-
1
-
-
0037154011
-
A cyanobacterial gene in nonphotosynthetic protists - An early chloroplast acquisition in Eukaryotes?
-
Andersson, J. O. & Roger, A. J. 2002. A cyanobacterial gene in nonphotosynthetic protists - an early chloroplast acquisition in Eukaryotes? Curr. Biol. 12:115-9.
-
(2002)
Curr. Biol.
, vol.12
, pp. 115-119
-
-
Andersson, J.O.1
Roger, A.J.2
-
2
-
-
0030667683
-
Origin and evolution of the slime molds (Mycetozoa)
-
Baldauf, S. L. & Doolittle, W. F. 1997. Origin and evolution of the slime molds (Mycetozoa). Proc. Natl. Acad. Sci. USA 94:12007-12.
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 12007-12012
-
-
Baldauf, S.L.1
Doolittle, W.F.2
-
3
-
-
0034602344
-
A kingdom-level phylogeny of eukaryotes based on combined protein data
-
Baldauf, S. L., Roger, A. J., Wenk-Siefert, I. & Doolittle, W. F. 2000. A kingdom-level phylogeny of eukaryotes based on combined protein data. Science 290:972-7.
-
(2000)
Science
, vol.290
, pp. 972-977
-
-
Baldauf, S.L.1
Roger, A.J.2
Wenk-Siefert, I.3
Doolittle, W.F.4
-
4
-
-
0037022379
-
The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium, Entamoeba, and Mastigamoeba
-
Bapteste, E., Brinkmann, H., Lee, J. A., Moore, D. V., Sensen, C. W., Gordon, P., Duruflé, L., Gaasterland, T., Lopez, P., Müller, M. & Philippe, H. 2002. The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium, Entamoeba, and Mastigamoeba. Proc. Natl. Acad. Sci. USA 99:1414-9.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 1414-1419
-
-
Bapteste, E.1
Brinkmann, H.2
Lee, J.A.3
Moore, D.V.4
Sensen, C.W.5
Gordon, P.6
Duruflé, L.7
Gaasterland, T.8
Lopez, P.9
Müller, M.10
Philippe, H.11
-
5
-
-
0035986877
-
Contrasting rates of mitochondrial molecular evolution in parasitic Diptera and Hymenoptera
-
Castro, L. R., Austin, A. D. & Dowton, M. 2002. Contrasting rates of mitochondrial molecular evolution in parasitic Diptera and Hymenoptera. Mol. Biol. Evol. 19:1100-3.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 1100-1103
-
-
Castro, L.R.1
Austin, A.D.2
Dowton, M.3
-
6
-
-
0037154314
-
Chloroplast evolution: Secondary symbio-genesis and multiple losses
-
Cavalier-Smith, T. 2002. Chloroplast evolution: secondary symbio-genesis and multiple losses. Curr. Biol. 12:R62-4.
-
(2002)
Curr. Biol.
, vol.12
-
-
Cavalier-Smith, T.1
-
7
-
-
0037471677
-
Genomic reduction and evolution of novel genetic membranes and protein-targeting machinery in eukaryote-eukaryote chimaeras (meta-algae)
-
Cavalier-Smith, T 2003. Genomic reduction and evolution of novel genetic membranes and protein-targeting machinery in eukaryote-eukaryote chimaeras (meta-algae). Philos. Trans. R. Soc. Land. B Biol. Sci. 358:109-33.
-
(2003)
Philos. Trans. R. Soc. Land. B Biol. Sci.
, vol.358
, pp. 109-133
-
-
Cavalier-Smith, T.1
-
8
-
-
0000461280
-
Confidence limits on phylogenies: An approach using the bootstrap
-
Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 38:16-24.
-
(1985)
Evolution
, vol.38
, pp. 16-24
-
-
Felsenstein, J.1
-
9
-
-
0003437299
-
-
Distributed by the author. Department of Genome Sciences, University of Washington, Seattle
-
Felsenstein, J. 2002. PHYLIP (Phylogeny Inference Package). Version 3.6a3. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle.
