-
1
-
-
0033920569
-
Plastid genome phylogeny and a model of amino acid substitution for proteins encoded by chloroplast DNA
-
Adachi, J., P. J. Waddell, W. Martin, and M. Hasegawa. 2000. Plastid genome phylogeny and a model of amino acid substitution for proteins encoded by chloroplast DNA. J. Mol. Evol. 50:348-358.
-
(2000)
J. Mol. Evol.
, vol.50
, pp. 348-358
-
-
Adachi, J.1
Waddell, P.J.2
Martin, W.3
Hasegawa, M.4
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
0025025422
-
Different fates of the chloroplast tufA gene following its transfer to the nucleus in green algae
-
USA
-
Baldauf, S. L., J. R. Manhart, and J. D. Palmer. 1990. Different fates of the chloroplast tufA gene following its transfer to the nucleus in green algae. Proc. Natl. Acad. Sci. USA 87:5317-5321.
-
(1990)
Proc. Natl. Acad. Sci.
, vol.87
, pp. 5317-5321
-
-
Baldauf, S.L.1
Manhart, J.R.2
Palmer, J.D.3
-
4
-
-
0037819441
-
Widespread horizontal transfer of mitochondrial genes in flowering plants
-
Bergthorsson, U., K. L. Adams, B. Thomason, and J. D. Palmer. 2003. Widespread horizontal transfer of mitochondrial genes in flowering plants. Nature 424:197-201.
-
(2003)
Nature
, vol.424
, pp. 197-201
-
-
Bergthorsson, U.1
Adams, K.L.2
Thomason, B.3
Palmer, J.D.4
-
5
-
-
11144228905
-
Massive horizontal transfer of mitochondrial genes from diverse land plant donors to the basal angiosperm Amborella
-
USA
-
Bergthorsson, U., A. O. Richardson, G. J. Young, L. R. Goertzen, and J. D. Palmer. 2004. Massive horizontal transfer of mitochondrial genes from diverse land plant donors to the basal angiosperm Amborella. Proc. Natl. Acad. Sci. USA 101:17747-17752.
-
(2004)
Proc. Natl. Acad. Sci.
, vol.101
, pp. 17747-17752
-
-
Bergthorsson, U.1
Richardson, A.O.2
Young, G.J.3
Goertzen, L.R.4
Palmer, J.D.5
-
6
-
-
0031764595
-
Actin phylogeny identifies Mesostigma viride as a flagellate ancestor of the land plants
-
Bhattacharya, D., K. Weber, S. S. An, and W. Berning-Koch. 1998. Actin phylogeny identifies Mesostigma viride as a flagellate ancestor of the land plants. J. Mol. Evol. 47:544-550.
-
(1998)
J. Mol. Evol.
, vol.47
, pp. 544-550
-
-
Bhattacharya, D.1
Weber, K.2
An, S.S.3
Berning-Koch, W.4
-
7
-
-
0001032167
-
On cladistic relationships in green plants
-
Bremer, K., C. J. Humphries, B. D. Mishler, and S. P. Churchill. 1987. On cladistic relationships in green plants. Taxon 36:339-349.
-
(1987)
Taxon
, vol.36
, pp. 339-349
-
-
Bremer, K.1
Humphries, C.J.2
Mishler, B.D.3
Churchill, S.P.4
-
8
-
-
3843132934
-
The reversal median problem
-
Caprara, A. 2003. The reversal median problem. INFORMS J. Comput. 15:93-113.
-
(2003)
INFORMS J. Comput.
, vol.15
, pp. 93-113
-
-
Caprara, A.1
-
9
-
-
0034043778
-
Selection of conserved bloks from multiple alignments for their use in phylogenetic analysis
-
Castresana, J. 2000. Selection of conserved bloks from multiple alignments for their use in phylogenetic analysis. Mol. Biol. Evol. 17:540-542.
-
(2000)
Mol. Biol. Evol.
, vol.17
, pp. 540-542
-
-
Castresana, J.1
-
10
-
-
0036232883
-
Green algae and land plants - An answer at last?
-
Chapman, R. L., and D. A. Waters. 2002. Green algae and land plants - an answer at last? J. Phycol. 38:237-240.
