-
1
-
-
0019764215
-
Eukaryote kingdoms: seven or nine?
-
Cavalier-Smith T. Eukaryote kingdoms: seven or nine?. Biosystems 14 (1981) 461-481
-
(1981)
Biosystems
, vol.14
, pp. 461-481
-
-
Cavalier-Smith, T.1
-
2
-
-
0032838597
-
Principles of protein and lipid targeting in secondary symbiogenesis: euglenoid, dinoflagellate, and sporozoan plastid origins and the eukaryote family tree
-
Cavalier-Smith T. Principles of protein and lipid targeting in secondary symbiogenesis: euglenoid, dinoflagellate, and sporozoan plastid origins and the eukaryote family tree. J. Eukaryot. Microbiol. 46 (1999) 347-366
-
(1999)
J. Eukaryot. Microbiol.
, vol.46
, pp. 347-366
-
-
Cavalier-Smith, T.1
-
3
-
-
0347635417
-
Photosynthetic eukaryotes unite: endosymbiosis connects the dots
-
Bhattacharya D., Yoon H.S., and Hackett J.D. Photosynthetic eukaryotes unite: endosymbiosis connects the dots. Bioessays 26 (2004) 50-60
-
(2004)
Bioessays
, vol.26
, pp. 50-60
-
-
Bhattacharya, D.1
Yoon, H.S.2
Hackett, J.D.3
-
4
-
-
0032727696
-
Tracing the thread of plastid diversity through the tapestry of life
-
Delwiche C.F. Tracing the thread of plastid diversity through the tapestry of life. Am. Nat. 154 (1999) S164-S177
-
(1999)
Am. Nat.
, vol.154
-
-
Delwiche, C.F.1
-
5
-
-
0035689472
-
Primary and secondary endosymbiosis and the origin of plastids
-
McFadden G.I. Primary and secondary endosymbiosis and the origin of plastids. J. Phycol. 37 (2001) 951-959
-
(2001)
J. Phycol.
, vol.37
, pp. 951-959
-
-
McFadden, G.I.1
-
6
-
-
0037327022
-
The symbiotic birth and spread of plastids: how many times and whodunit?
-
Palmer J.D. The symbiotic birth and spread of plastids: how many times and whodunit?. J. Phycol. 39 (2003) 4-12
-
(2003)
J. Phycol.
, vol.39
, pp. 4-12
-
-
Palmer, J.D.1
-
7
-
-
0036124759
-
Re-examining alveolate evolution using multiple protein molecular phylogenies
-
Fast N.M., Xue L., Bingham S., and Keeling P.J. Re-examining alveolate evolution using multiple protein molecular phylogenies. J. Eukaryot. Microbiol. 49 (2002) 30-37
-
(2002)
J. Eukaryot. Microbiol.
, vol.49
, pp. 30-37
-
-
Fast, N.M.1
Xue, L.2
Bingham, S.3
Keeling, P.J.4
-
8
-
-
13244270095
-
On the monophyly of chromalveolates using a six-protein phylogeny of eukaryotes
-
Harper J.T., Waanders E., and Keeling P.J. On the monophyly of chromalveolates using a six-protein phylogeny of eukaryotes. Int. J. Syst. Evol. Microbiol. 55 (2005) 487-496
-
(2005)
Int. J. Syst. Evol. Microbiol.
, vol.55
, pp. 487-496
-
-
Harper, J.T.1
Waanders, E.2
Keeling, P.J.3
-
9
-
-
39749142234
-
A photosynthetic alveolate closely related to apicomplexan parasites
-
Moore R.B., Obornik M., Janouskovec J., Chrudimsky T., Vancova M., Green D.H., Wright S.W., Davies N.W., Bolch C.J., Heimann K., et al. A photosynthetic alveolate closely related to apicomplexan parasites. Nature 451 (2008) 959-963
-
(2008)
Nature
, vol.451
, pp. 959-963
-
-
Moore, R.B.1
Obornik, M.2
Janouskovec, J.3
Chrudimsky, T.4
Vancova, M.5
Green, D.H.6
Wright, S.W.7
Davies, N.W.8
Bolch, C.J.9
Heimann, K.10
-
10
-
-
0037180558
-
The single, ancient origin of chromist plastids
-
Yoon H.S., Hackett J.D., Pinto G., and Bhattacharya D. The single, ancient origin of chromist plastids. Proc. Natl. Acad. Sci. USA 99 (2002) 15507-15512
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 15507-15512
-
-
Yoon, H.S.1
Hackett, J.D.2
Pinto, G.3
Bhattacharya, D.4
-
11
-
-
0344440735
-
Nucleus-encoded, plastid-targeted glyceraldehyde-3-phosphate dehydrogenase (GAPDH) indicates a single origin for chromalveolate plastids
-
Harper J.T., and Keeling P.J. Nucleus-encoded, plastid-targeted glyceraldehyde-3-phosphate dehydrogenase (GAPDH) indicates a single origin for chromalveolate plastids. Mol. Biol. Evol. 20 (2003) 1730-1735
-
(2003)
Mol. Biol. Evol.