-
(2002)
PHYLIP (Phylogeny Inference Package). Version 3.6a3
-
-
Felsenstein, J.1
-
10
-
-
0033534532
-
Novel organization and sequences of five genes encoding all six enzymes for de novo pyrimidine biosynthesis in Trypanosoma cruzi
-
Gao, G., Nara, T., Nakajima-Shimada, J. & Aoki, T. 1999. Novel organization and sequences of five genes encoding all six enzymes for de novo pyrimidine biosynthesis in Trypanosoma cruzi. J. Mol. Biol. 28:149-61.
-
(1999)
J. Mol. Biol.
, vol.28
, pp. 149-161
-
-
Gao, G.1
Nara, T.2
Nakajima-Shimada, J.3
Aoki, T.4
-
11
-
-
0037015614
-
Genome sequence of the human malaria parasite Plasmodium falciparum
-
Gardner, M. J., Hall, N., Fung, E., White, O., Berriman. M., Hyman, R. W., Carlton, J. M., Pain, A., Nelson, K. E., Bowman, S., Paulsen, I. T., James, K., Eisen, J. A., Rutherford, K., Salzberg, S. L., Craig, A., Kyes, S., Chan, M. S., Nene, V., Shallom, S. J., Suh, B., Peterson, J., Angiuoli, S., Pertea, M., Allen, J., Selengut, J., Haft, D., Mather, M. W., Vaidya, A. B., Martin, D. M., Fairlamb, A. H., Fraunholz, M. J., Roos, D. S., Ralph, S. A., McFadden, G. I., Cummings, L. M., Subramanian, G. M., Mungall, C., Venter, J. C., Carucci, D. J., Hoffman, S. L., Newbold, C., Davis, R. W., Fraser, C. M. & Barrell, B. 2002. Genome sequence of the human malaria parasite Plasmodium falciparum. Nature 419:498-511.
-
(2002)
Nature
, vol.419
, pp. 498-511
-
-
Gardner, M.J.1
Hall, N.2
Fung, E.3
White, O.4
Berriman, M.5
Hyman, R.W.6
Carlton, J.M.7
Pain, A.8
Nelson, K.E.9
Bowman, S.10
Paulsen, I.T.11
James, K.12
Eisen, J.A.13
Rutherford, K.14
Salzberg, S.L.15
Craig, A.16
Kyes, S.17
Chan, M.S.18
Nene, V.19
Shallom, S.J.20
Suh, B.21
Peterson, J.22
Angiuoli, S.23
Pertea, M.24
Allen, J.25
Selengut, J.26
Haft, D.27
Mather, M.W.28
Vaidya, A.B.29
Martin, D.M.30
Fairlamb, A.H.31
Fraunholz, M.J.32
Roos, D.S.33
Ralph, S.A.34
McFadden, G.I.35
Cummings, L.M.36
Subramanian, G.M.37
Mungall, C.38
Venter, J.C.39
Carucci, D.J.40
Hoffman, S.L.41
Newbold, C.42
Davis, R.W.43
Fraser, C.M.44
Barrell, B.45
more..
-
12
-
-
0027466539
-
Early branchings in the evolution of eukaryotes: Ancient divergence of Entamoeba that lacks mitochondria revealed by protein sequence data
-
Hasegawa, M., Hashimoto, T., Adachi, J., Iwabe, N. & Miyata, T. 1993. Early branchings in the evolution of eukaryotes: ancient divergence of Entamoeba that lacks mitochondria revealed by protein sequence data. J. Mol. Evol. 36:380-8.
-
(1993)
J. Mol. Evol.
, vol.36
, pp. 380-388
-
-
Hasegawa, M.1
Hashimoto, T.2
Adachi, J.3
Iwabe, N.4
Miyata, T.5
-
13
-
-
0026691182
-
The rapid generation of mutation data matrices from protein sequences
-
Jones, D. T., Taylor, W. R. & Thornton, J. M. 1992. The rapid generation of mutation data matrices from protein sequences. CABIOS 8:275-82.