-
(2002)
J. Phycol.
, vol.38
, pp. 237-240
-
-
Chapman, R.L.1
Waters, D.A.2
-
11
-
-
4444302046
-
GenAlyzer: Interactive visualization of sequence similarities between entire genomes
-
Choudhuri, J. V., C. Schleiermacher, S. Kurtz, and R. Giegerich. 2004. GenAlyzer: interactive visualization of sequence similarities between entire genomes. Bioinformatics 20:1964-1965.
-
(2004)
Bioinformatics
, vol.20
, pp. 1964-1965
-
-
Choudhuri, J.V.1
Schleiermacher, C.2
Kurtz, S.3
Giegerich, R.4
-
12
-
-
0036919547
-
Molecular and morphological data identify a cryptic species complex in endophytic members of the genus Coleochaete Bréb. (Charophyta: Coleochaetaceae)
-
Cimino, M. T., and C. F. Delwiche. 2002. Molecular and morphological data identify a cryptic species complex in endophytic members of the genus Coleochaete Bréb. (Charophyta: Coleochaetaceae). J. Phycol. 38:1213-1221.
-
(2002)
J. Phycol.
, vol.38
, pp. 1213-1221
-
-
Cimino, M.T.1
Delwiche, C.F.2
-
13
-
-
0027321537
-
The single group-I intron in the chloroplast rrnL gene of Chlamydomonas humicola encodes a site-specific endonuclease (I-ChuI)
-
Côté, V., J.-P. Mercier, C. Lemieux, and M. Tunnel. 1993. The single group-I intron in the chloroplast rrnL gene of Chlamydomonas humicola encodes a site-specific endonuclease (I-ChuI). Gene 129:69-76.
-
(1993)
Gene
, vol.129
, pp. 69-76
-
-
Côté, V.1
Mercier, J.-P.2
Lemieux, C.3
Tunnel, M.4
-
14
-
-
17744394753
-
Phylogenomics and the reconstruction of the tree of life
-
Delsuc, F., H. Brinkmann, and H. Philippe. 2005. Phylogenomics and the reconstruction of the tree of life. Nat. Rev. Genet. 6:361-375.
-
(2005)
Nat. Rev. Genet.
, vol.6
, pp. 361-375
-
-
Delsuc, F.1
Brinkmann, H.2
Philippe, H.3
-
15
-
-
0036232864
-
Phylogeny of the genus Coleochaete (Coleochaetales, Charophyta) and related taxa inferred by analysis of the chloroplast gene rbcL
-
Delwiche, C. F., K. G. Karol, M. T. Cimino, and K. J. Sytsma. 2002. Phylogeny of the genus Coleochaete (Coleochaetales, Charophyta) and related taxa inferred by analysis of the chloroplast gene rbcL. J. Phycol. 38:394-403.
-
(2002)
J. Phycol.
, vol.38
, pp. 394-403
-
-
Delwiche, C.F.1
Karol, K.G.2
Cimino, M.T.3
Sytsma, K.J.4
-
16
-
-
84959795073
-
Phylogenetic analysis under Dollo's Law
-
Farris, J. S. 1977. Phylogenetic analysis under Dollo's Law. Syst. Zool. 26:77-88.
-
(1977)
Syst. Zool.
, vol.26
, pp. 77-88
-
-
Farris, J.S.1
-
17
-
-
84959798530
-
Cases in which parsimony or compatibility methods will be positively misleading
-
Felsenstein, J. 1978. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 27:401-410.
-
(1978)
Syst. Zool.
, vol.27
, pp. 401-410
-
-
Felsenstein, J.1
-
18
-
-
0003437299
-
-
Distributed by the author, Department of Genetics, University of Washington, Seattle
-
_. 1995. PHYLIP (phylogeny inference package). Version 3.5. Distributed by the author, Department of Genetics, University of Washington, Seattle.
-
(1995)
PHYLIP (Phylogeny Inference Package). Version 3.5
-
-
-
19
-
-
23944470414
-
Evidence for the most basal split in land plants dividing bryophyte and tracheophyte lineages
-
Goremykin, V. V., and F. H. Hellwig. 2005. Evidence for the most basal split in land plants dividing bryophyte and tracheophyte lineages. Plant Syst. Evol. 254:93-103.
-
(2005)
Plant Syst. Evol.
, vol.254
, pp. 93-103
-
-
Goremykin, V.V.1
Hellwig, F.H.2
-
20
-
-
23944524609
-
Analysis of Acorus calamus chloroplast genome and its phylogenetic implications
-
Goremykin, V. V., B. Holland, K. I. Hirsch-Ernst, and F. H. Hellwig. 2005. Analysis of Acorus calamus chloroplast genome and its phylogenetic implications. Mol. Biol. Evol. 22:1813-1822.
