-
1
-
-
22944472360
-
Analysis of among-site variation in substitution patterns
-
15361931. 10.1251/bpo88
-
Analysis of among-site variation in substitution patterns. NM Krishnan SZ Raina DD Pollock, Biol Proced Online 2004 6 180 188 15361931 10.1251/bpo88
-
(2004)
Biol Proced Online
, vol.6
, pp. 180-188
-
-
Krishnan, N.M.1
Raina, S.Z.2
Pollock, D.D.3
-
2
-
-
16644398041
-
Detecting gradients of asymmetry in site-specific substitutions in mitochondrial genomes
-
10.1089/dna.2004.23.707. 15585129
-
Detecting gradients of asymmetry in site-specific substitutions in mitochondrial genomes. NM Krishnan H Seligmann SZ Raina DD Pollock, DNA Cell Biol 2004 23 10 707 714 10.1089/dna.2004.23.707 15585129
-
(2004)
DNA Cell Biol
, vol.23
, Issue.10
, pp. 707-714
-
-
Krishnan, N.M.1
Seligmann, H.2
Raina, S.Z.3
Pollock, D.D.4
-
3
-
-
19844378285
-
Evolution of base-substitution gradients in primate mitochondrial genomes
-
15867428. 10.1101/gr.3128605
-
Evolution of base-substitution gradients in primate mitochondrial genomes. SZ Raina JJ Faith TR Disotell H Seligmann CB Stewart DD Pollock, Genome Res 2005 15 5 665 673 15867428 10.1101/gr.3128605
-
(2005)
Genome Res
, vol.15
, Issue.5
, pp. 665-673
-
-
Raina, S.Z.1
Faith, J.J.2
Disotell, T.R.3
Seligmann, H.4
Stewart, C.B.5
Pollock, D.D.6
-
4
-
-
0242318326
-
Likelihood analysis of asymmetrical mutation bias gradients in vertebrate mitochondrial genomes
-
14573484
-
Likelihood analysis of asymmetrical mutation bias gradients in vertebrate mitochondrial genomes. JJ Faith DD Pollock, Genetics 2003 165 2 735 745 14573484
-
(2003)
Genetics
, vol.165
, Issue.2
, pp. 735-745
-
-
Faith, J.J.1
Pollock, D.D.2
-
5
-
-
0031950474
-
Asymmetrical directional mutation pressure in the mitochondrial genome of mammals
-
9718723
-
Asymmetrical directional mutation pressure in the mitochondrial genome of mammals. A Reyes C Gissi G Pesole C Saccone, Mol Biol Evol 1998 15 8 957 966 9718723
-
(1998)
Mol Biol Evol
, vol.15
, Issue.8
, pp. 957-966
-
-
Reyes, A.1
Gissi, C.2
Pesole, G.3
Saccone, C.4
-
6
-
-
0027966917
-
Strand asymmetry in human mitochondrial-DNA mutations
-
10.1006/geno.1994.1391. 7806218
-
Strand asymmetry in human mitochondrial-DNA mutations. M Tanaka T Ozawa, Genomics 1994 22 2 327 335 10.1006/geno.1994.1391 7806218
-
(1994)
Genomics
, vol.22
, Issue.2
, pp. 327-335
-
-
Tanaka, M.1
Ozawa, T.2
-
7
-
-
23944461017
-
Complete mitochondrial DNA sequences of six snakes: Phylogenetic relationships and molecular evolution of genomic features
-
10.1007/s00239-004-0190-9. 16007493
-
Complete mitochondrial DNA sequences of six snakes: Phylogenetic relationships and molecular evolution of genomic features. S Dong Y Kumazawa, J Mol Evol 2005 61 1 12 22 10.1007/s00239-004-0190-9 16007493
-
(2005)
J Mol Evol
, vol.61
, Issue.1
, pp. 12-22
-
-
Dong, S.1
Kumazawa, Y.2
-
8
-
-
0031696736
-
The complete nucleotide sequence of a snake (Dinodon semicarinatus) mitochondrial genome with two identical control regions
-
9725849
-
The complete nucleotide sequence of a snake (Dinodon semicarinatus) mitochondrial genome with two identical control regions. Y Kumazawa H Ota M Nishida T Ozawa, Genetics 1998 150 1 313 329 9725849
-
(1998)
Genetics
, vol.150
, Issue.1
, pp. 313-329
-
-
Kumazawa, Y.1
Ota, H.2
Nishida, M.3
Ozawa, T.4
-
9
-
-
0029909927
-
Gene rearrangements in snake mitochondrial genomes: Highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA gene cluster
-
8896377
-
