Bitte benutzen Sie diese Kennung, um auf die Ressource zu verweisen:
https://doi.org/10.21256/zhaw-3882| Publikationstyp: | Beitrag in wissenschaftlicher Zeitschrift |
| Art der Begutachtung: | Peer review (Publikation) |
| Titel: | Maximum-likelihood tree estimation using codon substitution models with multiple partitions |
| Autor/-in: | Zoller, Stefan Boskova, Veronika Anisimova, Maria |
| DOI: | 10.21256/zhaw-3882 10.1093/molbev/msv097 |
| Erschienen in: | Molecular Biology and Evolution |
| Band(Heft): | 32 |
| Heft: | 8 |
| Seite(n): | 2208 |
| Seiten bis: | 2216 |
| Erscheinungsdatum: | 2015 |
| Verlag / Hrsg. Institution: | Oxford University Press |
| ISSN: | 0737-4038 1537-1719 |
| Sprache: | Englisch |
| Schlagwörter: | Markov model; Amino acid substitution model; Codon substitution model; Maximum-likelihood tree; Bacterial protein; Ralstonia solanacearum; Codon; Genetic model |
| Fachgebiet (DDC): | 572: Biochemie |
| Zusammenfassung: | Many protein sequences have distinct domains that evolve with different rates, different selective pressures, or may differ in codon bias. Instead of modeling these differences by more and more complex models of molecular evolution, we present a multipartition approach that allows maximum-likelihood phylogeny inference using different codon models at predefined partitions in the data. Partition models can, but do not have to, share free parameters in the estimation process. We test this approach with simulated data as well as in a phylogenetic study of the origin of the leucin-rich repeat regions in the type III effector proteins of the pythopathogenic bacteria Ralstonia solanacearum. Our study does not only show that a simple two-partition model resolves the phylogeny better than a one-partition model but also gives more evidence supporting the hypothesis of lateral gene transfer events between the bacterial pathogens and its eukaryotic hosts. |
| Weitere Angaben: | Erworben im Rahmen der Schweizer Nationallizenzen (http://www.nationallizenzen.ch) |
| URI: | https://digitalcollection.zhaw.ch/handle/11475/8260 |
| Volltext Version: | Publizierte Version |
| Lizenz (gemäss Verlagsvertrag): | Lizenz gemäss Verlagsvertrag |
| Gesperrt bis: | 2019-01-01 |
| Departement: | Life Sciences und Facility Management |
| Organisationseinheit: | Institut für Computational Life Sciences (ICLS) |
| Enthalten in den Sammlungen: | Publikationen Life Sciences und Facility Management |
Dateien zu dieser Ressource:
| Datei | Beschreibung | Größe | Format | |
|---|---|---|---|---|
| msv097.pdf | 788.77 kB | Adobe PDF |  Öffnen/Anzeigen |
Zur Langanzeige
Zoller, S., Boskova, V., & Anisimova, M. (2015). Maximum-likelihood tree estimation using codon substitution models with multiple partitions. Molecular Biology and Evolution, 32(8), 2208–2216. https://doi.org/10.21256/zhaw-3882
Zoller, S., Boskova, V. and Anisimova, M. (2015) ‘Maximum-likelihood tree estimation using codon substitution models with multiple partitions’, Molecular Biology and Evolution, 32(8), pp. 2208–2216. Available at: https://doi.org/10.21256/zhaw-3882.
S. Zoller, V. Boskova, and M. Anisimova, “Maximum-likelihood tree estimation using codon substitution models with multiple partitions,” Molecular Biology and Evolution, vol. 32, no. 8, pp. 2208–2216, 2015, doi: 10.21256/zhaw-3882.
ZOLLER, Stefan, Veronika BOSKOVA und Maria ANISIMOVA, 2015. Maximum-likelihood tree estimation using codon substitution models with multiple partitions. Molecular Biology and Evolution. 2015. Bd. 32, Nr. 8, S. 2208–2216. DOI 10.21256/zhaw-3882
Zoller, Stefan, Veronika Boskova, and Maria Anisimova. 2015. “Maximum-Likelihood Tree Estimation Using Codon Substitution Models with Multiple Partitions.” Molecular Biology and Evolution 32 (8): 2208–16. https://doi.org/10.21256/zhaw-3882.
Zoller, Stefan, et al. “Maximum-Likelihood Tree Estimation Using Codon Substitution Models with Multiple Partitions.” Molecular Biology and Evolution, vol. 32, no. 8, 2015, pp. 2208–16, https://doi.org/10.21256/zhaw-3882.
Alle Ressourcen in diesem Repository sind urheberrechtlich geschützt, soweit nicht anderweitig angezeigt.