Modeling substitution and indel processes for AFLP marker evolution and phylogenetic inference
نویسندگان
چکیده
منابع مشابه
Modeling substitution and indel processes for AFLP marker evolution and phylogenetic inference
The amplified fragment length polymorphism (AFLP) method produces anonymous genetic markers from throughout a genome. We extend the nucleotide substitution model of AFLP evolution to additionally include insertion and deletion processes. The new Sub-ID model relaxes the common assumption that markers are independent and homologous. We build a Markov chain Monte Carlo methodology tailored for th...
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Amplified Fragment Length Polymorphism (AFLP) markers are formed by selective amplification of DNA fragments from digested total genomic DNA. The technique is popular because it is a relatively inexpensive way to produce large numbers of reproducible genetic markers. In this paper, we describe a Bayesian approach to modeling AFLP marker evolution by nucleotide substitution and an MCMC approach ...
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It is often assumed that it is unlikely that the same insertion or deletion (indel) event occurred at the same position in two independent evolutionary lineages, and thus, indel-based inference of phylogeny should be less subject to homoplasy compared with standard inference which is based on substitution events. Indeed, indels were successfully used to solve debated evolutionary relationships ...
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ژورنال
عنوان ژورنال: The Annals of Applied Statistics
سال: 2009
ISSN: 1932-6157
DOI: 10.1214/08-aoas212