Gene rearrangements in snake mitochondrial genomes: Highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA gene cluster. Y Kumazawa H Ota M Nishida T Ozawa, Mol Biol Evol 1996 13 9 1242 1254 8896377
-
(1996)
Mol Biol Evol
, vol.13
, Issue.9
, pp. 1242-1254
-
-
Kumazawa, Y.1
Ota, H.2
Nishida, M.3
Ozawa, T.4
-
10
-
-
11144311319
-
Mitochondrial DNA sequences of five squamates: Phylogenetic affiliation of snakes
-
10.1093/dnares/11.2.137. 15449546
-
Mitochondrial DNA sequences of five squamates: phylogenetic affiliation of snakes. Y Kumazawa, DNA Res 2004 11 2 137 144 10.1093/dnares/11.2.137 15449546
-
(2004)
DNA Res
, vol.11
, Issue.2
, pp. 137-144
-
-
Kumazawa, Y.1
-
11
-
-
33750308129
-
A mitogenomic study on the phylogenetic position of snakes
-
10.1111/j.1463-6409.2006.00257.x
-
A mitogenomic study on the phylogenetic position of snakes. D Douglas A Janke U Arnason, Zool Scr 2006 35 6 545 558 10.1111/j.1463-6409.2006.00257.x
-
(2006)
Zool Scr
, vol.35
, Issue.6
, pp. 545-558
-
-
Douglas, D.1
Janke, A.2
Arnason, U.3
-
12
-
-
13544268333
-
Bidirectional replication initiates at sites throughout the mitochondrial genome of birds
-
10.1074/jbc.M411916200. 15557283
-
Bidirectional replication initiates at sites throughout the mitochondrial genome of birds. A Reyes MY Yang M Bowmaker IJ Holt, J Biol Chem 2005 280 5 3242 3250 10.1074/jbc.M411916200 15557283
-
(2005)
J Biol Chem
, vol.280
, Issue.5
, pp. 3242-3250
-
-
Reyes, A.1
Yang, M.Y.2
Bowmaker, M.3
Holt, I.J.4
-
13
-
-
0033026606
-
Nucleotide substitution rate of mammalian mitochondrial genomes
-
10.1007/PL00006487. 10079281
-
Nucleotide substitution rate of mammalian mitochondrial genomes. G Pesole C Gissi A De Chirico C Saccone, J Mol Evol 1999 48 4 427 434 10.1007/PL00006487 10079281
-
(1999)
J Mol Evol
, vol.48
, Issue.4
, pp. 427-434
-
-
Pesole, G.1
Gissi, C.2
De Chirico, A.3
Saccone, C.4
-
14
-
-
0034619822
-
Mitochondrial genome variation and the origin of modern humans
-
10.1038/35047064. 11130070
-
Mitochondrial genome variation and the origin of modern humans. M Ingman H Kaessmann S Paabo U Gyllensten, Nature 2000 408 6813 708 713 10.1038/35047064 11130070
-
(2000)
Nature
, vol.408
, Issue.6813
, pp. 708-713
-
-
Ingman, M.1
Kaessmann, H.2
Paabo, S.3
Gyllensten, U.4
-
15
-
-
28444454462
-
The phylogenetic position of Anomochilidae (Reptilia: Serpentes): first evidence from DNA sequences
-
10.1111/j.1439-0469.2005.00315.x
-
The phylogenetic position of Anomochilidae (Reptilia: Serpentes): first evidence from DNA sequences. DJ Gower N Vidal JN Spinks CJ McCarthy, Journal of Zoological Systematics and Evolutionary Research 2005 43 4 315 320 10.1111/j.1439-0469.2005.00315.x
-
(2005)
Journal of Zoological Systematics and Evolutionary Research
, vol.43
, Issue.4
, pp. 315-320
-
-
Gower, D.J.1
Vidal, N.2
Spinks, J.N.3
McCarthy, C.J.4
-
16
-
-
26444445620
-
Phylogeny of the Colubroidea (Serpentes): New evidence from mitochondrial and nuclear genes
-
10.1016/j.ympev.2005.07.016. 16172004
-
Phylogeny of the Colubroidea (Serpentes): New evidence from mitochondrial and nuclear genes. R Lawson JB Slowinski BI Crother FT Burbrink, Mol Phylogenet Evol 2005 37 2 581 601 10.1016/j.ympev.2005.07.016 16172004
-
(2005)
Mol Phylogenet Evol
, vol.37
, Issue.2
, pp. 581-601
-
-
Lawson, R.1
Slowinski, J.B.2
Crother, B.I.3
Burbrink, F.T.4
-
17
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
10.1093/bioinformatics/btg180. 12912839
-
