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Results: 1 to 20 of 95

1.

Extreme nearly neutral evolution in mitochondrial genomes of laboratory mouse strains.

Yonezawa T, Hasegawa M.

Gene. 2014 Jan 25;534(2):444-8. doi: 10.1016/j.gene.2013.08.022. Epub 2013 Aug 16.

PMID:
23954256
[PubMed - indexed for MEDLINE]
2.

Selective pressures at a codon-level predict deleterious mutations in human disease genes.

Arbiza L, Duchi S, Montaner D, Burguet J, Pantoja-Uceda D, Pineda-Lucena A, Dopazo J, Dopazo H.

J Mol Biol. 2006 May 19;358(5):1390-404. Epub 2006 Mar 15.

PMID:
16584746
[PubMed - indexed for MEDLINE]
3.

The role of selection in the evolution of human mitochondrial genomes.

Kivisild T, Shen P, Wall DP, Do B, Sung R, Davis K, Passarino G, Underhill PA, Scharfe C, Torroni A, Scozzari R, Modiano D, Coppa A, de Knijff P, Feldman M, Cavalli-Sforza LL, Oefner PJ.

Genetics. 2006 Jan;172(1):373-87. Epub 2005 Sep 19.

PMID:
16172508
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Large-scale analyses of synonymous substitution rates can be sensitive to assumptions about the process of mutation.

Aris-Brosou S, Bielawski JP.

Gene. 2006 Aug 15;378:58-64. Epub 2006 May 22.

PMID:
16797879
[PubMed - indexed for MEDLINE]
5.

Molecular evolution of cadherin-related neuronal receptor/protocadherin(alpha) (CNR/Pcdh(alpha)) gene cluster in Mus musculus subspecies.

Taguchi Y, Koide T, Shiroishi T, Yagi T.

Mol Biol Evol. 2005 Jun;22(6):1433-43. Epub 2005 Mar 9.

PMID:
15758202
[PubMed - indexed for MEDLINE]
Free Article
6.

Domestication relaxed selective constraints on the yak mitochondrial genome.

Wang Z, Yonezawa T, Liu B, Ma T, Shen X, Su J, Guo S, Hasegawa M, Liu J.

Mol Biol Evol. 2011 May;28(5):1553-6. doi: 10.1093/molbev/msq336. Epub 2010 Dec 14.

PMID:
21156878
[PubMed - indexed for MEDLINE]
Free Article
7.
8.

Purifying selection in mammalian mitochondrial protein-coding genes is highly effective and congruent with evolution of nuclear genes.

Popadin KY, Nikolaev SI, Junier T, Baranova M, Antonarakis SE.

Mol Biol Evol. 2013 Feb;30(2):347-55. doi: 10.1093/molbev/mss219. Epub 2012 Sep 14.

PMID:
22983951
[PubMed - indexed for MEDLINE]
Free Article
9.

Spatial covariation of mutation and nonsynonymous substitution rates in vertebrate mitochondrial genomes.

Broughton RE, Reneau PC.

Mol Biol Evol. 2006 Aug;23(8):1516-24. Epub 2006 May 16.

PMID:
16705079
[PubMed - indexed for MEDLINE]
Free Article
10.

Advantages of a mechanistic codon substitution model for evolutionary analysis of protein-coding sequences.

Miyazawa S.

PLoS One. 2011;6(12):e28892. doi: 10.1371/journal.pone.0028892. Epub 2011 Dec 29.

PMID:
22220197
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

The complete mitochondrial genome of dhole Cuon alpinus: phylogenetic analysis and dating evolutionary divergence within Canidae.

Zhang H, Chen L.

Mol Biol Rep. 2011 Mar;38(3):1651-60. doi: 10.1007/s11033-010-0276-y. Epub 2010 Sep 22.

PMID:
20859694
[PubMed - indexed for MEDLINE]
12.

Bursts of nonsynonymous substitutions in HIV-1 evolution reveal instances of positive selection at conservative protein sites.

Bazykin GA, Dushoff J, Levin SA, Kondrashov AS.

Proc Natl Acad Sci U S A. 2006 Dec 19;103(51):19396-401. Epub 2006 Dec 12.

PMID:
17164328
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Rapidly evolving mitochondrial genome and directional selection in mitochondrial genes in the parasitic wasp nasonia (hymenoptera: pteromalidae).

Oliveira DC, Raychoudhury R, Lavrov DV, Werren JH.

Mol Biol Evol. 2008 Oct;25(10):2167-80. doi: 10.1093/molbev/msn159. Epub 2008 Jul 24.

PMID:
18653734
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Elevated rates of nonsynonymous substitution in island birds.

Johnson KP, Seger J.

Mol Biol Evol. 2001 May;18(5):874-81.

PMID:
11319271
[PubMed - indexed for MEDLINE]
Free Article
15.

Positive selection at sites of multiple amino acid replacements since rat-mouse divergence.

Bazykin GA, Kondrashov FA, Ogurtsov AY, Sunyaev S, Kondrashov AS.

Nature. 2004 Jun 3;429(6991):558-62.

PMID:
15175752
[PubMed - indexed for MEDLINE]
16.

Evolutionary patterns of amino acid substitutions in 12 Drosophila genomes.

Yampolsky LY, Bouzinier MA.

BMC Genomics. 2010 Dec 2;11 Suppl 4:S10. doi: 10.1186/1471-2164-11-S4-S10.

PMID:
21143793
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

A maximum likelihood method for detecting functional divergence at individual codon sites, with application to gene family evolution.

Bielawski JP, Yang Z.

J Mol Evol. 2004 Jul;59(1):121-32.

PMID:
15383915
[PubMed - indexed for MEDLINE]
18.

Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae.

Parkinson CL, Mower JP, Qiu YL, Shirk AJ, Song K, Young ND, DePamphilis CW, Palmer JD.

BMC Evol Biol. 2005 Dec 20;5:73.

PMID:
16368004
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Synonymous substitutions substantially improve evolutionary inference from highly diverged proteins.

Seo TK, Kishino H.

Syst Biol. 2008 Jun;57(3):367-77. doi: 10.1080/10635150802158670.

PMID:
18570032
[PubMed - indexed for MEDLINE]
20.

The branch-site test of positive selection is surprisingly robust but lacks power under synonymous substitution saturation and variation in GC.

Gharib WH, Robinson-Rechavi M.

Mol Biol Evol. 2013 Jul;30(7):1675-86. doi: 10.1093/molbev/mst062. Epub 2013 Apr 4.

PMID:
23558341
[PubMed - indexed for MEDLINE]
Free PMC Article

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