-
(1992)
CABIOS
, vol.8
, pp. 275-282
-
-
Jones, D.T.1
Taylor, W.R.2
Thornton, J.M.3
-
15
-
-
11144354393
-
Genome sequence of the ultra-small unicellular red alga Cyanidioschyzon merolae 10D
-
Matsuzaki, M., Misumi, O., Shin-i, T., Maruyama, S., Takahara, M., Miyagishima, S., Mori, T., Nishida, K., Yagisawa, F., Nishida, K., Yoshida, Y., Nishimura, Y., Nakao, S., Kobayashi, T., Momoyama, Y., Higashiyama, T., Minoda, A., Sano, M., Nomoto, H., Oishi, K., Hayashi, H., Ohta, F., Nishizaka, S., Haga, S., Miura, S., Morishita, T., Kabeya, Y., Terasawa, K., Suzuki, Y., Ishii, Y., Asakawa, S., Takano, H., Ohta, N., Kuroiwa, H., Tanaka, K., Shimizu, N., Sugano, S., Sato, N., Nozaki, H., Ogasawara, N., Kohara, Y. & Kuroiwa, T. 2004. Genome sequence of the ultra-small unicellular red alga Cyanidioschyzon merolae 10D. Nature 428:653-7.
-
(2004)
Nature
, vol.428
, pp. 653-657
-
-
Matsuzaki, M.1
Misumi, O.2
Shin-i, T.3
Maruyama, S.4
Takahara, M.5
Miyagishima, S.6
Mori, T.7
Nishida, K.8
Yagisawa, F.9
Nishida, K.10
Yoshida, Y.11
Nishimura, Y.12
Nakao, S.13
Kobayashi, T.14
Momoyama, Y.15
Higashiyama, T.16
Minoda, A.17
Sano, M.18
Nomoto, H.19
Oishi, K.20
Hayashi, H.21
Ohta, F.22
Nishizaka, S.23
Haga, S.24
Miura, S.25
Morishita, T.26
Kabeya, Y.27
Terasawa, K.28
Suzuki, Y.29
Ishii, Y.30
Asakawa, S.31
Takano, H.32
Ohta, N.33
Kuroiwa, H.34
Tanaka, K.35
Shimizu, N.36
Sugano, S.37
Sato, N.38
Nozaki, H.39
Ogasawara, N.40
Kohara, Y.41
Kuroiwa, T.42
more..
-
16
-
-
0034604170
-
The origin of red algae and the evolution of chloroplasts
-
Moreira, D., Le Guyader, H. & Philippe, H. 2000. The origin of red algae and the evolution of chloroplasts. Nature 405:69-72.
-
(2000)
Nature
, vol.405
, pp. 69-72
-
-
Moreira, D.1
Le Guyader, H.2
Philippe, H.3
-
17
-
-
0033050538
-
Synonymous codon choices in the extremely gc-poor genome of Plasmodium falciparum: Compositional constraints and translational selection
-
Musto, H., Romero, H., Zavala, A., Jabbari, K. & Bernardi, G. 1999. Synonymous codon choices in the extremely gc-poor genome of Plasmodium falciparum: compositional constraints and translational selection. J. Mol. Evol. 49:27-35.
-
(1999)
J. Mol. Evol.
, vol.49
, pp. 27-35
-
-
Musto, H.1
Romero, H.2
Zavala, A.3
Jabbari, K.4
Bernardi, G.5
-
18
-
-
0034739441
-
Evolutionary implications of the mosaic pyrimidine- Biosynthetic pathway in eukaryotes
-
Nara, T., Hashimoto, T. & Aoki, T. 2000. Evolutionary implications of the mosaic pyrimidine- biosynthetic pathway in eukaryotes. Gene 257:209-22.
-
(2000)
Gene
, vol.257
, pp. 209-222
-
-
Nara, T.1
Hashimoto, T.2
Aoki, T.3
-
19
-
-
0041335299
-
Complete genome sequence of the oral pathogenic bacterium Porphyromonas gingivalis Strain W83
-
Nelson, K., Fleishmann, R., DeBoy, R., Paulsen, I., Fonts, D., Eisen, J., Daugherty, S., Dodson, R., Durkin, A., Gwinn, M., Haft, D., Kolonay, J., Nelson, W., White, O., Mason, T., Tallon, L., Gray, J., Granger, D., Tettelin, H., Dong, H., Galvin, J., Duncan, M., Dewhirst, F. & Fraser, C. 2003. Complete genome sequence of the oral pathogenic bacterium Porphyromonas gingivalis Strain W83. J. Bacteriol. 185:5591-601.