MrBayes 3: Bayesian phylogenetic inference under mixed models. F Ronquist JP Huelsenbeck, Bioinformatics 2003 19 12 1572 1574 10.1093/bioinformatics/ btg180 12912839
-
(2003)
Bioinformatics
, vol.19
, Issue.12
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
18
-
-
0037252462
-
Replication and transcription of mammalian mitochondrial DNA
-
10.1113/eph8802514. 12525854
-
Replication and transcription of mammalian mitochondrial DNA. P Fernandez-Silva JA Enriquez J Montoya, Exp Physiol 2003 88 1 41 56 10.1113/eph8802514 12525854
-
(2003)
Exp Physiol
, vol.88
, Issue.1
, pp. 41-56
-
-
Fernandez-Silva, P.1
Enriquez, J.A.2
Montoya, J.3
-
19
-
-
0019978703
-
Replication of animal mitochondrial DNA
-
10.1016/0092-8674(82)90049-6. 6178513
-
Replication of animal mitochondrial DNA. DA Clayton, Cell 1982 28 4 693 705 10.1016/0092-8674(82)90049-6 6178513
-
(1982)
Cell
, vol.28
, Issue.4
, pp. 693-705
-
-
Clayton, D.A.1
-
20
-
-
0242414574
-
Evolution of the deep-sea gulper eel mitochondrial genomes: Large-scale gene rearrangements originated within the eels
-
10.1093/molbev/msg206. 12949142
-
Evolution of the deep-sea gulper eel mitochondrial genomes: Large-scale gene rearrangements originated within the eels. JG Inoue M Miya K Tsukamoto M Nishida, Mol Biol Evol 2003 20 11 1917 1924 10.1093/molbev/msg206 12949142
-
(2003)
Mol Biol Evol
, vol.20
, Issue.11
, pp. 1917-1924
-
-
Inoue, J.G.1
Miya, M.2
Tsukamoto, K.3
Nishida, M.4
-
21
-
-
25144482860
-
Complete nucleotide sequence of the mitochondrial genome of Schlegel's tree frog Rhacophorus schlegelii (family Rhacophoridae): Duplicated control regions and gene rearrangements
-
10.1266/ggs.80.213. 16172533
-
Complete nucleotide sequence of the mitochondrial genome of Schlegel's tree frog Rhacophorus schlegelii (family Rhacophoridae): duplicated control regions and gene rearrangements. N Sano A Kurabayashi T Fujii H Yonekawa M Sumida, Genes Genet Syst 2005 80 3 213 224 10.1266/ggs.80.213 16172533
-
(2005)
Genes Genet Syst
, vol.80
, Issue.3
, pp. 213-224
-
-
Sano, N.1
Kurabayashi, A.2
Fujii, T.3
Yonekawa, H.4
Sumida, M.5
-
22
-
-
33644874509
-
An unusual source of apparent mitochondrial heteroplasmy: Duplicate mitochondrial control regions in Thalassarche albatrosses
-
10.1111/j.1365-294X.2005.02672.x. 16156827
-
An unusual source of apparent mitochondrial heteroplasmy: duplicate mitochondrial control regions in Thalassarche albatrosses. CL Abbott MC Double JWH Trueman A Robinson A Cockburn, Mol Ecol 2005 14 11 3605 3613 10.1111/j.1365-294X.2005.02672.x 16156827
-
(2005)
Mol Ecol
, vol.14
, Issue.11
, pp. 3605-3613
-
-
Abbott, C.L.1
Double, M.C.2
Trueman, J.W.H.3
Robinson, A.4
Cockburn, A.5
-
23
-
-
0034939490
-
Duplication and concerted evolution of the mitochondrial control region in the parrot genus Amazona
-
11420371
-
Duplication and concerted evolution of the mitochondrial control region in the parrot genus Amazona. JR Eberhard TF Wright E Bermingham, Mol Biol Evol 2001 18 7 1330 1342 11420371
-
(2001)
Mol Biol Evol
, vol.18
, Issue.7
, pp. 1330-1342
-
-
Eberhard, J.R.1
Wright, T.F.2
Bermingham, E.3
-
24
-
-
14744302097
-
Mitochondrial genome of Pogona vitticepes (Reptilia; Agamidae): Control region duplication and the origin of Australasian agamids
-
10.1016/j.gene.2004.11.014. 15716001
-
Mitochondrial genome of Pogona vitticepes (Reptilia; Agamidae): control region duplication and the origin of Australasian agamids. SAM Amer Y Kumazawa, Gene 2005 346 249 256 10.1016/j.gene.2004.11.014 15716001