, vol.20
, pp. 1730-1735
-
-
Harper, J.T.1
Keeling, P.J.2
-
12
-
-
33244468402
-
Phylogenomic analysis identifies red algal genes of endosymbiotic origin in the chromalveolates
-
Li S., Nosenko T., Hackett J.D., and Bhattacharya D. Phylogenomic analysis identifies red algal genes of endosymbiotic origin in the chromalveolates. Mol. Biol. Evol. 23 (2006) 663-674
-
(2006)
Mol. Biol. Evol.
, vol.23
, pp. 663-674
-
-
Li, S.1
Nosenko, T.2
Hackett, J.D.3
Bhattacharya, D.4
-
13
-
-
33646881141
-
A "green" phosphoribulokinase in complex algae with red plastids: evidence for a single secondary endosymbiosis leading to haptophytes, cryptophytes, heterokonts, and dinoflagellates
-
Petersen J., Teich R., Brinkmann H., and Cerff R. A "green" phosphoribulokinase in complex algae with red plastids: evidence for a single secondary endosymbiosis leading to haptophytes, cryptophytes, heterokonts, and dinoflagellates. J. Mol. Evol. 62 (2006) 143-157
-
(2006)
J. Mol. Evol.
, vol.62
, pp. 143-157
-
-
Petersen, J.1
Teich, R.2
Brinkmann, H.3
Cerff, R.4
-
14
-
-
34547754024
-
Phylogenomic analysis supports the monophyly of cryptophytes and haptophytes and the association of Rhizaria with chromalveolates
-
Hackett J.D., Yoon H.S., Li S., Reyes-Prieto A., Rummele S.E., and Bhattacharya D. Phylogenomic analysis supports the monophyly of cryptophytes and haptophytes and the association of Rhizaria with chromalveolates. Mol. Biol. Evol. 24 (2007) 1702-1713
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1702-1713
-
-
Hackett, J.D.1
Yoon, H.S.2
Li, S.3
Reyes-Prieto, A.4
Rummele, S.E.5
Bhattacharya, D.6
-
15
-
-
34247899047
-
Multiple gene phylogenies support the monophyly of cryptomonad and haptophyte host lineages
-
Patron N.J., Inagaki Y., and Keeling P.J. Multiple gene phylogenies support the monophyly of cryptomonad and haptophyte host lineages. Curr. Biol. 17 (2007) 887-891
-
(2007)
Curr. Biol.
, vol.17
, pp. 887-891
-
-
Patron, N.J.1
Inagaki, Y.2
Keeling, P.J.3
-
16
-
-
40749116835
-
Phylogenomics reshuffles the eukaryotic supergroups
-
Burki F., Shalchian-Tabrizi K., Minge M., Skjaeveland A., Nikolaev S.I., Jakobsen K.S., and Pawlowski J. Phylogenomics reshuffles the eukaryotic supergroups. PLoS ONE 2 (2007) e790
-
(2007)
PLoS ONE
, vol.2
-
-
Burki, F.1
Shalchian-Tabrizi, K.2
Minge, M.3
Skjaeveland, A.4
Nikolaev, S.I.5
Jakobsen, K.S.6
Pawlowski, J.7
-
17
-
-
0034602344
-
A kingdom-level phylogeny of eukaryotes based on combined protein data
-
Baldauf S.L., Roger A.J., Wenk-Siefert I., and Doolittle W.F. A kingdom-level phylogeny of eukaryotes based on combined protein data. Science 290 (2000) 972-977
-
(2000)
Science
, vol.290
, pp. 972-977
-
-
Baldauf, S.L.1
Roger, A.J.2
Wenk-Siefert, I.3
Doolittle, W.F.4
-
18
-
-
0026017244
-
Ribosomal RNA sequences of Sarcocystis muris, Theileria annulata and Crypthecodinium cohnii reveal evolutionary relationships among apicomplexans, dinoflagellates, and ciliates
-
Gajadhar A.A., Marquardt W.C., Hall R., Gunderson J., Ariztia-Carmona E.V., and Sogin M.L. Ribosomal RNA sequences of Sarcocystis muris, Theileria annulata and Crypthecodinium cohnii reveal evolutionary relationships among apicomplexans, dinoflagellates, and ciliates. Mol. Biochem. Parasitol. 45 (1991) 147-154
-
(1991)
Mol. Biochem. Parasitol.