-
(2005)
Mol. Biol. Evol.
, vol.22
, pp. 1813-1822
-
-
Goremykin, V.V.1
Holland, B.2
Hirsch-Ernst, K.I.3
Hellwig, F.H.4
-
21
-
-
0034712758
-
The origin of plants: Body plan changes contributing to a major evolutionary radiation
-
USA
-
Graham, L. E., M. E. Cook, and J. S. Busse. 2000. The origin of plants: body plan changes contributing to a major evolutionary radiation. Proc. Natl. Acad. Sci. USA 97:4535-4540.
-
(2000)
Proc. Natl. Acad. Sci.
, vol.97
, pp. 4535-4540
-
-
Graham, L.E.1
Cook, M.E.2
Busse, J.S.3
-
22
-
-
0029856519
-
Bias-corrected paralinear and LogDet distances and tests of molecular clocks and phylogenies under nonstationary nucleotide frequencies
-
Gu, X., and W. H. Li. 1996. Bias-corrected paralinear and LogDet distances and tests of molecular clocks and phylogenies under nonstationary nucleotide frequencies. Mol. Biol. Evol. 13:1375-1383.
-
(1996)
Mol. Biol. Evol.
, vol.13
, pp. 1375-1383
-
-
Gu, X.1
Li, W.H.2
-
23
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon, S., and O. Gascuel. 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 52:696-704.
-
(2003)
Syst. Biol.
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
24
-
-
0035861514
-
The closest living relatives of land plants
-
Karol, K. G., R. M. McCourt, M. T. Cimino, and C. F. Delwiche. 2001. The closest living relatives of land plants. Science 294:2351-2353.
-
(2001)
Science
, vol.294
, pp. 2351-2353
-
-
Karol, K.G.1
McCourt, R.M.2
Cimino, M.T.3
Delwiche, C.F.4
-
25
-
-
0030885968
-
The origin and early evolution of plants on land
-
Kenrick, P., and P. R. Crane. 1997. The origin and early evolution of plants on land. Nature 389:33-39.
-
(1997)
Nature
, vol.389
, pp. 33-39
-
-
Kenrick, P.1
Crane, P.R.2
-
26
-
-
7244221755
-
Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous
-
Kolaczkowski, B., and J. W. Thornton. 2004. Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous. Nature 431:980-984.
-
(2004)
Nature
, vol.431
, pp. 980-984
-
-
Kolaczkowski, B.1
Thornton, J.W.2
-
27
-
-
0037440006
-
The complete nucleotide sequence of the hornwort (Anthoceros formosae) chloroplast genome: Insight into the earliest land plants
-
Kugita, M., A. Kaneko, Y. Yamamoto, Y. Takeya, T. Matsumoto, and K. Yoshinaga. 2003. The complete nucleotide sequence of the hornwort (Anthoceros formosae) chloroplast genome: insight into the earliest land plants. Nucleic Acids Res. 31:716-721.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 716-721
-
-
Kugita, M.1
Kaneko, A.2
Yamamoto, Y.3
Takeya, Y.4
Matsumoto, T.5
Yoshinaga, K.6
-
28
-
-
0028181246
-
Reconstructing evolutionary trees from DNA and protein sequences: Paralinear distances
-
USA
-
Lake, J. A. 1994. Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances. Proc. Natl. Acad. Sci. USA 91:1455-1459.
-
(1994)
Proc. Natl. Acad. Sci.
, vol.91
, pp. 1455-1459
-
-
Lake, J.A.1
-
29
-
-
24744449757
-
Identifying the basal angiosperm node in chloroplast genome phylogenies: Sampling one's way out of the Felsenstein zone
-
Leebens-Mack, J., L. A. Raubeson, L. Cui, J. V. Kuehl, M. H. Fourcade, T. W. Chumley, J. L. Boore, R. K. Jansen, and C. W. Depamphilis. 2005. Identifying the basal angiosperm node in chloroplast genome phylogenies: sampling one's way out of the Felsenstein zone. Mol. Biol. Evol. 22:1948-1963.
-
(2005)
Mol. Biol. Evol.
