A compilation of large subunit (23S and 23S-like) ribosomal RNA structures: 1993
Nucleic Acids ResearchPublished 1 January 1993Open access
Robin R. Gutell, Michael W. Gray, Murray N. Schnare
Citations447
SJR quartileQ1
SJR score7.78
SNIP4.71
Generate an AI Snapshot to get a quick, structured summary of this paper.
Study Snapshot
ObjectiveStudy objective
MethodsResearch methodology
PopulationPopulation studied
Sample sizeSample sizes
OutcomesStudy outcomes here
ResultsStudy results comes here
LimitationsResearch study limitations comes here
A concise AI-generated summary of the paper will appear here once you click Generate AI Snapshot.
TL;DR
The present edition of large subunit (LSU; 23S and 23S-like) rRNA secondary structures updates and refines the collections of 1988 and 1990, and presents each LSU rRNA sequence as a secondary structure, a two-dimensional format that represents, in part, the biologically relevant conformation of the rRNA molecule.
Abstract
Robin R Gutell, Michael W. Gray, Murray N. Schnare; A compilation of large subunit (23S and 23S-like) ribosomal RNA structures: 1993, Nucleic Acids Researc
Keywords
Biochemistry, Genetics and Molecular Biology
NatureSequence and organization of the human mitochondrial genome
9,660 Citations1981Stephen K. Anderson, Alan T. Bankier +12 more
The complete sequence of the 16,569-base pair human mitochondrial genome is presented and shows extreme economy in that the genes have none or only a few noncoding bases between them, and in many cases the termination codons are not coded in the DNA but are created post-transcriptionally by polyadenylation of the mRNAs.
Proceedings of the National Academy of SciencesTowards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
6,055 Citations1990C R Woese, O. Kandler +1 more
It is proposed that a formal system of organisms be established in which above the level of kingdom there exists a new taxon called a "domain." Life on this planet would be seen as comprising three domains, the Bacteria, the Archaea, and the Eucarya, each containing two or more kingdoms.
The EMBO JournalThe complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression
2,434 Citations1986Kazuo Shinozaki, Masaru Ohme +21 more
Five sequences coding for proteins homologous to components of the respiratory‐chain NADH dehydrogenase from human mitochondria have been found and sequence and expression analyses indicate both prokaryotic and eukaryotic features of the chloroplast genes.
CellSequence and gene organization of mouse mitochondrial DNA
1,725 Citations1981Maureen J. Bibb, Richard A. Van Etten +3 more
The mouse mitochondrial DNA genome is highly homologous in overall sequence and in gene organization to human mitochondrial DNA, with the descending order of conserved regions being tRNA genes; origin of light-strand replication; r RNA genes; knownprotein-coding genes; unidentified protein-c coding genes; displacement-loop region.
Nucleic Acids ResearchThe ribosomal database project
1,526 Citations1993Noah B. Larsen, G J Olsen +6 more
Journal of Molecular BiologyComplete sequence of bovine mitochondrial DNA conserved features of the mammalian mitochondrial genome
1,492 Citations1982Stephen K. Anderson, M.H.L. de Bruijn +4 more
The bovine 12 S and 16 S Ribosomal RNA genes, when compared with those from human mitochondrial DNA, show conserved features that are consistent with proposed secondary structure models for the ribosomal RNAs.
Molecular and General Genetics MGGThe complete sequence of the rice (Oryza sativa) chloroplast genome: Intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals
1,204 Citations1989Junzou Hiratsuka, Hiroaki Shimada +14 more
The entire chloroplast genome of the monocot rice (Oryza sativa) has been sequenced and comprises 134525 bp and a model invoking illegitimate recombination between tRNA genes is proposed which accounts simultaneously for the origin of this pseudogene, the large inversion and the creation of repeated sequences near the inversion endpoints.
Journal of Molecular BiologySequence and gene organization of the chicken mitochondrial genome
1,080 Citations1990Paul Desjardins, Réjean Morais
Galliform mitochondrial genomes departed from their mammalian and amphibian counterparts during the course of evolution of vertebrate species, indicating useful markers for investigating phylogenetic relationships at a higher taxonomic level.
GeneticsThe mitochondrial genome of the honeybee Apis mellifera: complete sequence and genome organization.
885 Citations1993Ross H. Crozier, Y. C. Crozier
Comparisons of the predicted protein sequences indicate that the honeybee mitochondrial genetic code is the same as that for Drosophila; but the anticodons of two tRNAs differ between these two insects.
Journal of Biological ChemistryThe complete nucleotide sequence of the Xenopus laevis mitochondrial genome.
740 Citations1985B.A. Roe, Deka R.P. +2 more
Observations suggest that the mechanisms of replication, transcription, processing, and translation in mitochondria are highly conserved throughout higher vertebrates.
