaust.personZhang, Zhang
kaust.personYu, Jun
refterms.dateFOA2018-06-13T12:35:13Z
dc.date.published-online2011-06-24
dc.date.published-print2011-04


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