Submit to Gene (a draft) Evolutionary Tree Reconstructed Based on Oligonucleotide Frequencies And Conserved Words in 16s Ribosomal RNA
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چکیده
Evolutionary distance is defined by oligonucleotide (n-bases) frequency difference of two sequences. Phylogenetic tree is reconstructed using a set of 16S (18S ) rRNA sequences and the definition of distance. The quality of trees generally improves with increasing n and reaches a plateau of best fit at n=7 or 8. So, the 7-mer or 8-mer frequencies provides a basis to describe rRNA evolution. Then, a group of (612 in total) 7-mers are deduced which are correlate well with evolution Representative conservative words for Bacteria and Archaea in 16S rRNA sequences have been found which are evolution-related oligonucleotides and located on nearly same sites of sequences for a vast range of organisms (in a kingdom). The structural meaning of these conservative words is discussed briefly.
منابع مشابه
Evolutionary Tree Based on Oligonucleotide Frequencies and Conserved Words in 16S and 18S Ribosomal RNA
Sequence distances are defined in terms of the differences in the oligonucleotide frequencies of length n. Such n-distances are used to construct phylogenetic trees from a set of thirty-five 16S (18S) rRNA sequences. The quality of the trees generally improves with increasing n and reaches a plateau at n=7 or 8. The best n-distance trees are compatible to trees based on sequence alignment, sugg...
متن کاملEvolutionary Tree Based on Oligonucleotide Frequencies and Conservative Words in 16S and 18S Ribosomal RNA
Sequence distances are defined in terms of the differences in the occurrence frequencies in sequences of oligonucleotides of length n. Such n-distances are used to construct phylogenetic trees from a set of thirty-five 16S or 18S rRNA sequences. The quality of the trees generally improves with increasing n and reaches a plateau at n=7 or 8. The best n-distance trees are compatible to trees base...
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تاریخ انتشار 2003