-
(2003)
J. Bacteriol.
, vol.185
, pp. 5591-5601
-
-
Nelson, K.1
Fleishmann, R.2
DeBoy, R.3
Paulsen, I.4
Fonts, D.5
Eisen, J.6
Daugherty, S.7
Dodson, R.8
Durkin, A.9
Gwinn, M.10
Haft, D.11
Kolonay, J.12
Nelson, W.13
White, O.14
Mason, T.15
Tallon, L.16
Gray, J.17
Granger, D.18
Tettelin, H.19
Dong, H.20
Galvin, J.21
Duncan, M.22
Dewhirst, F.23
Fraser, C.24
more..
-
20
-
-
0034733187
-
Generation of expressed sequence tags from a leafy gametophyte of a marine red alga, Porphyra yezoensis
-
Nikaido, I., Asamizu, E., Nakajima, M., Nakamura, Y., Saga, N. & Tabata, S. 2000. Generation of expressed sequence tags from a leafy gametophyte of a marine red alga, Porphyra yezoensis. DNA Res. 7:223-7.
-
(2000)
DNA Res.
, vol.7
, pp. 223-227
-
-
Nikaido, I.1
Asamizu, E.2
Nakajima, M.3
Nakamura, Y.4
Saga, N.5
Tabata, S.6
-
21
-
-
3042769418
-
Cyanobacterial genes transmitted to the nucleus before divergence of red algae in the Chromista
-
Nozaki, H., Matsuzaki, M., Misumi, O., Kuroiwa, H., Hasegawa, M., Higashiyama, T., Shin-i, T., Kohara, Y., Ogasawara, N. & Kuroiwa, T. 2004. Cyanobacterial genes transmitted to the nucleus before divergence of red algae in the Chromista. J. Mol. Evol. 59:103-13.
-
(2004)
J. Mol. Evol.
, vol.59
, pp. 103-113
-
-
Nozaki, H.1
Matsuzaki, M.2
Misumi, O.3
Kuroiwa, H.4
Hasegawa, M.5
Higashiyama, T.6
Shin-i, T.7
Kohara, Y.8
Ogasawara, N.9
Kuroiwa, T.10
-
22
-
-
0037381973
-
The phylogenetic position of red algae revealed by multiple nuclear genes from mitochondria-containing eukaryotes and an alternative hypothesis on the origin of plastids
-
Nozaki, H., Matsuzaki, M., Takahara, M., Misumi, O., Kuroiwa, H., Hasegawa, M., Shin-i, T., Kohara, Y., Ogasawara, N. & Kuroiwa, T. 2003. The phylogenetic position of red algae revealed by multiple nuclear genes from mitochondria-containing eukaryotes and an alternative hypothesis on the origin of plastids. J. Mol. Evol. 56:485-97.
-
(2003)
J. Mol. Evol.
, vol.56
, pp. 485-497
-
-
Nozaki, H.1
Matsuzaki, M.2
Takahara, M.3
Misumi, O.4
Kuroiwa, H.5
Hasegawa, M.6
Shin-i, T.7
Kohara, Y.8
Ogasawara, N.9
Kuroiwa, T.10
-
23
-
-
0037572303
-
Analyses of the complete nucleotide sequence of the plastid genome of the unicellular red alga Cyanidioschyzon merolae: Genome structure, gene organization, and gene content
-
Ohta, N., Matsuzaki, M., Misumi, O., Miyagishima, S., Nozaki, H., Tanaka, K., Shin-i, T., Kohara, Y. & Kuroiwa, T. 2003. Analyses of the complete nucleotide sequence of the plastid genome of the unicellular red alga Cyanidioschyzon merolae: genome structure, gene organization, and gene content. DNA Res. 10:67-77.
-
(2003)
DNA Res.
