Paper Info
Title
OGtree: a tool for creating genome trees of prokaryotes based on overlapping genes.
Abstract
OGtree is a web-based tool for constructing genome trees of prokaryotic species based on a measure of combining overlapping-gene content and overlapping-gene order in their whole genomes. The overlapping genes (OGs) are defined as adjacent genes whose coding sequences overlap partially or entirely. In fact, OGs are ubiquitous in microbial genomes and more conserved between species than non-OGs. Based on these properties, it has been suggested that OGs can serve as better phylogenetic characters than non-OGs for reconstructing the evolutionary relationships among microbial genomes. OGtree takes the accession numbers of prokaryotic genomes as its input. It then downloads their complete genomes from the National Centre for Biotechnology Information and identifies OGs in each genome and their orthologous OGs in other genomes. Next, OGtree computes an overlapping-gene distance between each pair of input genomes based on a combination of their OG content and orthologous OG order. Finally, it utilizes distance-based methods of building tree to reconstruct the genome trees of input prokaryotic genomes according to their pairwise OG distance. OGtree is available online at http://bioalgorithm.life.nctu.edu.tw/OGtree/.
Year
DOI
Venue
2008
10.1093/nar/gkn240
NUCLEIC ACIDS RESEARCH
Keywords
Field
DocType
nucleic
Genome,Gene,Phylogenetic tree,Biology,Prokaryotic cells,Microbial Genomes,Accession number (library science),Genetics,Trees (plant),Phylogenetics
Journal
Volume
Issue
ISSN
36
SUPnan
0305-1048
Citations 
PageRank 
References 
3
0.44
3
Authors
3
Name
Order
Citations
PageRank
Li-Wei Jiang131.11
Kuang-Lun Lin230.44
Chin Lung Lu342334.59