, vol.22
, pp. 1948-1963
-
-
Leebens-Mack, J.1
Raubeson, L.A.2
Cui, L.3
Kuehl, J.V.4
Fourcade, M.H.5
Chumley, T.W.6
Boore, J.L.7
Jansen, R.K.8
Depamphilis, C.W.9
-
30
-
-
0034628462
-
Ancestral chloroplast genome in Mesostigma viride reveals an early branch of green plant evolution
-
Lemieux, C., C. Otis, and M. Turmel. 2000. Ancestral chloroplast genome in Mesostigma viride reveals an early branch of green plant evolution. Nature 403:649-652.
-
(2000)
Nature
, vol.403
, pp. 649-652
-
-
Lemieux, C.1
Otis, C.2
Turmel, M.3
-
31
-
-
17644368841
-
Green algae and the origin of land plants
-
Lewis, L. A., and R. M. McCourt. 2004. Green algae and the origin of land plants. Am. J. Bot. 91:1535-1556.
-
(2004)
Am. J. Bot.
, vol.91
, pp. 1535-1556
-
-
Lewis, L.A.1
McCourt, R.M.2
-
32
-
-
0028361182
-
Recovering evolutionary trees under a more realistic model of sequence evolution
-
Lockhart, P. J., M. A. Steel, M. D. Hendy, and D. Penny. 1994. Recovering evolutionary trees under a more realistic model of sequence evolution. Mol. Biol. Evol. 11:605-612.
-
(1994)
Mol. Biol. Evol.
, vol.11
, pp. 605-612
-
-
Lockhart, P.J.1
Steel, M.A.2
Hendy, M.D.3
Penny, D.4
-
33
-
-
0036134757
-
Heterotachy, an important process of protein evolution
-
Lopez, P., D. Casane, and H. Philippe. 2002. Heterotachy, an important process of protein evolution. Mol. Biol. Evol. 19:1-7.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 1-7
-
-
Lopez, P.1
Casane, D.2
Philippe, H.3
-
34
-
-
0030854739
-
tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
-
Lowe, T. M., and S. R. Eddy. 1997. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25:955-964.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 955-964
-
-
Lowe, T.M.1
Eddy, S.R.2
-
36
-
-
0029863292
-
RNA editing in bryophytes and a molecular phylogeny of land plants
-
Malek, O., K. Lattig, R. Hiesel, A. Brennicke, and V. Knoop. 1996. RNA editing in bryophytes and a molecular phylogeny of land plants. EMBO J. 15:1403-1411.
-
(1996)
EMBO J.
, vol.15
, pp. 1403-1411
-
-
Malek, O.1
Lattig, K.2
Hiesel, R.3
Brennicke, A.4
Knoop, V.5
-
37
-
-
84986799927
-
Unique chloroplast genome in Spirogyra maxima (Chlorophyta) revealed by physical and gene mapping
-
Manhart, J. R., R. W. Hoshaw, and J. D. Palmer. 1990. Unique chloroplast genome in Spirogyra maxima (Chlorophyta) revealed by physical and gene mapping. J. Phycol. 26:490-494.
-
(1990)
J. Phycol.
, vol.26
, pp. 490-494
-
-
Manhart, J.R.1
Hoshaw, R.W.2
Palmer, J.D.3
-
38
-
-
0033381389
-
Mesostigmatophyceae, a new class of streptophyte green algae revealed by SSU rRNA sequence comparisons
-
Marin, B., and M. Melkonian. 1999. Mesostigmatophyceae, a new class of streptophyte green algae revealed by SSU rRNA sequence comparisons. Protist 150:399-417.
-
(1999)
Protist
, vol.150
, pp. 399-417
-
-
Marin, B.1
Melkonian, M.2
-
39
-
-
18144368560
-
Chloroplast genome phylogenetics: Why we need independent approaches to plant molecular evolution
-
Martin, W., O. Deusch, N. Stawski, N. Grunheit, and V. Goremykin. 2005. Chloroplast genome phylogenetics: why we need independent approaches to plant molecular evolution. Trends Plant Sci. 10:203-209.
-
(2005)
Trends Plant Sci.
