dc.contributor.author |
Linz, Simone |
en |
dc.contributor.author |
Radtke, A |
en |
dc.contributor.author |
von Haeseler, A |
en |
dc.date.accessioned |
2015-02-01T22:30:56Z |
en |
dc.date.issued |
2007-03-10 |
en |
dc.identifier.citation |
Molecular Biology and Evolution, 2007, 24 (6), pp. 1312 - 1319 |
en |
dc.identifier.issn |
0737-4038 |
en |
dc.identifier.uri |
http://hdl.handle.net/2292/24347 |
en |
dc.description.abstract |
We suggest a likelihood-based approach to estimate an overall rate of horizontal gene transfer (HGT) in a simplified setting. To this end, we assume that the number of occurring HGT events within a given time interval follows a Poisson process. To obtain estimates for the rate of HGT, we simulate the distribution of tree topologies for different numbers of HGT events on a clocklike species tree. Using these simulated distributions, we estimate an HGT rate for a collection of gene trees representing a set of taxa. As an illustrative example, we use the “Clusters of Orthologous Groups of proteins” (COGs). We also perform a correction of the estimated rate taking into account the inaccuracies due to gene tree reconstructions. The results suggest a corrected HGT rate of about 0.36 per gene and unit time, in other words 11 HGT events have occurred on average among the 44 taxa of the COG species tree. A software package to estimate an HGT rate is available online (http://www.cibiv.at/software/hgt/). |
en |
dc.relation.ispartofseries |
Molecular Biology and Evolution |
en |
dc.rights |
Items in ResearchSpace are protected by copyright, with all rights reserved, unless otherwise indicated. Previously published items are made available in accordance with the copyright policy of the publisher. Details obtained from http://www.oxfordjournals.org/en/access-purchase/rights-and-permissions/self-archiving-policye.html
http://www.sherpa.ac.uk/romeo/issn/0737-4038/ |
en |
dc.rights.uri |
https://researchspace.auckland.ac.nz/docs/uoa-docs/rights.htm |
en |
dc.title |
A Likelihood Framework to Measure Horizontal Gene Transfer |
en |
dc.type |
Journal Article |
en |
dc.identifier.doi |
10.1093/molbev/msm052 |
en |
pubs.issue |
6 |
en |
pubs.begin-page |
1312 |
en |
pubs.volume |
24 |
en |
dc.description.version |
AM - Accepted Manuscript |
en |
pubs.end-page |
1319 |
en |
dc.rights.accessrights |
http://purl.org/eprint/accessRights/OpenAccess |
en |
pubs.subtype |
Article |
en |
pubs.elements-id |
460382 |
en |
pubs.org-id |
Science |
en |
pubs.org-id |
School of Computer Science |
en |
dc.identifier.eissn |
1537-1719 |
en |
pubs.record-created-at-source-date |
2015-02-02 |
en |
pubs.dimensions-id |
17374878 |
en |