-
(2005)
Gene
, vol.346
, pp. 249-256
-
-
Amer, S.A.M.1
Kumazawa, Y.2
-
25
-
-
11144329138
-
Mitochondrial genome of the Komodo dragon: Efficient sequencing method with reptile-oriented primers and novel gene rearrangements
-
10.1093/dnares/11.2.115. 15449544
-
Mitochondrial genome of the Komodo dragon: Efficient sequencing method with reptile-oriented primers and novel gene rearrangements. Y Kumazawa H Endo, DNA Res 2004 11 2 115 125 10.1093/dnares/11.2.115 15449544
-
(2004)
DNA Res
, vol.11
, Issue.2
, pp. 115-125
-
-
Kumazawa, Y.1
Endo, H.2
-
26
-
-
0035201099
-
Molecular systematics of the western rattlesnake, Crotalus viridis (Viperidae), with comments on the utility of the D-loop in phylogenetic studies of snakes
-
10.1006/mpev.2001.1013. 11697914
-
Molecular systematics of the western rattlesnake, Crotalus viridis (Viperidae), with comments on the utility of the D-loop in phylogenetic studies of snakes. KG Ashton A de Queiroz, Mol Phylogenet Evol 2001 21 2 176 189 10.1006/mpev.2001.1013 11697914
-
(2001)
Mol Phylogenet Evol
, vol.21
, Issue.2
, pp. 176-189
-
-
Ashton, K.G.1
De Queiroz, A.2
-
27
-
-
0033635474
-
Slow rate of evolution in the mitochondrial control region of gulls (Aves: Laridae)
-
11110895
-
Slow rate of evolution in the mitochondrial control region of gulls (Aves: Laridae). PA Crochet E Desmarais, Mol Biol Evol 2000 17 12 1797 1806 11110895
-
(2000)
Mol Biol Evol
, vol.17
, Issue.12
, pp. 1797-1806
-
-
Crochet, P.A.1
Desmarais, E.2
-
28
-
-
30844448458
-
Comparison of evolutionary rates in the mitochondrial DNA cytochrome b gene and control region and their implications for phylogeny of the Cobitoidea (Teleostei: Cypriniformes)
-
10.1016/j.ympev.2005.08.007. 16213167
-
Comparison of evolutionary rates in the mitochondrial DNA cytochrome b gene and control region and their implications for phylogeny of the Cobitoidea (Teleostei: Cypriniformes). Q Tang H Liu R Mayden B Xiong, Mol Phylogenet Evol 2006 39 2 347 57. Epub 2005 Oct 4. 10.1016/j.ympev.2005.08.007 16213167
-
(2006)
Mol Phylogenet Evol
, vol.39
, Issue.2
-
-
Tang, Q.1
Liu, H.2
Mayden, R.3
Xiong, B.4
-
29
-
-
1842844849
-
Molecular systematics and phylogeny of Old World and New World ratsnakes, Elaphe Auct., and related genera (Reptilia, Squamata, Colubridae)
-
Molecular systematics and phylogeny of Old World and New World ratsnakes, Elaphe Auct., and related genera (Reptilia, Squamata, Colubridae). U Utiger N Helfenberger B Schätti C Schmidt M Ruf V Ziswiler, Russian Journal of Herpetology 2002 9 2 105 124
-
(2002)
Russian Journal of Herpetology
, vol.9
, Issue.2
, pp. 105-124
-
-
Utiger, U.1
Helfenberger, N.2
Schätti, B.3
Schmidt, C.4
Ruf, M.5
Ziswiler, V.6
-
30
-
-
0036433750
-
Phylogeographic analysis of the cornsnake (Elaphe guttata) complex as inferred from maximum likelihood and Bayesian analyses
-
10.1016/S1055-7903(02)00306-8. 12450751
-
Phylogeographic analysis of the cornsnake (Elaphe guttata) complex as inferred from maximum likelihood and Bayesian analyses. FT Burbrink, Mol Phylogenet Evol 2002 25 3 465 476 10.1016/S1055-7903(02)00306-8 12450751
-
(2002)
Mol Phylogenet Evol
, vol.25
, Issue.3
, pp. 465-476
-
-
Burbrink, F.T.1
-
31
-
-
0037413698
-
Two new avian mitochondrial genomes (penguin and goose) and a summary of bird and reptile mitogenomic features
-
10.1016/S0378111902010533. 12527195
-