, vol.45
, pp. 147-154
-
-
Gajadhar, A.A.1
Marquardt, W.C.2
Hall, R.3
Gunderson, J.4
Ariztia-Carmona, E.V.5
Sogin, M.L.6
-
19
-
-
39749201627
-
Broadly sampled multigene trees of eukaryotes
-
Yoon H.S., Grant J., Tekle Y.I., Wu M., Chaon B.C., Cole J.C., Logsdon Jr. J.M., Patterson D.J., Bhattacharya D., and Katz L.A. Broadly sampled multigene trees of eukaryotes. BMC Evol. Biol. 8 (2008) 14
-
(2008)
BMC Evol. Biol.
, vol.8
, pp. 14
-
-
Yoon, H.S.1
Grant, J.2
Tekle, Y.I.3
Wu, M.4
Chaon, B.C.5
Cole, J.C.6
Logsdon Jr., J.M.7
Patterson, D.J.8
Bhattacharya, D.9
Katz, L.A.10
-
20
-
-
33748329373
-
Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis
-
Tyler B.M., Tripathy S., Zhang X., Dehal P., Jiang R.H., Aerts A., Arredondo F.D., Baxter L., Bensasson D., Beynon J.L., et al. Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis. Science 313 (2006) 1261-1266
-
(2006)
Science
, vol.313
, pp. 1261-1266
-
-
Tyler, B.M.1
Tripathy, S.2
Zhang, X.3
Dehal, P.4
Jiang, R.H.5
Aerts, A.6
Arredondo, F.D.7
Baxter, L.8
Bensasson, D.9
Beynon, J.L.10
-
22
-
-
44649178727
-
A cryptic algal group unveiled: a plastid biosynthesis pathway in the oyster parasite Perkinsus marinus
-
Matsuzaki M., Kuroiwa H., Kuroiwa T., Kita K., and Nozaki H. A cryptic algal group unveiled: a plastid biosynthesis pathway in the oyster parasite Perkinsus marinus. Mol. Biol. Evol. 25 (2008) 1167-1179
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 1167-1179
-
-
Matsuzaki, M.1
Kuroiwa, H.2
Kuroiwa, T.3
Kita, K.4
Nozaki, H.5
-
23
-
-
45849090251
-
Plastid-derived genes in the nonphotosynthetic alveolate Oxyrrhis marina
-
Slamovits C.H., and Keeling P.J. Plastid-derived genes in the nonphotosynthetic alveolate Oxyrrhis marina. Mol. Biol. Evol. 25 (2008) 1297-1306
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 1297-1306
-
-
Slamovits, C.H.1
Keeling, P.J.2
-
24
-
-
33750858684
-
Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia
-
Aury J.M., Jaillon O., Duret L., Noel B., Jubin C., Porcel B.M., Segurens B., Daubin V., Anthouard V., Aiach N., et al. Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia. Nature 444 (2006) 171-178
-
(2006)
Nature
, vol.444
, pp. 171-178
-
-
Aury, J.M.1
Jaillon, O.2
Duret, L.3
Noel, B.4
Jubin, C.5
Porcel, B.M.6
Segurens, B.7
Daubin, V.8
Anthouard, V.9
Aiach, N.10
-
25
-
-
33748598232
-
Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote
-
Eisen J.A., Coyne R.S., Wu M., Wu D., Thiagarajan M., Wortman J.R., Badger J.H., Ren Q., Amedeo P., Jones K.M., et al. Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote. PLoS Biol. 4 (2006) e286
-
(2006)
PLoS Biol.
