geoscience.net logo
+ Resolve Article
+ Follow Us
Follow on FacebookFollow on Facebook
Follow on TwitterFollow on Twitter

+ Translate
+ Subscribe to Site Feed
GeoScience Most Shared ContentMost Shared Content

Heterotachy and tree building: a case study with plastids and eubacteria


, : Heterotachy and tree building: a case study with plastids and eubacteria. Molecular Biology and Evolution 23(1): 40-45

The nature of heterotachy at the center of recent controversy over the relative performance of tree-building methods is different from the form of heterotachy that has been inferred in empirical studies. The latter have suggested that proportions of variable sites (p(var)) vary among orthologues and among paralogues. However, the strength of this inference, describing what may be one of the most important evolutionary properties of sequence data, has remained weak. Consequently, other models of sequence evolution have been proposed to explain some long-branch attraction (LBA) problems that could be attributed to differences in p(var). For an empirical case with plastid and eubacterial RNA polymerase sequences, we confirm using capture-recapture estimates and simulations that p(var) can differ among orthologues in anciently diverged evolutionary lineages. We find that parsimony and a least squares distance method that implements an overly simple model of sequence evolution are susceptible to LBA induced by this form of heterotachy. Although homogeneous maximum likelihood inference was found to be robust to model misspecification in our specific example, we caution against assuming that it will always be so.

US$19.90

PMID: 16151191

DOI: 10.1093/molbev/msj005


Other references

Noble, K.A., 2006: Stop the spinning world: postoperative nausea and vomiting. Journal of Perianesthesia Nursing 21(6): 431-435

Bohra, M.H.; Espie, C.A., 2013: Is cognitive behavioural therapy for insomnia effective in treating insomnia and pain in individuals with chronic non-malignant pain?. This paper systematically reviews clinical trials investigating the effectiveness of cognitive behavioural therapy for insomnia and pain in patients with chronic non-malignant pain.>A systematic search of MEDLINE, PSYCINFO, EMBASE, CINHAL and C...

Billman-Jacobe, H.; Wang, L.; Kortt, A.; Stewart, D.; Radford, A., 1995: Expression and secretion of heterologous proteases by Corynebacterium glutamicum. Genes encoding the basic protease of Dichelobacter nodosus (bprV) and the subtilisin of Bacillus subtilis (aprE) were cloned and expressed in Corynebacterium glutamicum. In each case, enzymatically active protein was detected in the supernatants o...

Andrews, I.J.; Shepherd, M.; Raevel, P.; Duponcheel, C., 1994: Cetti's warbler in Edinburgh: a new bird for Lothian and Scotland. Lothian Bird Report. 1993( ); 1993: 120-122

Balzer, M., 2016: Calls for national animal welfare leadership. Australian Veterinary Journal 93(10): N10-N10

Morinaga, K.; Inoue, Y.; Ueda, M.; Matsumoto, Y.; Omiya, N.; Mikami, J.; Satou, H.; Okawara, S., 1990: An interesting case of pituitary apoplexy showing abnormality in water-electrolyte before and after surgery. Cases which present abnormality in water-electrolyte before and after operation of pituitary adenoma are occasionally reported. The authors have encountered a case in which neurological symptoms became aggravated abruptly with pituitary apoplexy a...

Smiriaev, A.V.; Nechaev, I.M.; Rogozhina, I.V., 2000: Possibilities of selection with an increase in frequency of meiotic recombination (simulation and experiment). Polymorphism of rec genes, modifier genes of recombination frequency (rf), was analyzed. Genetic population analysis was used to estimate the efficiency of some schemes of direct and indirect selection for higher rf in a marked chromosomal region....

Steels, B.M.; Leermakers, F.A.M.; Haynes, C.A., 2000: Analysis of compression of polymer mushrooms using self-consistent field theory. A number of new technologies, including new-generation biomaterials and chromatography resins, are based on passivation and modification of surfaces by terminally attaching polymer chains to the surface. However, little is known about these system...

Anonymous, 1988: Genetics and the unity of biology. Abstracts of papers presented at the XVIth International Congress of Genetics, Toronto, Canada, 20-27 August, 1988. In excess of 2500 abstracts of symposia presentations and poster sessions are presented under the following major headings; Genes and Chromosomes, inluding gene expression, nucleic acids, recombination, chromatin organization, and mutation; Genome...

Mcdougall, G.J.; Morrison, I.M., 1995: Partial purification of peroxidase isozymes with altered substrate specificity from flax stem cell walls. A comparison of the peroxidase activities of ionically and covalently bound but Driselase-solubilized cell-wall proteins from flax stems showed that the Driselase-solubilized proteins had a higher relative ability to oxidize coniferyl alcohol (CA)...