, vol.10
, pp. 67-77
-
-
Ohta, N.1
Matsuzaki, M.2
Misumi, O.3
Miyagishima, S.4
Nozaki, H.5
Tanaka, K.6
Shin-i, T.7
Kohara, Y.8
Kuroiwa, T.9
-
24
-
-
0034702256
-
Early-branching or fast-evolving eukaryotes? An answer based on slowly evolving positions
-
Philippe, H., Lopez, P., Brinkmann, H., Budin, K., Germot, A., Laurent, J., Moreira, D., Muller, M. & Le Guyader, H. 2000. Early-branching or fast-evolving eukaryotes? An answer based on slowly evolving positions. Proc. R. Soc. Land. B Biol. Sci. 267:1213-21.
-
(2000)
Proc. R. Soc. Land. B Biol. Sci.
, vol.267
, pp. 1213-1221
-
-
Philippe, H.1
Lopez, P.2
Brinkmann, H.3
Budin, K.4
Germot, A.5
Laurent, J.6
Moreira, D.7
Muller, M.8
Le Guyader, H.9
-
25
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
Saitou, N. & Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-25.
-
(1987)
Mol. Biol. Evol.
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
26
-
-
0036347305
-
What messenger RNA capping tells us about eukaryotic evolution
-
Shuman, S. 2002. What messenger RNA capping tells us about eukaryotic evolution. Nat. Rev. 3:619-25.
-
(2002)
Nat. Rev.
, vol.3
, pp. 619-625
-
-
Shuman, S.1
-
27
-
-
0037025197
-
Rooting the eukaryote tree by using a derived gene fusion
-
Stechmann, A. & Cavalier-Smith, T. 2002. Rooting the eukaryote tree by using a derived gene fusion. Science 297:89-91.
-
(2002)
Science
, vol.297
, pp. 89-91
-
-
Stechmann, A.1
Cavalier-Smith, T.2
-
28
-
-
0041919404
-
The root of the eukaryote tree pinpointed
-
Stechmann, A. & Cavalier-Smith, T. 2003. The root of the eukaryote tree pinpointed. Curr. Biol. 13:R665-6.
-
(2003)
Curr. Biol.
, vol.13
-
-
Stechmann, A.1
Cavalier-Smith, T.2
-
29
-
-
0032578482
-
Amitochondriate amoebae and the evolution of DNA-dependent RNA polymerase II
-
Stiller, J. W., Duffield, E. C. S. & Hall, B. D. 1998. Amitochondriate amoebae and the evolution of DNA-dependent RNA polymerase II. Proc. Natl. Acad. Sci. USA 95:11769-74.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 11769-11774
-
-
Stiller, J.W.1
Duffield, E.C.S.2
Hall, B.D.3
-
30
-
-
0034986210
-
Are red algae plants? A critical evaluation of three key molecular data sets
-
Stiller, J. W., Riley, J. & Hall, B. D. 2001. Are red algae plants? A critical evaluation of three key molecular data sets. J. Mol. Evol. 52:527-39,
-
(2001)
J. Mol. Evol.
, vol.52
, pp. 527-539
-
-
Stiller, J.W.1
Riley, J.2
Hall, B.D.3
-
31
-
-
0029836454
-
Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies
-
Strimmer, K. & von Haeseler, A. 1996. Quartet puzzling: a quartet maximum-likelihood method for reconstructing tree topologies. Mol. Biol. Evol. 13:964-9.
-
(1996)
Mol. Biol. Evol.
, vol.13
, pp. 964-969
-
-
Strimmer, K.1
Von Haeseler, A.2
-
33
-
-
0034649566
-
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
-
The Arabidopsis Genome Initiative 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796-815.
-
(2000)
Nature
, vol.408
, pp. 796-815
-
-
-
34
-
-
0031574072
-
The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson. J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876-82.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
35
-
-
0037470975
-
A genomic view of the human-Bacteroides thetaiotaomicron symbiosis
-
Xu, J., Bjursell, M. K., Himrod, J., Deng, S., Carmichael, L. K., Chiang, H. C., Hooper, L. V. & Gordon, J. I. 2003. A genomic view of the human-Bacteroides thetaiotaomicron symbiosis. Science 299:2074-6.
-
(2003)
Science
, vol.299
, pp. 2074-2076
-
-
Xu, J.1
Bjursell, M.K.2
Himrod, J.3
Deng, S.4
Carmichael, L.K.5
Chiang, H.C.6
Hooper, L.V.7
Gordon, J.I.8
|