, vol.10
, pp. 203-209
-
-
Martin, W.1
Deusch, O.2
Stawski, N.3
Grunheit, N.4
Goremykin, V.5
-
40
-
-
0037126071
-
Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus
-
USA
-
Martin, W., T. Rujan, E. Richly, A. Hansen, S. Cornelsen, T. Lins, D. Leister, B. Stoebe, M. Hasegawa, and D. Penny. 2002. Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus. Proc. Natl. Acad. Sci. USA 99:12246-12251.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 12246-12251
-
-
Martin, W.1
Rujan, T.2
Richly, E.3
Hansen, A.4
Cornelsen, S.5
Lins, T.6
Leister, D.7
Stoebe, B.8
Hasegawa, M.9
Penny, D.10
-
41
-
-
0002980248
-
Classification of the green algae: A concept based on comparative cytology
-
D. E. G. Irvine, and D. M. John, eds. Academic Press, London
-
Mattox, K. R., and K. D. Stewart. 1984. Classification of the green algae: a concept based on comparative cytology. Pp. 29-72 in D. E. G. Irvine, and D. M. John, eds. The systematics of the green algae. Academic Press, London.
-
(1984)
The Systematics of the Green Algae
, pp. 29-72
-
-
Mattox, K.R.1
Stewart, K.D.2
-
43
-
-
0024428420
-
Comparative and functional anatomy of group II catalytic introns - A review
-
Michel, F., K. Umesono, and H. Ozeki. 1989. Comparative and functional anatomy of group II catalytic introns - a review. Gene 82:5-30.
-
(1989)
Gene
, vol.82
, pp. 5-30
-
-
Michel, F.1
Umesono, K.2
Ozeki, H.3
-
44
-
-
0025678737
-
Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis
-
Michel, F., and E. Westhof. 1990. Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis. J. Mol. Biol. 216:585-610.
-
(1990)
J. Mol. Biol.
, vol.216
, pp. 585-610
-
-
Michel, F.1
Westhof, E.2
-
45
-
-
84957042462
-
Inversion medians outperform breakpoint medians in phylogeny reconstruction from gene-order data
-
Lecture Notes in Computer Science. Springer-Verlag, New York
-
Moret, B. M. E., A. C. Siepel, J. Tang, and T. Liu. 2002. Inversion medians outperform breakpoint medians in phylogeny reconstruction from gene-order data. Pp. 521-536. Proceedings of the Second International Workshop on Algorithms in Bioinformatics (WABI 2002), Lecture Notes in Computer Science. Springer-Verlag, New York.
-
(2002)
Proceedings of the Second International Workshop on Algorithms in Bioinformatics (WABI 2002)
, pp. 521-536
-
-
Moret, B.M.E.1
Siepel, A.C.2
Tang, J.3
Liu, T.4
-
46
-
-
4944236760
-
Chloroplast phylogeny indicates that bryophytes are monophyletic
-
Nishiyama, T., P. G. Wolf, M. Kugita et al. (12 co-authors). 2004. Chloroplast phylogeny indicates that bryophytes are monophyletic. Mol. Biol. Evol. 21:1813-1819.
-
(2004)
Mol. Biol. Evol.
, vol.21
, pp. 1813-1819
-
-
Nishiyama, T.1
Wolf, P.G.2
Kugita, M.3
-
47
-
-
0022546644
-
Chloroplast gene organization deduced from complete sequence of liverwort Marchantia polymorpha chloroplast DNA
-
Ohyama, K., H. Fukuzawa, T. Kohchi et al. (13 co-authors). 1986. Chloroplast gene organization deduced from complete sequence of liverwort Marchantia polymorpha chloroplast DNA. Nature 322:572-574.
-
(1986)
Nature
, vol.322
, pp. 572-574
-
-
Ohyama, K.1
Fukuzawa, H.2
Kohchi, T.3
-
48
-
-
0001856419
-
Plastid chromosomes: Structure and evolution
-
L. Bogorad, and K. Vasil, eds. Academic Press, San Diego, Calif.
-
Palmer, J. D. 1991. Plastid chromosomes: structure and evolution. Pp. 5-53 in L. Bogorad, and K. Vasil, eds. The molecular biology of plastids. Academic Press, San Diego, Calif.
-
(1991)
The Molecular Biology of Plastids
, pp. 5-53
-
-
Palmer, J.D.1
-
49
-
-
0042672742
-
Origin, evolution, and metabolic role of a novel glycolytic GAPDH enzyme recruited by land plant plastids
-
Petersen, J., H. Brinkmann, and R. Cerff. 2003. Origin, evolution, and metabolic role of a novel glycolytic GAPDH enzyme recruited by land plant plastids. J. Mol. Evol. 57:16-26.
