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Wastl J, Fraunholz M, Zauner S, Douglas SE, Maier U-G. Ancient gene duplication and differential gene flow in plastid lineages: the GroEL/Cpn60 example. of special interest J Mol Evol. 1998; This paper describes the evolution of plastids in light of molecular data from groEL/cpn genes resident in different organellar compartments of algae, with particular emphasis on the plastid-encoded groEL and nucleomorph-encoded cpn60 genes of cryptomonads.
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(1998)
J Mol Evol
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Wastl, J.1
Fraunholz, M.2
Zauner, S.3
Douglas, S.E.4
Maier U-G5
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47
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0027172613
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Mitochondrial genes in the colourless alga Prototheca wickerhamii resemble plant genes in their exons but fungal genes in their introns
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Wolff G, Burger G, Lang BF, Kück U. Mitochondrial genes in the colourless alga Prototheca wickerhamii resemble plant genes in their exons but fungal genes in their introns. Nucleic Acids Res. 21:1993;719-726.
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(1993)
Nucleic Acids Res
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Wolff, G.1
Burger, G.2
Lang, B.F.3
Kück, U.4
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48
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0028238998
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Nucleotide sequence of the cox3 gene from Chondrus crispus: Evidence that UGA encodes tryptophan and evolutionary implications
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Boyen C, LeBlanc C, Bonnard G, Grienenberger JM, Kloareg B. Nucleotide sequence of the cox3 gene from Chondrus crispus: evidence that UGA encodes tryptophan and evolutionary implications. Nucleic Acids Res. 22:1994;1400-1403.
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Boyen, C.1
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Kloareg, B.5
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49
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0030993742
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The fungal mitochondrial genome project: Evolution of fungal genomes and their gene expression
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of outstanding interest. The use of concatenated sequences of four mitochondrial proteins common to completely sequenced mitochondrial genomes for phylogenetic inference is described. Other than confirming the sisterhood of animals and fungi, the sisterhood of rhodophytes and chlorophytes/metaphytes is also strongly supported.
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Paquin B, LaForest MJ, Forget L, Roewer I, Wang A, Langcore J, Lang BF. The fungal mitochondrial genome project: evolution of fungal genomes and their gene expression. of outstanding interest Curr Genet. 31:1997;380-395 The use of concatenated sequences of four mitochondrial proteins common to completely sequenced mitochondrial genomes for phylogenetic inference is described. Other than confirming the sisterhood of animals and fungi, the sisterhood of rhodophytes and chlorophytes/metaphytes is also strongly supported.
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(1997)
Curr Genet
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Paquin, B.1
Laforest, M.J.2
Forget, L.3
Roewer, I.4
Wang, A.5
Langcore, J.6
Lang, B.F.7
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50
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85030348295
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This website provides accurate and timely information on the progress of mitochondrial genome sequencing by the OGMP group at the University of Montreal as well as useful links to other resources concerned with organellar genome evolution
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Lang BF, Burger G, O'Kelly CJ, Gray MW: Organelle Genome Megasequencing Program on World Wide Web URL: http://megasun.bch.umontreal.calogmpproj.html This website provides accurate and timely information on the progress of mitochondrial genome sequencing by the OGMP group at the University of Montreal as well as useful links to other resources concerned with organellar genome evolution.
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Organelle Genome Megasequencing Program on World Wide Web
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Lang, B.F.1
Burger, G.2
O'Kelly, C.J.3
Gray, M.W.4
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51
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Knoll AH. The early evolution of eukaryotes: a geological perspective. Science. 256:1992;622-627.
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Science
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Knoll, A.H.1
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52
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Comparison of nuclear-encoded small-subunit ribosomal RNAs reveal the evolutionary position of the glaucocystophyta
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Bhattacharya D, Helmchen T, Bibeau C, Melkonian M. Comparison of nuclear-encoded small-subunit ribosomal RNAs reveal the evolutionary position of the glaucocystophyta. Mol Biol Evol. 12:1995;415-420.
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Melkonian, M.4
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53
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Evolutionary relationships among eukaryotic crown taxa taking into account site-to-site variation in 18S rRNA
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of outstanding interest. Corrections to account for site-to-site variation in mutation rate among 18S rRNA sequences have been of great importance in resolving evolutionary relationships. Here, use of the correction to study the crown taxa is described. Of particular note is the origin of nucleomorphs of chlorarachniophytes and cryptomonads from two different groups - the green and red algae, respectively.