Nucleic Acids ResearchThe complete nucleotide sequence of mouse 28S rRNA gene. Implications for the process of size increase of the large subunit rRNA In higher eukaryotes
628 Citations1984Nasser Hassouna, Bernard Mithot +1 more
The complete nucleotide sequence of the mouse 28S rRNA gene is determined and it is indicated that the potential for major variations in size during the evolution has been restricted to a unique set of a few sites within a largely conserved secondary structure core.
Journal of Molecular EvolutionThe complete nucleotide sequence of theRattus norvegicus mitochondrial genome: Cryptic signals revealed by comparative analysis between vertebrates
519 Citations1989Gemma Gadaleta, Guglielmina Pepe +4 more
The nucleotide sequence of rat mitochondrial DNA, only the fourth mammalian mitochondrial genome to be completely sequenced, is reported, shedding new light on the organization and evolution of the vertebrate mitochondrial genome and open up the way to clearly aimed experimental studies of the regulatory mechanisms in mitochondria.
GeneticsThe mitochondrial genomes of two nematodes, Caenorhabditis elegans and Ascaris suum.
505 Citations1992Ronald Okimoto, Jane L. Macfarlane +2 more
From considerations of amino acid and nucleotide sequence similarities it appears likely that the C. elegans and A. suum ancestral lines diverged close to the time of divergence of the cow and human ancestral lines, about 80 million years ago.
Systematic and Applied MicrobiologyA Phylogenetic Definition of the Major Eubacterial Taxa
464 Citations1985Carl R. Woese, Erko Stackebrandt +2 more
Through oligonucleotide signature analysis of 16S ribosomal RNAs, it is possible to define ten major groups of eubacteria that are appropriately termed eubacterial Phyla or Divisions.
Nucleic Acids ResearchA compilation of large subunit (23S and 23S-like) ribosomal RNA structures: 1993
447 Citations1993Robin R. Gutell, Michael W. Gray +1 more
The present edition of large subunit (LSU; 23S and 23S-like) rRNA secondary structures updates and refines the collections of 1988 and 1990, and presents each LSU rRNA sequence as a secondary structure, a two-dimensional format that represents, in part, the biologically relevant conformation of the rRNA molecule.
Proceedings of the National Academy of SciencesComplete nucleotide sequence of a 23S ribosomal RNA gene from Escherichia coli.
396 Citations1980J. Brosius, Thomas J. Dull +1 more
The complete nucleotide sequence of the 23S RNA gene from the rrnB operon of Escherichia coli has been determined and kethoxal-reactive sites protected by 30S subunits are found between positions 2300 and 28000, placing the subunit interface in this region of the molecule.
Nucleic Acids ResearchSecondary structure model for 23S ribosomal RNA
380 Citations1981Harry F. Noller, J Kop +9 more
A secondary structure model for 23S ribosomal RNA has been constructed on the basis of comparative sequence data, including the complete sequences from E. coli, Bacillus stearothermophilis, human and mouse mitochondria and several partial sequences.
Nucleic Acids ResearchA Compilation of large subunit RNA sequences presented in a structural format
374 Citations1988Robin R. Gutell, George E. Fox
A summary of all the published large subunit rRNAs as of December 1987 is provided, instead of the usual linear alignment the sequences are tabulated here as a series of secondary structure diagrams in which individual nucleotides are indicated.
Trends in GeneticsTowards a natural system of organisms: proposal for the domains Archaea, Bacteria and Eucarya
367 Citations1990Carl Woese, Otto Kandlert +72 more
Journal of Biological ChemistryThe Nucleotide Sequence of Saccharomyces cerevisiae 5.8 S Ribosomal Ribonucleic Acid
347 Citations1973Gerald M. Rubin
The nucleotide sequence of Saccharomyces cerevisiae 5.8 S ribosomal RNA (also known as the 7 S or 1RNA species) has been determined to be [see PDF for sequence].
Molecular Biology and EvolutionComplete sequences of the rRNA genes of Drosophila melanogaster.
339 Citations1988Diethard Tautz, John M. Hancock +3 more
Detailed analyses reveal, in addition to unequal crossing-over, the involvement of slippage and biased mutation in the evolution of the rDNA multigene family and the molecular coevolution of both expansion segments and the nucleotides involved with compensatory changes required to maintain secondary structures of RNA.
Journal of Molecular BiologyNucleotide sequence and gene organization of sea urchin mitochondrial DNA
329 Citations1988Howard T. Jacobs, David J. Elliott +2 more
The 15,650 base-pair mitochondrial genome of the sea urchin Strongylocentrotus purpuratus has been cloned and sequenced and exhibits a novel organization that suggests the primacy of post-transcriptional gene regulation.