Two new avian mitochondrial genomes (penguin and goose) and a summary of bird and reptile mitogenomic features. KE Slack A Janke D Penny U Arnason, Gene 2003 302 1-2 43 52 10.1016/S0378111902010533 12527195
-
(2003)
Gene
, vol.302
, Issue.1-2
, pp. 43-52
-
-
Slack, K.E.1
Janke, A.2
Penny, D.3
Arnason, U.4
-
32
-
-
0031574072
-
The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
9396791. 10.1093/nar/25.24.4876
-
The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Higgins, Nucleic Acids Res 1997 25 24 4876 4882 9396791 10.1093/nar/25.24.4876
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.24
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
34
-
-
0031773680
-
ModelTest: Testing the model of DNA substitution
-
10.1093/bioinformatics/14.9.817. 9918953
-
ModelTest: testing the model of DNA substitution. D Posada KA Crandall, Bioinformatics 1998 14 9 817 818 10.1093/bioinformatics/14.9.817 9918953
-
(1998)
Bioinformatics
, vol.14
, Issue.9
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
35
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
9367129
-
PAML: a program package for phylogenetic analysis by maximum likelihood. ZH Yang, Comput Appl Biosci 1997 13 5 555 556 9367129
-
(1997)
Comput Appl Biosci
, vol.13
, Issue.5
, pp. 555-556
-
-
Yang, Z.H.1
-
36
-
-
15844406550
-
HyPhy: Hypothesis testing using phylogenies
-
10.1093/bioinformatics/bti079. 15509596
-
HyPhy: hypothesis testing using phylogenies. SLK Pond SDW Frost SV Muse, Bioinformatics 2005 21 5 676 679 10.1093/bioinformatics/bti079 15509596
-
(2005)
Bioinformatics
, vol.21
, Issue.5
, pp. 676-679
-
-
Pond, S.L.K.1
Frost, S.D.W.2
Muse, S.V.3
-
37
-
-
0033735040
-
Search for characteristic structural features of mammalian mitochondrial tRNAs
-
11073213. 10.1017/S1355838200001047
-
Search for characteristic structural features of mammalian mitochondrial tRNAs. M Helm H Brule D Friede R Giege D Putz C Florentz, RNA 2000 6 10 1356 1379 11073213 10.1017/S1355838200001047
-
(2000)
RNA
, vol.6
, Issue.10
, pp. 1356-1379
-
-
Helm, M.1
Brule, H.2
Friede, D.3
Giege, R.4
Putz, D.5
Florentz, C.6
-
38
-
-
0030854739
-
TRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
-
9023104. 10.1093/nar/25.5.955
-
tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence. TM Lowe SR Eddy, Nucleic Acids Res 1997 25 5 955 964 9023104 10.1093/nar/25.5.955
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.5
, pp. 955-964
-
-
Lowe, T.M.1
Eddy, S.R.2
-
39
-
-
34249772381
-
Fast folding and comparison of RNA secondary structures
-
10.1007/BF00818163
-
Fast folding and comparison of RNA secondary structures. IL Hofacker W Fontana PF Stadler LS Bonhoeffer M Tacker P Schuster, Monatshefte Fur Chemie 1994 125 2 167 188 10.1007/BF00818163
-
(1994)
Monatshefte fur Chemie
, vol.125
, Issue.2
, pp. 167-188
-
-
Hofacker, I.L.1
Fontana, W.2
Stadler, P.F.3
Bonhoeffer, L.S.4
Tacker, M.5
Schuster, P.6
-
40
-
-
0000501656
-
Information theory and an extension of the maximum likelihood principle.
-
Budapest , Akademia Kiado Petrov BN, Csake F
-
Information theory and an extension of the maximum likelihood principle. H Akaike, Second International Symposium on Information Theory Budapest, Akademia Kiado, Petrov BN, Csake F, 1973 673 681
-
(1973)
Second International Symposium on Information Theory
, pp. 673-681
-
-
Akaike, H.1
-
41
-
-
0000996133
-
Information measures and model selection
-
Information measures and model selection. H Akaike, Int Stat Inst 1983 22 277 291
-
(1983)
Int Stat Inst
, vol.22
, pp. 277-291
-
-
Akaike, H.1
|