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van de Peer Y, de Wachter R. Evolutionary relationships among eukaryotic crown taxa taking into account site-to-site variation in 18S rRNA. of outstanding interest J Mol Evol. 45:1997;619-630 Corrections to account for site-to-site variation in mutation rate among 18S rRNA sequences have been of great importance in resolving evolutionary relationships. Here, use of the correction to study the crown taxa is described. Of particular note is the origin of nucleomorphs of chlorarachniophytes and cryptomonads from two different groups - the green and red algae, respectively.
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(1997)
J Mol Evol
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Van De Peer, Y.1
De Wachter, R.2
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54
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0030988847
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The actin gene of the glaucocystophyte Cyanophora paradoxa: Analysis of the coding region and introns, and an actin phylogeny of eukaryotes
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of special interest. Protein-based phylogenies (such as actin) serve as a useful complement to SSU rRNA-based phylogenies. Here, sequence analysis of the actin gene of a glaucocystophyte is described and the gene used for phylogenetic reconstruction. Together with SSU rRNA, actin is one of the few molecular markers represented from glaucocystophytes, and is therefore of significance in studies of relationships among the three lineages of primary plastids. Sisterhood of red algae and green plants (and to a lesser extent also glaucocystophytes) is supported by this study.
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Bhattacharya D, Weber K. The actin gene of the glaucocystophyte Cyanophora paradoxa: analysis of the coding region and introns, and an actin phylogeny of eukaryotes. of special interest Curr Genet. 31:1997;439-446 Protein-based phylogenies (such as actin) serve as a useful complement to SSU rRNA-based phylogenies. Here, sequence analysis of the actin gene of a glaucocystophyte is described and the gene used for phylogenetic reconstruction. Together with SSU rRNA, actin is one of the few molecular markers represented from glaucocystophytes, and is therefore of significance in studies of relationships among the three lineages of primary plastids. Sisterhood of red algae and green plants (and to a lesser extent also glaucocystophytes) is supported by this study.
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(1997)
Curr Genet
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Bhattacharya, D.1
Weber, K.2
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55
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CDNA cloning and characterization of the nuclear gene encoding chloroplast glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa
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Zhou Y-H, Ragan MA. cDNA cloning and characterization of the nuclear gene encoding chloroplast glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa. Curr Genet. 23:1993;483-489.
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Zhou Y-H1
Ragan, M.A.2
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56
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0028226319
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The evolutionary origin of red algae as deduced from the nuclear genes encoding cytosolic and chloroplast glyceraldehyde-3-phosphate dehydrogenases from Chondrus crispus
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Liaud M-F, Valentin C, Martin W, Bouget F-Y, Gloareg B, Cerff R. The evolutionary origin of red algae as deduced from the nuclear genes encoding cytosolic and chloroplast glyceraldehyde-3-phosphate dehydrogenases from Chondrus crispus. J Mol Evol. 38:1994;319-327.
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J Mol Evol
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Liaud M-F1
Valentin, C.2
Martin, W.3
Bouget F-Y4
Gloareg, B.5
Cerff, R.6
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57
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0030984331
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The origin of red algae: Implications for plastid evolution
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of special interest. As a complement to other molecular markers, nuclear-encoded RNA polymerase II large subunit (RPB1) sequences have been used to investigate the relationships between the crown taxa. This study does not support the sisterhood of rhodophytes and land plants and offers an interesting hypothesis to reconcile the lack of congruence between nuclear and plastid phylogenies. Acquisition of more RPB1 sequences to add to this limited dataset and corrections for the divergent nature of this molecule may help validate this alternative hypothesis concerning plastid evolution.
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Stiller JW, Hall BD. The origin of red algae: implications for plastid evolution. of special interest Proc Natl Acad Sci USA. 94:1997;4520-4525 As a complement to other molecular markers, nuclear-encoded RNA polymerase II large subunit (RPB1) sequences have been used to investigate the relationships between the crown taxa. This study does not support the sisterhood of rhodophytes and land plants and offers an interesting hypothesis to reconcile the lack of congruence between nuclear and plastid phylogenies. Acquisition of more RPB1 sequences to add to this limited dataset and corrections for the divergent nature of this molecule may help validate this alternative hypothesis concerning plastid evolution.
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(1997)
Proc Natl Acad Sci USA
, vol.94
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Stiller, J.W.1
Hall, B.D.2
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The gamma subunit of R-phycoerythrin and its possible mode of transport into the plastids of red algae
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Apt KE, Hoffman NE, Grossman AR. The gamma subunit of R-phycoerythrin and its possible mode of transport into the plastids of red algae. J Biol Chem. 268:1993;16206-16215.
