Phylogenetic studies of Phoma species by maximum likelihood analysis
نویسندگان
چکیده
منابع مشابه
PAML 4: phylogenetic analysis by maximum likelihood.
PAML, currently in version 4, is a package of programs for phylogenetic analyses of DNA and protein sequences using maximum likelihood (ML). The programs may be used to compare and test phylogenetic trees, but their main strengths lie in the rich repertoire of evolutionary models implemented, which can be used to estimate parameters in models of sequence evolution and to test interesting biolog...
متن کاملPAML: a program package for phylogenetic analysis by maximum likelihood
PAML, currently in version 1.2, is a package of programs for phylogenetic analyses of DNA and protein sequences using the method of maximum likelihood (ML). The programs can be used for (i) maximum likelihood estimation of evolutionary parameters such as branch lengths in a phylogenetic tree, the transition/transversion rate ratio, the shape parameter of the gamma distribution for variable evol...
متن کاملMaximum likelihood of phylogenetic networks
MOTIVATION Horizontal gene transfer (HGT) is believed to be ubiquitous among bacteria, and plays a major role in their genome diversification as well as their ability to develop resistance to antibiotics. In light of its evolutionary significance and implications for human health, developing accurate and efficient methods for detecting and reconstructing HGT is imperative. RESULTS In this art...
متن کاملPhylogenetic estimation of context-dependent substitution rates by maximum likelihood.
Nucleotide substitution in both coding and noncoding regions is context-dependent, in the sense that substitution rates depend on the identity of neighboring bases. Context-dependent substitution has been modeled in the case of two sequences and an unrooted phylogenetic tree, but it has only been accommodated in limited ways with more general phylogenies. In this article, extensions are present...
متن کاملMaximum-likelihood phylogenetic analysis under a covarion-like model.
Here, a model allowing covarion-like evolution of DNA sequences is introduced. In contrast to standard representation of the distribution of evolutionary rates, this model allows the site-specific rate to vary between lineages. This is achieved by adding as few as two parameters to the widely used among-site rate variation model, namely, (1) the proportion of sites undergoing rate changes and (...
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ژورنال
عنوان ژورنال: Acta Agraria Debreceniensis
سال: 2008
ISSN: 2416-1640,1587-1282
DOI: 10.34101/actaagrar/30/2989