Abstract：
:Phylogenetic analyses based on small to moderately sized sets of sequential data lead to overestimating mutation rates in influenza hemagglutinin (HA) by at least an order of magnitude. Two major underlying reasons are: the incomplete lineage sorting, and a possible absence in the analyzed sequences set some of key missing ancestors. Additionally, during neighbor joining tree reconstruction each mutation is considered equally important, regardless of its nature. Here we have implemented a heuristic method optimizing site dependent factors weighting differently 1st, 2nd, and 3rd codon position mutations, allowing to extricate incorrectly attributed sub-clades. The least squares regression analysis of distribution of frequencies for all mutations observed on a partially disentangled tree for a large set of unique 3243 HA sequences, along all nucleotide positions, was performed for all mutations as well as for non-equivalent amino acid mutations - in both cases demonstrating almost flat gradients, with a very slight downward slope towards the 3'-end positions. The mean mutation rates per sequence per year were 3.83×10(-4) for the all mutations, and 9.64×10(-5) for the non-equivalent ones.
journal_name
Mol Phylogenet Evoljournal_title
Molecular phylogenetics and evolutionauthors
Radomski JP,Płoński P,Zagórski-Ostoja Wdoi
10.1016/j.ympev.2013.08.020subject
Has Abstractpub_date
2014-01-01 00:00:00pages
29-36eissn
1055-7903issn
1095-9513pii
S1055-7903(13)00342-4journal_volume
70pub_type
杂志文章abstract：:Within butterflies and moths, adult hematophagy is limited to species within the vampire moth genus Calyptra. These moths are placed within the subfamily Calpinae, whose other members are known to exhibit a broad range of feeding behaviors including those that can be considered 'piercers' of fruits or other hosts and ...
journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
pub_type： 历史文章,杂志文章
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
pub_type： 杂志文章
doi：10.1016/j.ympev.2016.07.007
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
pub_type： 杂志文章
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
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journal_title：Molecular phylogenetics and evolution
pub_type： 杂志文章
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journal_title：Molecular phylogenetics and evolution
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