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Hoffman, N.E.2
Grossman, A.R.3
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In vitro import of pre-ferredoxin-NADP+- oxidoreductase from Cyanophora paradoxa into cyanelles and into pea chloroplasts
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Jakowitsch J, Neumann-Spallart C, M.A J, Steiner J, Schenk HEA, Bohnert HJ, Löffelhardt W. In vitro import of pre-ferredoxin-NADP+- oxidoreductase from Cyanophora paradoxa into cyanelles and into pea chloroplasts. FEBS Lett. 381:1996;153-155.
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Jakowitsch, J.1
Neumann-Spallart, C.2
M.A., J.3
Steiner, J.4
Schenk, H.E.A.5
Bohnert, H.J.6
Löffelhardt, W.7
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Evidence for a commonorigin of chloroplasts with light-harvesting complexes of different pigmentation
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Wolfe GR, Cunningham FX, Durnford D, Green BR, Gantt E. Evidence for a commonorigin of chloroplasts with light-harvesting complexes of different pigmentation. Nature. 367:1994;566-568.
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Nature
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Wolfe, G.R.1
Cunningham, F.X.2
Durnford, D.3
Green, B.R.4
Gantt, E.5
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From endosymbionts to chloroplasts: Evidence for a single prokaryotic/eukaryotic endocytobiosis
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Kowallik KV. From endosymbionts to chloroplasts: evidence for a single prokaryotic/eukaryotic endocytobiosis. Endocyt Cell Res. 10:1994;137-149.
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Kowallik, K.V.1
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The evolution of stramenopiles and alveolates as derived by "substitution rate calibration" of small ribosomal subunit RNA
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van de Peer Y, van der Auwera G, de Wachter R. The evolution of stramenopiles and alveolates as derived by "substitution rate calibration" of small ribosomal subunit RNA. J Mol Evol. 42:1996;201-210.
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Van De Peer, Y.1
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De Wachter, R.3
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Green ancestry of malarial parasites?
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Palmer JD. Green ancestry of malarial parasites? Curr Biol. 2:1992;318-320.
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64
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J.C. Green, B.S.C. Leadbeater, Diver W.L. Oxford: Clarendon
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Dodge JD. Phylogenetic relationships of dinoflagellates and their plastids. Green JC, Leadbeater BSC, Diver WL. The Chromophyte Algae: Problems and Perspectives. 1989;207-227 Clarendon, Oxford.
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Dodge, J.D.1
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A plastid of probable green algal origin in Apicomplexan parasites
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of special interest
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Kohler S, Delwiche CF, Denny PW, Tilney LG, Webster P, Wilson RJM, Palmer JD, Roos DS. A plastid of probable green algal origin in Apicomplexan parasites. of special interest Science. 275:1997;1485-1489 The evolutionary origin of the apicomplexan 35 kb genome is under debate, as the number of membranes surrounding the organelle is unclear and there are few plastid data from the proposed sister group, the dinoflagellates. This study describes the use of in situ hybridisation for ultrastructural localisation to an organelle commonly bounded by four membranes, and the use of the plastid-encoded tufA to trace the ancestor to the green algal group.
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(1997)
Science
, vol.275
, pp. 1485-1489
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Kohler, S.1
Delwiche, C.F.2
Denny, P.W.3
Tilney, L.G.4
Webster, P.5
Wilson, R.J.M.6
Palmer, J.D.7
Roos, D.S.8
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66
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0030840057
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Extrachromosomal DNA in the Apicomplexa
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of outstanding interest. This detailed review describes the plastid-like genome of Plasmodium falciparum and the mitochondrial genomes of apicomplexans and discusses the evolutionary significance of these genomes. A scenario for the origin of apicomplexan parasites from dinoflagellates is presented and the implications considered.
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Wilson RJM, Williamson DH. Extrachromosomal DNA in the Apicomplexa. of outstanding interest Microbiol Mol Biol Rev. 61:1997;1-16 This detailed review describes the plastid-like genome of Plasmodium falciparum and the mitochondrial genomes of apicomplexans and discusses the evolutionary significance of these genomes. A scenario for the origin of apicomplexan parasites from dinoflagellates is presented and the implications considered.
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(1997)
Microbiol Mol Biol Rev
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Wilson, R.J.M.1
Williamson, D.H.2
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Wilson I. Plastids better red than dead. Nature. 366:1993;638.
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Bryant DA. Puzzles of chloroplast ancestry. Curr Biol. 2:1992;240-242.