-
(2003)
J. Mol. Evol.
, vol.57
, pp. 16-26
-
-
Petersen, J.1
Brinkmann, H.2
Cerff, R.3
-
50
-
-
17744386162
-
Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia
-
Philippe, H., N. Lartillot, and H. Brinkmann. 2005. Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. Mol. Biol. Evol. 22:1246-1253.
-
(2005)
Mol. Biol. Evol.
, vol.22
, pp. 1246-1253
-
-
Philippe, H.1
Lartillot, N.2
Brinkmann, H.3
-
51
-
-
0031773680
-
MODELTEST: Testing the model of DNA substitution
-
Posada, D., and K. A. Crandall. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818.
-
(1998)
Bioinformatics
, vol.14
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
52
-
-
0032996560
-
Phylogeny of early land plants: Insights from genes and genomes
-
Qiu, Y. L., and J. D. Palmer. 1999. Phylogeny of early land plants: insights from genes and genomes. Trends Plant Sci. 4:26-30.
-
(1999)
Trends Plant Sci.
, vol.4
, pp. 26-30
-
-
Qiu, Y.L.1
Palmer, J.D.2
-
53
-
-
0034201441
-
EMBOSS: The European Molecular Biology Open Software Suite
-
Rice, P., I. Longden, and A. Bleasby. 2000. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 16:276-277.
-
(2000)
Trends Genet.
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby, A.3
-
54
-
-
0034129663
-
RRTree: Relative-rate tests between groups of sequences on a phylogenetic tree
-
Robinson-Rechavi, M., and D. Huchon. 2000. RRTree: relative-rate tests between groups of sequences on a phylogenetic tree. Bioinformatics 16:296-297.
-
(2000)
Bioinformatics
, vol.16
, pp. 296-297
-
-
Robinson-Rechavi, M.1
Huchon, D.2
-
55
-
-
18944367488
-
Molecular evidence on plant divergence times
-
Sanderson, M. J., J. L. Thorne, N. Wikstrom, and K. Bremer. 2004. Molecular evidence on plant divergence times. Am. J. Bot. 91:1656-1665.
-
(2004)
Am. J. Bot.
, vol.91
, pp. 1656-1665
-
-
Sanderson, M.J.1
Thorne, J.L.2
Wikstrom, N.3
Bremer, K.4
-
56
-
-
17844384302
-
Phylogeny and diversification of bryophytes
-
Shaw, J., and K. Renzaglia. 2004. Phylogeny and diversification of bryophytes. Am. J. Bot. 91:1557-1581.
-
(2004)
Am. J. Bot.
, vol.91
, pp. 1557-1581
-
-
Shaw, J.1
Renzaglia, K.2
-
57
-
-
0032766857
-
Multiple comparisons of log-likelihoods with applications to phylogenetic inference
-
Shimodaira, H., and M. Hasegawa. 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 16:1114-1116.
-
(1999)
Mol. Biol. Evol.
, vol.16
, pp. 1114-1116
-
-
Shimodaira, H.1
Hasegawa, M.2
-
58
-
-
4644350604
-
Genome-scale data, angiosperm relationships, and "ending incongruence": A cautionary tale in phylogenetics
-
Soltis, D. E., V. A. Albert, V. Savolainen et al. (11 co-authors). 2004. Genome-scale data, angiosperm relationships, and "ending incongruence": a cautionary tale in phylogenetics. Trends Plant Sci. 9:477-483.
-
(2004)
Trends Plant Sci.
, vol.9
, pp. 477-483
-
-
Soltis, D.E.1
Albert, V.A.2
Savolainen, V.3
-
59
-
-
17744400517
-
Likelihood, parsimony, and heterogeneous evolution
-
Spencer, M., E. Susko, and A. J. Roger. 2005. Likelihood, parsimony, and heterogeneous evolution. Mol. Biol. Evol. 22:1161-1164.
-
(2005)
Mol. Biol. Evol.
, vol.22
, pp. 1161-1164
-
-
Spencer, M.1
Susko, E.2
Roger, A.J.3
-
60
-
-
0001174620
-
Did multicellular plants invade the land?
-
Stebbins, G. L., and G. J. C. Hill. 1980. Did multicellular plants invade the land? Am. Nat. 115:342-353.
-
(1980)
Am. Nat.
