Please use this identifier to cite or link to this item: http://hdl.handle.net/10261/47066
Título : A close relationship between primary nucleotides sequence structure and the composition of functional genes in the genome of prokaryotes
Autor : García, Juan A. L., Fernàndez-Guerra, Antoni, Casamayor, Emilio O.
Palabras clave : DNA walk
Detrended fluctuation analysis (DFA)
Microbial ecology
Long-range correlation
Comparative genome analyses
Large-scale genome structure
Fecha de publicación : 2011
Editor: Elsevier
Citación : Molecular Phylogenetics and Evolution 61(3) : 650-658 (2011)
Resumen: Comparative genomics is an essential tool to unravel how genomes change over evolutionary time and to gain clues on the links between functional genomics and evolution. In prokaryotes, the large, good quality, genome sequences available in public databases and the recently developed large-scale computational methods, offer an unprecedent view on the ecology and evolution of microorganisms through comparative genomics. In this work, we examined the links among genome structure (i.e., the sequential distribution of nucleotides itself by detrended fluctuation analysis, DFA) and genomic diversity (i.e., gene functionality by Clusters of Orthologous Genes, COGs) in 828 full sequenced prokaryotic genomes from 548 different bacteria and archaea species. DFA scaling exponent a indicated persistent long-range correlations (fractality) in each genome analyzed. Higher resolution power was found when considering the sequential succession of purine (AG) vs. pyrimidine (CT) bases than either keto (GT) to amino (AC) forms or strongly (GC) vs. weakly (AT) bonded nucleotides. Interestingly, the phyla Aquificae, Fusobacteria, Dictyoglomi, Nitrospirae, and Thermotogae were closer to archaea than to their bacterial counterparts. A strong significant correlation was found between scaling exponent a and COGs distribution, and we consistently observed that the larger a the more heterogeneous was the gene distribution within each functional category, suggesting a close relationship between primary nucleotides sequence structure and functional genes composition
Descripción : 9 páginas, 6 figuras, 4 tablas.
Versión del editor: http://dx.doi.org/10.1016/j.ympev.2011.08.011
URI : http://hdl.handle.net/10261/47066
ISSN: 1055-7903
Appears in Collections:(CEAB) Artículos

Files in This Item:
There are no files associated with this item.
Show full item record
 
CSIC SFX LinksSFX Query

Items in Digital.CSIC are protected by copyright, with all rights reserved, unless otherwise indicated.