The cyanelle str operon from Cyanophora paradoxa: Sequence analysis and phylogenetic implications

Kraus, Matthias H.; Götz, Markus; Löffelhardt, Wolfgang

doi:10.1007/bf00017831

Cited by 36 publications

(15 citation statements)

References 44 publications

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“…3B,C). For trnR, the -10/-35 boxes conform to elements determined in previous studies, in both sequence and spacing ( [22,23]; Table 1). The tRNA m" gene allows for some ambiguity in the exact position of the -10 element: it may be located at nucleotide 117 or 113, the latter option being in better agreement with the spacing found in other cases (Table !).…”

Section: Transcription Start Sites and The Identi/ication ~F P~-omotersupporting

confidence: 77%

“…3A). However, no "prokaryotetype" promoter sequences are in close proximity: the nearest elements resembling transcriptional control sites are located between positions 135 and 113 ( [22,23]; Table 1). As the distance of this possible promoter from the 5' end of th~ detected transcripts is about 50 nucleotides, it can not be ¢~ecided at present whether these signals correspond to primary transcripts or to processed, longer variants of RNase P RNA.…”

Section: Transcription Start Sites and The Identi/ication ~F P~-omotermentioning

confidence: 99%

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Localization and expression of the closely linked cyanelle genes for RNase P RNA and two transfer RNAs

Baum

Schön

1996

FEBS Letters

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The genomic region encoding the RNA subunit of the RSase P has been chstraeterized, mpB, which has no homolope in cldoroplasL is flanked by two tRNA genes on the Comldementary DNA strand. Trmmcdptistnsti control elements of sail three geaes have been experimentally determined. ComparJaon of the sequenced region with the corresponding loci of ddoroplut 8enomes from vasculstr plstnts suggests that major invendom many have led to st possible loss or severe truncsttion of the RNase P RNA coding region during the course of plastid evolution.

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Section: Transcription Start Sites and The Identi/ication ~F P~-omotersupporting

confidence: 77%

Section: Transcription Start Sites and The Identi/ication ~F P~-omotermentioning

confidence: 99%

Localization and expression of the closely linked cyanelle genes for RNase P RNA and two transfer RNAs

Baum

Schön

1996

FEBS Letters

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“…In the methanogens, the halobacteria, and the eubacteria this segment is replaced by a 4-amino-acid segment. In light of the questionable phylogenetic position of the genus Methanopyrus, determining the sequence of the EF-la gene of a member of this taxon could reveal if it is also an immediate eukaryotic relative (containing the 1 l-aminoacid segment and corresponding to tree branch C) or if it is more closely related to the methanogens and halobacteria (containing the 4-amino-acid segment and corresponding to either tree branch A or tree branch B).As previously noted (22,28,31), EF-la appears to be one of the best molecules available for studying deep divergences. This molecule is a slowly evolving protein found in all cells, where it binds, transports, and participates in the selection of the correct aminoacyl-tRNA.…”

