Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA

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Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA. / Nielsen, Rasmus.

In: Systematic Biology, Vol. 46, No. 2, 01.01.1997, p. 346-353.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Nielsen, R 1997, 'Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA', Systematic Biology, vol. 46, no. 2, pp. 346-353. https://doi.org/10.1093/sysbio/46.2.346

APA

Nielsen, R. (1997). Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA. Systematic Biology, 46(2), 346-353. https://doi.org/10.1093/sysbio/46.2.346

Vancouver

Nielsen R. Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA. Systematic Biology. 1997 Jan 1;46(2):346-353. https://doi.org/10.1093/sysbio/46.2.346

Author

Nielsen, Rasmus. / Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA. In: Systematic Biology. 1997 ; Vol. 46, No. 2. pp. 346-353.

Bibtex

@article{1b2b3cf4542e40c08f6bc7f8d072b9a7,
title = "Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA",
abstract = "A maximum likelihood method for independently estimating the relative rate of substitution at different nucleotide sites is presented. With this method, the evolution of DNA sequences can be analyzed without assuming a specific distribution of rates among sites. To investigate the pattern of correlation of rates among sites, the method was applied to a data set consisting of the protein-coding regions of the mitochondrial genome from 10 vertebrate species. Rates appear to be strongly correlated at distances up to 40 codons apart. Furthermore, there appears to be some higher order correlation of sites approximately 75 codons apart. The method of site-by-site estimation of the rate of substitution may also be applied to examine other aspects of rate variation along a DNA sequence and to assess the difference in the support of a tree along the sequence.",
keywords = "Correlation among sites, Maximum likelihood, mtDNA, Rate variation, Site-by-site estimation",
author = "Rasmus Nielsen",
year = "1997",
month = jan,
day = "1",
doi = "10.1093/sysbio/46.2.346",
language = "English",
volume = "46",
pages = "346--353",
journal = "Systematic Biology",
issn = "1063-5157",
publisher = "Oxford University Press",
number = "2",

}

RIS

TY - JOUR

T1 - Site-by-site estimation of the rate of substitution and the correlation of rates in mitochondrial DNA

AU - Nielsen, Rasmus

PY - 1997/1/1

Y1 - 1997/1/1

N2 - A maximum likelihood method for independently estimating the relative rate of substitution at different nucleotide sites is presented. With this method, the evolution of DNA sequences can be analyzed without assuming a specific distribution of rates among sites. To investigate the pattern of correlation of rates among sites, the method was applied to a data set consisting of the protein-coding regions of the mitochondrial genome from 10 vertebrate species. Rates appear to be strongly correlated at distances up to 40 codons apart. Furthermore, there appears to be some higher order correlation of sites approximately 75 codons apart. The method of site-by-site estimation of the rate of substitution may also be applied to examine other aspects of rate variation along a DNA sequence and to assess the difference in the support of a tree along the sequence.

AB - A maximum likelihood method for independently estimating the relative rate of substitution at different nucleotide sites is presented. With this method, the evolution of DNA sequences can be analyzed without assuming a specific distribution of rates among sites. To investigate the pattern of correlation of rates among sites, the method was applied to a data set consisting of the protein-coding regions of the mitochondrial genome from 10 vertebrate species. Rates appear to be strongly correlated at distances up to 40 codons apart. Furthermore, there appears to be some higher order correlation of sites approximately 75 codons apart. The method of site-by-site estimation of the rate of substitution may also be applied to examine other aspects of rate variation along a DNA sequence and to assess the difference in the support of a tree along the sequence.

KW - Correlation among sites

KW - Maximum likelihood

KW - mtDNA

KW - Rate variation

KW - Site-by-site estimation

UR - http://www.scopus.com/inward/record.url?scp=0031153858&partnerID=8YFLogxK

U2 - 10.1093/sysbio/46.2.346

DO - 10.1093/sysbio/46.2.346

M3 - Journal article

C2 - 11975345

AN - SCOPUS:0031153858

VL - 46

SP - 346

EP - 353

JO - Systematic Biology

JF - Systematic Biology

SN - 1063-5157

IS - 2

ER -

ID: 222646450