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0000461094
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Independent evolution of the prochlorophyte and green plant chlorophyll a/b light-harvesting proteins
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La Roche J, van der Staay GW, Partensky F, Ducret A, Aebersold R, Li R, Golden SS, Hiller RG, Wrench PM, Larkum AW, et al. Independent evolution of the prochlorophyte and green plant chlorophyll a/b light-harvesting proteins. Proc Natl Acad Sci USA. 93:1996;15244-15248.
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La Roche, J.1
Van Der Staay, G.W.2
Partensky, F.3
Ducret, A.4
Aebersold, R.5
Li, R.6
Golden, S.S.7
Hiller, R.G.8
Wrench, P.M.9
Larkum, A.W.10
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70
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The 38 kDa chlorophyll a/b protein of the prokaryote Prochlorothrix hollandica is encoded by a divergent pcb gene
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of outstanding interest. This analysis of three prochlorophyte chlorophyll b-binding protein (pcb) genes provides evidence for the origin of these genes from a chlorophyll a-binding ancestor via several gene duplications involving the cyanobacterial iron stress induced protein (isiA) and psbC. It also supports previous hypotheses that the ability to synthesize chlorophyll b arose independently in the three prochlorophyte groups.
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van der Staay GWM, Yurkova N, Green BR. The 38 kDa chlorophyll a/b protein of the prokaryote Prochlorothrix hollandica is encoded by a divergent pcb gene. of outstanding interest Plant Mol Biol. 36:1998;709-716 This analysis of three prochlorophyte chlorophyll b-binding protein (pcb) genes provides evidence for the origin of these genes from a chlorophyll a-binding ancestor via several gene duplications involving the cyanobacterial iron stress induced protein (isiA) and psbC. It also supports previous hypotheses that the ability to synthesize chlorophyll b arose independently in the three prochlorophyte groups.
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(1998)
Plant Mol Biol
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Van Der Staay, G.W.M.1
Yurkova, N.2
Green, B.R.3
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71
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Cyanobacterial protein with similarity to the chlorophyll a/b binding proteins of higher plants: Evolution and regulation
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Miroshnichenko Dolganov NA, Bhaya D, Grossman AR. Cyanobacterial protein with similarity to the chlorophyll a/b binding proteins of higher plants: evolution and regulation. Proc Natl Acad Sci USA. 92:1995;636-640.
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Miroshnichenko Dolganov, N.A.1
Bhaya, D.2
Grossman, A.R.3
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72
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0031436146
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Analysis of the cluster of ribosomal protein genes in the plastid genome of a unicellular red alga Cyanidioschyzon merolae: Translocation of the str cluster as an early event in the rhodophyte-chromophtye lineage of plastid evolution
-
of special interest. This analysis of plastid-encoded ribosomal protein gene clusters from plastids incorporates information from the unicellular rhodophyte Cyanidioschyzon merolae and the completely sequenced Synechocystis PCC6803 genome and presents a framework for the evolution of both plastid and mitochondrial lineages based on comparisons of gene order and loss.
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Ohta N, Sato N, Nozaki H, Kuroiwa T. Analysis of the cluster of ribosomal protein genes in the plastid genome of a unicellular red alga Cyanidioschyzon merolae: translocation of the str cluster as an early event in the rhodophyte-chromophtye lineage of plastid evolution. of special interest J Mol Evol. 45:1997;688-695 This analysis of plastid-encoded ribosomal protein gene clusters from plastids incorporates information from the unicellular rhodophyte Cyanidioschyzon merolae and the completely sequenced Synechocystis PCC6803 genome and presents a framework for the evolution of both plastid and mitochondrial lineages based on comparisons of gene order and loss.
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(1997)
J Mol Evol
, vol.45
, pp. 688-695
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Ohta, N.1
Sato, N.2
Nozaki, H.3
Kuroiwa, T.4
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73
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0030835932
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Organization of a large gene cluster encoding ribosomal proteins in the cyanobacterium Synechococcus sp. strain PCC 6301: Comparison of gene clusters among cyanobacteria, eubacteria and chloroplast genomes
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Sugita M, Sugishita H, Fujishiro T, Tsubo M, Sugita C, Endo T, Sugiura M. Organization of a large gene cluster encoding ribosomal proteins in the cyanobacterium Synechococcus sp. strain PCC 6301: comparison of gene clusters among cyanobacteria, eubacteria and chloroplast genomes. Gene. 195:1997;73-79.
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Gene
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Sugita, M.1
Sugishita, H.2
Fujishiro, T.3
Tsubo, M.4
Sugita, C.5
Endo, T.6
Sugiura, M.7
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