, vol.4
-
-
Eisen, J.A.1
Coyne, R.S.2
Wu, M.3
Wu, D.4
Thiagarajan, M.5
Wortman, J.R.6
Badger, J.H.7
Ren, Q.8
Amedeo, P.9
Jones, K.M.10
-
26
-
-
34547793619
-
Evolution of the glucose-6-phosphate isomerase: the plasticity of primary metabolism in photosynthetic eukaryotes
-
Grauvogel C., Brinkmann H., and Petersen J. Evolution of the glucose-6-phosphate isomerase: the plasticity of primary metabolism in photosynthetic eukaryotes. Mol. Biol. Evol. 24 (2007) 1611-1621
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1611-1621
-
-
Grauvogel, C.1
Brinkmann, H.2
Petersen, J.3
-
27
-
-
0037126071
-
Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus
-
Martin W., Rujan T., Richly E., Hansen A., Cornelsen S., Lins T., Leister D., Stoebe B., Hasegawa M., and Penny D. 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 (2002) 12246-12251
-
(2002)
Proc. Natl. Acad. Sci. USA
, 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
-
28
-
-
40849119798
-
Genes of cyanobacterial origin in plant nuclear genomes point to a heterocyst-forming plastid ancestor
-
Deusch O., Landan G., Roettger M., Gruenheit N., Kowallik K.V., Allen J.F., Martin W., and Dagan T. Genes of cyanobacterial origin in plant nuclear genomes point to a heterocyst-forming plastid ancestor. Mol. Biol. Evol. 25 (2008) 748-761
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 748-761
-
-
Deusch, O.1
Landan, G.2
Roettger, M.3
Gruenheit, N.4
Kowallik, K.V.5
Allen, J.F.6
Martin, W.7
Dagan, T.8
-
30
-
-
11144353587
-
Complete genome sequence of the apicomplexan, Cryptosporidium parvum
-
Abrahamsen M.S., Templeton T.J., Enomoto S., Abrahante J.E., Zhu G., Lancto C.A., Deng M., Liu C., Widmer G., Tzipori S., et al. Complete genome sequence of the apicomplexan, Cryptosporidium parvum. Science 304 (2004) 441-445
-
(2004)
Science
, vol.304
, pp. 441-445
-
-
Abrahamsen, M.S.1
Templeton, T.J.2
Enomoto, S.3
Abrahante, J.E.4
Zhu, G.5
Lancto, C.A.6
Deng, M.7
Liu, C.8
Widmer, G.9
Tzipori, S.10
-
31
-
-
0002160837
-
Gene transfer from organelles to the nucleus: how much, what happens, and why?
-
Martin W., and Herrmann R.G. Gene transfer from organelles to the nucleus: how much, what happens, and why?. Plant Physiol. 118 (1998) 9-17
-
(1998)
Plant Physiol.
, vol.118
, pp. 9-17
-
-
Martin, W.1
Herrmann, R.G.2
-
32
-
-
33751422757
-
Cyanobacterial contribution to algal nuclear genomes is primarily limited to plastid functions
-
Reyes-Prieto A., Hackett J.D., Soares M.B., Bonaldo M.F., and Bhattacharya D. Cyanobacterial contribution to algal nuclear genomes is primarily limited to plastid functions. Curr. Biol. 16 (2006) 2320-2325
-
(2006)
Curr. Biol.