, vol.115
, pp. 342-353
-
-
Stebbins, G.L.1
Hill, G.J.C.2
-
61
-
-
43949153645
-
Recovering a tree from the leaf colorations it generates under a Markov model
-
Steel, M. 1994. Recovering a tree from the leaf colorations it generates under a Markov model. Appl. Math. Lett. 7:19-23.
-
(1994)
Appl. Math. Lett.
, vol.7
, pp. 19-23
-
-
Steel, M.1
-
62
-
-
0034350429
-
Invariable sites models and their use in phylogeny reconstruction
-
Steel, M., D. Huson, and P. J. Lockhart. 2000. Invariable sites models and their use in phylogeny reconstruction. Syst. Biol. 49:225-232.
-
(2000)
Syst. Biol.
, vol.49
, pp. 225-232
-
-
Steel, M.1
Huson, D.2
Lockhart, P.J.3
-
63
-
-
0027180533
-
Confidence in evolutionary trees from biological sequence data
-
Steel, M. A., P. J. Lockhart, and D. Penny. 1993. Confidence in evolutionary trees from biological sequence data. Nature 364:440-442.
-
(1993)
Nature
, vol.364
, pp. 440-442
-
-
Steel, M.A.1
Lockhart, P.J.2
Penny, D.3
-
64
-
-
0029836454
-
Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies
-
Strimmer, K., and A. von Haeseler. 1996. Quartet puzzling: a quartet maximum-likelihood method for reconstructing tree topologies. Mol. Biol. Evol. 13:964-969.
-
(1996)
Mol. Biol. Evol.
, vol.13
, pp. 964-969
-
-
Strimmer, K.1
Von Haeseler, A.2
-
65
-
-
0344875209
-
Complete chloroplast DNA sequence of the moss Physcomitrella patens: Evidence for the loss and relocation of rpoA from the chloroplast to the nucleus
-
Sugiura, C., Y. Kobayashi, S. Aoki, C. Sugita, and M. Sugita. 2003. Complete chloroplast DNA sequence of the moss Physcomitrella patens: evidence for the loss and relocation of rpoA from the chloroplast to the nucleus. Nucleic Acids Res. 31:5324-5331.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 5324-5331
-
-
Sugiura, C.1
Kobayashi, Y.2
Aoki, S.3
Sugita, C.4
Sugita, M.5
-
67
-
-
0036211065
-
GRIMM: Genome rearrangements web server
-
Tesler, G. 2002. GRIMM: genome rearrangements web server. Bioinformatics 18:492-493.
-
(2002)
Bioinformatics
, vol.18
, pp. 492-493
-
-
Tesler, G.1
-
68
-
-
1342288009
-
LDDist: A Perl module for calculating LogDet pair-wise distances for protein and nucleotide sequences
-
Thollesson, M. 2004. LDDist: a Perl module for calculating LogDet pair-wise distances for protein and nucleotide sequences. Bioinformatics 20:416-418.
-
(2004)
Bioinformatics
, vol.20
, pp. 416-418
-
-
Thollesson, M.1
-
69
-
-
0036232908
-
Phylogenetic relationships among streptophytes as inferred from chloroplast small and large subunit rRNA gene sequences
-
Turmel, M., M. Ehara, C. Otis, and C. Lemieux. 2002. Phylogenetic relationships among streptophytes as inferred from chloroplast small and large subunit rRNA gene sequences. J. Phycol. 38:364-375.
-
(2002)
J. Phycol.
, vol.38
, pp. 364-375
-
-
Turmel, M.1
Ehara, M.2
Otis, C.3
Lemieux, C.4
-
70
-
-
0027295667
-
Analysis of the chloroplast large subunit ribosomal RNA gene from 17 Chlamydomonas taxa. Three internal transcribed spacers and 12 group I intron insertion sites
-
Turmel, M., R. R. Gutell, J. P. Mercier, C. Otis, and C. Lemieux. 1993. Analysis of the chloroplast large subunit ribosomal RNA gene from 17 Chlamydomonas taxa. Three internal transcribed spacers and 12 group I intron insertion sites. J. Mol. Biol. 232:446-467.
