منابع مشابه
Whole-genome prokaryotic phylogeny
Current understanding of the phylogeny of prokaryotes is based on the comparison of the highly conserved small ssu-rRNA subunit and similar regions. Although such molecules have proved to be very useful phylogenetic markers, mutational saturation is a problem, due to their restricted lengths. Now, a growing number of complete prokaryotic genomes are available. This paper addresses the problem o...
متن کاملCVTree3 Web Server for Whole-genome-based and Alignment-free Prokaryotic Phylogeny and Taxonomy
A faithful phylogeny and an objective taxonomy for prokaryotes should agree with each other and ultimately follow the genome data. With the number of sequenced genomes reaching tens of thousands, both tree inference and detailed comparison with taxonomy are great challenges. We now provide one solution in the latest Release 3.0 of the alignment-free and whole-genome-based web server CVTree3. Th...
متن کاملPhylo SI: a new genome-wide approach for prokaryotic phylogeny
The evolutionary history of all life forms is usually represented as a vertical tree-like process. In prokaryotes, however, the vertical signal is partly obscured by the massive influence of horizontal gene transfer (HGT). The HGT creates widespread discordance between evolutionary histories of different genes as genomes become mosaics of gene histories. Thus, the Tree of Life (TOL) has been qu...
متن کاملVICTOR: genome-based phylogeny and classification of prokaryotic viruses
Motivation Bacterial and archaeal viruses are crucial for global biogeochemical cycles and might well be game-changing therapeutic agents in the fight against multi-resistant pathogens. Nevertheless, it is still unclear how to best use genome sequence data for a fast, universal and accurate taxonomic classification of such viruses. Results We here present a novel in silico framework for phylo...
متن کاملWhole Genome Phylogeny via Complete Composition Vectors
The availability of complete genomic sequences allows us to infer the evolutionary footprints between species in a global strategy. However, the length of these genomic sequences poses a challenge on computational efficiency and optimality of information representation in phylogenetic analyses. In this paper, a new method called complete composition vector (CCV) is described to infer evolutiona...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2004
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/bth324