Measuring genome conservation across taxa: divided strains and united kingdoms
(2005) In Nucleic Acids Research 33(2). p.616-621- Abstract
- Species evolutionary relationships have traditionally been defined by sequence similarities of phylogenetic marker molecules, recently followed by whole-genome phylogenies based on gene order, average ortholog similarity or gene content. Here, we introduce genome conservation—a novel metric of evolutionary distances between species that simultaneously takes into account, both gene content and sequence similarity at the whole-genome level. Genome conservation represents a robust distance measure, as demonstrated by accurate phylogenetic reconstructions. The genome conservation matrix for all presently sequenced organisms exhibits a remarkable ability to define evolutionary relationships across all taxonomic ranges. An assessment of... (More)
- Species evolutionary relationships have traditionally been defined by sequence similarities of phylogenetic marker molecules, recently followed by whole-genome phylogenies based on gene order, average ortholog similarity or gene content. Here, we introduce genome conservation—a novel metric of evolutionary distances between species that simultaneously takes into account, both gene content and sequence similarity at the whole-genome level. Genome conservation represents a robust distance measure, as demonstrated by accurate phylogenetic reconstructions. The genome conservation matrix for all presently sequenced organisms exhibits a remarkable ability to define evolutionary relationships across all taxonomic ranges. An assessment of taxonomic ranks with genome conservation shows that certain ranks are inadequately described and raises the possibility for a more precise and quantitative taxonomy in the future. All phylogenetic reconstructions are available at the genome phylogeny server: <http://maine.ebi.ac.uk:8000/cgi-bin/gps/GPS.pl>. (Less)
Please use this url to cite or link to this publication:
https://lup.lub.lu.se/record/756009
- author
- Kunin, Victor ; Ahrén, Dag LU ; Goldovsky, Leon ; Janssen, Paul and Ouzounis, Christos A.
- organization
- publishing date
- 2005
- type
- Contribution to journal
- publication status
- published
- subject
- keywords
- genome phylogeny, Comparative genomics, evolution, Bioinformatics
- in
- Nucleic Acids Research
- volume
- 33
- issue
- 2
- pages
- 616 - 621
- publisher
- Oxford University Press
- external identifiers
-
- scopus:13844306368
- pmid:15681613
- ISSN
- 1362-4962
- DOI
- 10.1093/nar/gki181
- language
- English
- LU publication?
- yes
- id
- 5dba29ad-5122-42bd-aa2f-c81a3e53d0f9 (old id 756009)
- alternative location
- http://nar.oxfordjournals.org/cgi/content/full/33/2/616
- date added to LUP
- 2016-04-01 12:03:11
- date last changed
- 2024-05-08 01:17:56
@article{5dba29ad-5122-42bd-aa2f-c81a3e53d0f9, abstract = {{Species evolutionary relationships have traditionally been defined by sequence similarities of phylogenetic marker molecules, recently followed by whole-genome phylogenies based on gene order, average ortholog similarity or gene content. Here, we introduce genome conservation—a novel metric of evolutionary distances between species that simultaneously takes into account, both gene content and sequence similarity at the whole-genome level. Genome conservation represents a robust distance measure, as demonstrated by accurate phylogenetic reconstructions. The genome conservation matrix for all presently sequenced organisms exhibits a remarkable ability to define evolutionary relationships across all taxonomic ranges. An assessment of taxonomic ranks with genome conservation shows that certain ranks are inadequately described and raises the possibility for a more precise and quantitative taxonomy in the future. All phylogenetic reconstructions are available at the genome phylogeny server: <http://maine.ebi.ac.uk:8000/cgi-bin/gps/GPS.pl>.}}, author = {{Kunin, Victor and Ahrén, Dag and Goldovsky, Leon and Janssen, Paul and Ouzounis, Christos A.}}, issn = {{1362-4962}}, keywords = {{genome phylogeny; Comparative genomics; evolution; Bioinformatics}}, language = {{eng}}, number = {{2}}, pages = {{616--621}}, publisher = {{Oxford University Press}}, series = {{Nucleic Acids Research}}, title = {{Measuring genome conservation across taxa: divided strains and united kingdoms}}, url = {{http://dx.doi.org/10.1093/nar/gki181}}, doi = {{10.1093/nar/gki181}}, volume = {{33}}, year = {{2005}}, }