-
(1993)
J. Mol. Biol.
, vol.232
, pp. 446-467
-
-
Turmel, M.1
Gutell, R.R.2
Mercier, J.P.3
Otis, C.4
Lemieux, C.5
-
71
-
-
0033197514
-
The complete mitochondrial DNA sequences of Nephroselmis olivacea and Pedinomonas minor: Two radically different evolutionary patterns within green algae
-
Turmel, M., C. Lemieux, G. Burger, B. F. Lang, C. Otis, I. Plante, and M. W. Gray. 1999. The complete mitochondrial DNA sequences of Nephroselmis olivacea and Pedinomonas minor: two radically different evolutionary patterns within green algae. Plant Cell 11:1717-1729.
-
(1999)
Plant Cell
, vol.11
, pp. 1717-1729
-
-
Turmel, M.1
Lemieux, C.2
Burger, G.3
Lang, B.F.4
Otis, C.5
Plante, I.6
Gray, M.W.7
-
72
-
-
0027454523
-
Group I introns interrupt the chloroplast psaB and psbC and the mitochondrial rrnL gene in Chlamydomonas
-
Turmel, M., J.-P. Mercier, and M.-J. Côté. 1993. Group I introns interrupt the chloroplast psaB and psbC and the mitochondrial rrnL gene in Chlamydomonas. Nucleic Acids Res. 21:5242-5250.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 5242-5250
-
-
Turmel, M.1
Mercier, J.-P.2
Côté, M.-J.3
-
73
-
-
0036135441
-
The complete mitochondrial DNA sequence of Mesostigma viride identifies this green alga as the earliest green plant divergence and predicts a highly compact mitochondrial genome in the ancestor of all green plants
-
Turmel, M., C. Otis, and C. Lemieux. 2002a. The complete mitochondrial DNA sequence of Mesostigma viride identifies this green alga as the earliest green plant divergence and predicts a highly compact mitochondrial genome in the ancestor of all green plants. Mol. Biol. Evol. 19:24-38.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 24-38
-
-
Turmel, M.1
Otis, C.2
Lemieux, C.3
-
74
-
-
0037143760
-
The chloroplast and mitochondrial genome sequences of the charophyte Chaetosphaeridium globosum: Insights into the timing of the events that restructured organelle DNAs within the green algal lineage that led to land plants
-
USA
-
_. 2002b. The chloroplast and mitochondrial genome sequences of the charophyte Chaetosphaeridium globosum: insights into the timing of the events that restructured organelle DNAs within the green algal lineage that led to land plants. Proc. Natl. Acad. Sci. USA 99:11275-11280.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 11275-11280
-
-
-
75
-
-
0042922459
-
The mitochondrial genome of Chara vulgaris: Insights into the mitochondrial DNA architecture of the last common ancestor of green algae and land plants
-
_. 2003. The mitochondrial genome of Chara vulgaris: insights into the mitochondrial DNA architecture of the last common ancestor of green algae and land plants. Plant Cell 15:1888-1903.
-
(2003)
Plant Cell
, vol.15
, pp. 1888-1903
-
-
-
76
-
-
27744492579
-
The complete chloroplast DNA sequences of the charophycean green algae Staurastrum and Zygnema reveal that the chloroplast genome underwent extensive changes during the evolution of the Zygnematales
-
_. 2005. The complete chloroplast DNA sequences of the charophycean green algae Staurastrum and Zygnema reveal that the chloroplast genome underwent extensive changes during the evolution of the Zygnematales. BMC Biol. 3:22.
-
(2005)
BMC Biol.
, vol.3
, pp. 22
-
-
-
77
-
-
21144458976
-
The first complete chloroplast genome sequence of a lycophyte, Huperzia lucidula (Lycopodiaceae)
-
Wolf, P. G., K. G. Karol, D. F. Mandoli, J. Kuehl, K. Arumuganathan, M. W. Ellis, B. D. Mishler, D. G. Kelch, R. G. Olmstead, and J. L. Boore. 2005. The first complete chloroplast genome sequence of a lycophyte, Huperzia lucidula (Lycopodiaceae). Gene 350:117-128.
-
(2005)
Gene
, vol.350
, pp. 117-128
-
-
Wolf, P.G.1
Karol, K.G.2
Mandoli, D.F.3
Kuehl, J.4
Arumuganathan, K.5
Ellis, M.W.6
Mishler, B.D.7
Kelch, D.G.8
Olmstead, R.G.9
Boore, J.L.10
-
78
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang, Z. 1997. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13:555-556.
-
(1997)
Comput. Appl. Biosci.
, vol.13
, pp. 555-556
-
-
Yang, Z.1
|