, vol.16
, pp. 2320-2325
-
-
Reyes-Prieto, A.1
Hackett, J.D.2
Soares, M.B.3
Bonaldo, M.F.4
Bhattacharya, D.5
-
33
-
-
14544294428
-
The genome of the protist parasite Entamoeba histolytica
-
Loftus B., Anderson I., Davies R., Alsmark U.C., Samuelson J., Amedeo P., Roncaglia P., Berriman M., Hirt R.P., Mann B.J., et al. The genome of the protist parasite Entamoeba histolytica. Nature 433 (2005) 865-868
-
(2005)
Nature
, vol.433
, pp. 865-868
-
-
Loftus, B.1
Anderson, I.2
Davies, R.3
Alsmark, U.C.4
Samuelson, J.5
Amedeo, P.6
Roncaglia, P.7
Berriman, M.8
Hirt, R.P.9
Mann, B.J.10
-
34
-
-
34848894621
-
Genomic minimalism in the early diverging intestinal parasite Giardia lamblia
-
Morrison H.G., McArthur A.G., Gillin F.D., Aley S.B., Adam R.D., Olsen G.J., Best A.A., Cande W.Z., Chen F., Cipriano M.J., et al. Genomic minimalism in the early diverging intestinal parasite Giardia lamblia. Science 317 (2007) 1921-1926
-
(2007)
Science
, vol.317
, pp. 1921-1926
-
-
Morrison, H.G.1
McArthur, A.G.2
Gillin, F.D.3
Aley, S.B.4
Adam, R.D.5
Olsen, G.J.6
Best, A.A.7
Cande, W.Z.8
Chen, F.9
Cipriano, M.J.10
-
35
-
-
34249707387
-
Is there a plastid in Perkinsus atlanticus (Phylum Perkinsozoa)?
-
Teles-Grilo M.L., Tato-Costa J., Duarte S.M., Maia A., Casal G., and Azevedo C. Is there a plastid in Perkinsus atlanticus (Phylum Perkinsozoa)?. Eur. J. Protistol. 43 (2007) 163-167
-
(2007)
Eur. J. Protistol.
, vol.43
, pp. 163-167
-
-
Teles-Grilo, M.L.1
Tato-Costa, J.2
Duarte, S.M.3
Maia, A.4
Casal, G.5
Azevedo, C.6
-
36
-
-
21144435581
-
Phylogenomic evidence supports past endosymbiosis, intracellular and horizontal gene transfer in Cryptosporidium parvum
-
Huang J., Mullapudi N., Lancto C.A., Scott M., Abrahamsen M.S., and Kissinger J.C. Phylogenomic evidence supports past endosymbiosis, intracellular and horizontal gene transfer in Cryptosporidium parvum. Genome Biol. 5 (2004) R88
-
(2004)
Genome Biol.
, vol.5
-
-
Huang, J.1
Mullapudi, N.2
Lancto, C.A.3
Scott, M.4
Abrahamsen, M.S.5
Kissinger, J.C.6
-
37
-
-
4944233611
-
PhyloGenie: automated phylome generation and analysis
-
Frickey T., and Lupas A.N. PhyloGenie: automated phylome generation and analysis. Nucleic Acids Res. 32 (2004) 5231-5238
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 5231-5238
-
-
Frickey, T.1
Lupas, A.N.2
-
38
-
-
40049106345
-
PhyloSort: a user-friendly phylogenetic sorting tool and its application to estimating the cyanobacterial contribution to the nuclear genome of Chlamydomonas
-
Moustafa A., and Bhattacharya D. PhyloSort: a user-friendly phylogenetic sorting tool and its application to estimating the cyanobacterial contribution to the nuclear genome of Chlamydomonas. BMC Evol. Biol. 8 (2008) 6
-
(2008)
BMC Evol. Biol.
, vol.8
, pp. 6
-
-
Moustafa, A.1
Bhattacharya, D.2
-
39
-
-
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., and Higgins D.G. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25 (1997) 4876-4882
-
(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
-
40
-
-
33750403801
-
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
-
Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22 (2006) 2688-2690
-
(2006)
Bioinformatics
, vol.22
, pp. 2688-2690
-
-
Stamatakis, A.1
-
41
-
-
0034849408
-
MRBAYES: Bayesian inference of phylogenetic trees
-
Huelsenbeck J.P., and Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2001) 754-755
-
(2001)
Bioinformatics
, vol.17
, pp. 754-755
-
-
Huelsenbeck, J.P.1
Ronquist, F.2
-
42
-
-
0036205377
-
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing
-
Schmidt H.A., Strimmer K., Vingron M., and von Haeseler A. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18 (2002) 502-504
-
(2002)
Bioinformatics
, vol.18
, pp. 502-504
-
-
Schmidt, H.A.1
Strimmer, K.2
Vingron, M.3
von Haeseler, A.4
-
43
-
-
0036139287
-
CONSEL: for assessing the confidence of phylogenetic tree selection
-
Shimodaira H., and Hasegawa M. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17 (2001) 1246-1247
-
(2001)
Bioinformatics
, vol.17
, pp. 1246-1247
-
-
Shimodaira, H.1
Hasegawa, M.2
|