Compositional patterns in the genomes of unicellular eukaryotes

BMC Genomics

Research Article

Giorgio Bernardi¹  Susan Costantini²  Maria Costantini³  Rosalia Cammarano³  Fernando Alvarez-Valin⁴ 

[1] Biology Department, Rome 3 University, Viale Marconi 446, Rome, Italy;INT “G. Pascale” - CROM (Oncology Research Centre of Mercogliano), Mercogliano, Italy;Laboratory of Animal Physiology and Evolution, Stazione Zoologica Anton Dohrn, Villa Comunale, 80121, Naples, Italy;Sección Biomatemática, Facultad de Sciencias, Universidad de la Repùblica, Montevideo, Uruguay;

关键词: Compositional organization;    Genome;    Unicellular eukaryotes;   

DOI  :  10.1186/1471-2164-14-755

 received in 2012-11-01, accepted in 2013-10-31,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundThe genomes of multicellular eukaryotes are compartmentalized in mosaics of isochores, large and fairly homogeneous stretches of DNA that belong to a small number of families characterized by different average GC levels, by different gene concentration (that increase with GC), different chromatin structures, different replication timing in the cell cycle, and other different properties. A question raised by these basic results concerns how far back in evolution the compartmentalized organization of the eukaryotic genomes arose.ResultsIn the present work we approached this problem by studying the compositional organization of the genomes from the unicellular eukaryotes for which full sequences are available, the sample used being representative. The average GC levels of the genomes from unicellular eukaryotes cover an extremely wide range (19%-60% GC) and the compositional patterns of individual genomes are extremely different but all genomes tested show a compositional compartmentalization.ConclusionsThe average GC range of the genomes of unicellular eukaryotes is very broad (as broad as that of prokaryotes) and individual compositional patterns cover a very broad range from very narrow to very complex. Both features are not surprising for organisms that are very far from each other both in terms of phylogenetic distances and of environmental life conditions. Most importantly, all genomes tested, a representative sample of all supergroups of unicellular eukaryotes, are compositionally compartmentalized, a major difference with prokaryotes.

【 授权许可】

CC BY   
© Costantini et al.; licensee BioMed Central Ltd. 2013