mentioning

confidence: 89%

The Phylogeny of Methanopyrus kandleri

Rivera

Lake

1996

International Journal of Systematic Bacteriology

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The phylogenetic position of Methanopyrus kandleri has been difficult to determine because reconstructions of phylogenetic trees based on rRNA sequences have been ambiguous. The most probable trees determined by most algorithms place the genus Methanopyrus at the base of a group that includes the halobacteria and the methanogens and their relatives, although occasionally some algorithms place this genus near the eocytes (the hyperthermophilic, sulfur-metabolizing prokaryotes), suggesting that it may belong to this lineage. In order to resolve the phylogeny of the genus Methanopyrus, we determined the sequence of an informative region of elongation factor 1-alpha that contains an 11-amino-acid insertion in eocytes and eukaryotes which is replaced by a 4-amino-acid insertion in methanogens, halobacteria, and eubacteria. On the basis of the results of our elongation factor 1-alpha gene analysis, we concluded that the genus Methanopyrus diverged from the eocyte branch before the eukaryotic and eocyte lineages separated and therefore is not an eocyte.Methanopyrus kandleri is a rod-shaped, gram-positive, methanogenic bacterium that was isolated from a deep thermal vent in the Gulf of California (16). This organism is the first known hyperthermophilic methanogen that grows at temperatures up to 110°C (16). Although extreme thermophily has been found in three phylogenetically different groups of prokaryotes (the eubacteria, the methanogens and their relatives, and the eocytes [hyperthermophilic, principally sulfur-metabolizing prokaryotes]), members of the genus Pyrodictium are the only other prokaryotes that are known to grow at a temperature of 110°C or above (37, 38). On the basis of the results of a 16s rRNA and protein synthesis elongation factor 1-alpha (EF-la) sequence analysis, the genus Pyrodictium was classified as an eocyte taxon (24,32,33,37); therefore, we wanted to determine whether the genus Methanopyrus is also an eocyte taxon.Methanopyrus kandleri appears to represent a unique lineage within the phylogenetically diverse methanogens (18,30), and, consistent with this, the results of a Jukes-Cantor distance and parsimony analysis of the 16s rRNA sequence of this organism have shown that it is only distantly related to the other methanogens (8). A suggestion that M. kandleri may be related to the eukaryotes resulted from the discovery that a eukaryoticlike topoisomerase I molecule is present in Methanopyrus cellsThe most probable tree determined in our analysis of smallsubunit rRNA sequences in which the Jukes-Cantor (19), Kimura (21) and paralinear distance (27) algorithms were used is shown in Fig. 1; the probabilities of this eocyte tree are 72.5, 60.5, and 63.5%, respectively, and the probabilities of the archaebacterial tree (data not shown) are 20.5, 29.5, and 20.0%, respectively. The most probable location of the genus Methanopyrus on the trees obtained with these three algorithms is at the branch labelled A; branch B is less likely, and branch C is least likely. The trees that have been constructed...

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“…An E. coli-like organization of these genes is also maintained in the cyanelles of Cyanophora paradoxa, except that the fus gene has been recruited by the nuclear genome (Kraus et al, 1990). According to the endosymbiotic theory for the origin of cell organelles, cyanelles represent an evolutionary intermediate between the free-living cyanobacteria, the putative plastidial ancestor, and modern chloroplasts.…”

Section: Introductionmentioning

confidence: 99%

The chromosomal location of genes for elongation factor Tu and ribosomal protein S10 in the cyanobacterium Spirulina platensis provides clues to the ancestral organization of the str and S10 operons in prokaryotes

Sanangelantoni

Tiboni

1993

Journal of General Microbiology

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~ ~~The structural gene (upslo) encoding ribosomal protein S10 of the cyanobacterium Spirulinu platensis has been localized both on chromosomal DNA and the previously characterized recombinant plasmid pSp7 harbouring the 3-terminal portion of the gene for elongation factor G (fius) and the gene for elongation factor Tu (tuf). Alignment of the predicted S10 sequence of S. platensis with the homologous sequences from cyanelles, bacteria, archaea and eukarya showed that the cyanobacterial S10 shares a high degree of sequence homology (74 % amino acid identity) with the cyanellar protein. Unlike the situation in Escherichia coli, the rpsl0 gene of S. pluntensis is unlinked to the S10 operon genes, being adjacent to the str operon genes. Since a similar organization could be observed in cyanelles of Cyunuphoru purudoxu and in all archaea so far analysed, this probably represents the ancestral state.

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The cyanelle str operon from Cyanophora paradoxa: Sequence analysis and phylogenetic implications

Cited by 36 publications

References 44 publications

Localization and expression of the closely linked cyanelle genes for RNase P RNA and two transfer RNAs

Localization and expression of the closely linked cyanelle genes for RNase P RNA and two transfer RNAs

The Phylogeny of Methanopyrus kandleri

The chromosomal location of genes for elongation factor Tu and ribosomal protein S10 in the cyanobacterium Spirulina platensis provides clues to the ancestral organization of the str and S10 operons in prokaryotes

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