Molecular Phylogenetics and EvolutionEvolutionary relationships within the fungi: Analyses of nuclear small subunit rRNA sequences
318 Citations1992Thomas D. Bruns, Rytas Vilgalys +9 more
Nucleotide sequences of the small subunit ribosomal RNA (18S) gene were used to investigate evolutionary relationships within the Fungi, suggesting that covariation of sites may be an important phenomenon in these genes.
GeneticsA novel mitochondrial genome organization for the blue mussel, Mytilus edulis.
309 Citations1992Ruth Hoffmann, Jeffrey L. Boore +1 more
The sequence of 13.9 kilobases of the 17.1-kb mitochondrial genome of Mytilus edulis has been determined, and the arrangement of all genes has been deduced, which is remarkably unlike that found in any other known metazoan mtDNA.
Nucleic Acids ResearchIdentifying constraints on the higher-order structure of RNA: continued development and application of comparative sequence analysis methods
306 Citations1992Robin R. Gutell, Ann Power +3 more
Developing more rigorous comparative analysis protocols on tRNA, 16S and 23S rRNA are substantiating previously proposed associations and are now beginning to reveal additional constraints on these molecules.
Proceedings of the National Academy of SciencesVariation among human 28S ribosomal RNA genes.
296 Citations1985Iris L. Gonzalez, Jerome L. Gorski +5 more
The complete 5025-base sequence of the human 28S rRNA gene is reported and the rapid divergence rates of variable regions in the ribosomal gene may permit answers to the question of time of separation of closely related species.
Nucleic Acids ResearchThe primary and secondary structure of yeast 26S rRNA
272 Citations1981Geertruida M. Veldman, Jacobus Klootwijk +5 more
The sequence of the 26S rRNA of the yeast Saccharomyces carlsbergensis is presented as inferred from the gene sequence; the molecule is 3393 nucleotides long and consists of 48% G+C; 30 of the 43 methyl groups can be located in the sequence.
Journal of Molecular EvolutionDinoflagellates in evolution. A molecular phylogenetic analysis of large subunit ribosomal RNA
265 Citations1989Guy Lenaers, Luc Maroteaux +2 more
The sequence of the large subunit ribosomal RNA (LsuRNA) gene of the dinoflagellateProrocentrum micans has been determined and the inferred rRNA sequence is presented in its most probable secondary structure based on compensatory mutations, energy, and conservation criteria.
Journal of Molecular EvolutionThe complete nucleotide sequence of the mitochondrial DNA of the fin whale,Balaenoptera physalus
258 Citations1991Úlfur Árnason, Anette Gullberg +1 more
A comparison between the cytochromeb gene of the fin whale and cy tochromeb sequences in the literature, including dolphin (Stenella) sequences, identified the cetaceans as monophyletic and the artiodactyls as their closest relatives.
Nucleic Acids ResearchThe rDNA of<i>C. elegans</i>: sequence and structure
244 Citations1986Ronald Ellis, John Sulston +1 more
The rDNA tandem repeat from the nematode C. elegans is sequenced and the data is used to quantify the evolutionary relationships among several organisms currently studied in developmental biology.
Nucleic Acids ResearchThe structure of the yeast ribosomal RNA genes. 4. Complete sequence of the 25 S rRNA gene from Saccharomyces cerevisiae
241 Citations1981O.I. Georgiev, N. Nikolaev +4 more
The complete nucleotide sequence of the 25 S rRNA gene from one rDNA repeating unit of Saccharomyces cerevisiae has been determined and striking sequence homology is observed with known 5'- and 3'-end terminal segments of L-rRNA from other eukaryotes.
Nucleic Acids ResearchThree small RNAs within the 10 kb trypanosome rRNA transcription unit are analogous to Domain VII of other eukaryotic 28S rRNAs
238 Citations1986Theodore C. White, Gloria Rudenko +1 more
Analysis of three putative rRNA precursors suggests that the small rRNAs are not processed from the primary transcript until after the usual processing of the 5.8S rRNA region.
Nucleic Acids ResearchThe complete nucleotide sequence of the<i>Crossostoma lacustre</i>mitochondrial genome: conservation and variations among vertebrates
235 Citations1992Chyng-Shyan Tzeng, Cho‐Fat Hui +2 more
The complete mitochondrial genome of Crossostoma lacustre, a freshwater loach from mountain stream of Taiwan, has been cloned and sequenced and provides evidence for the first time for the conservation of genetic information in the fish mitochondrial genome, especially among the vertebrates.
Nucleic Acids ResearchPrimary and secondary structures of Escherichia coli MRE 600 23S ribosomal RNA. Comparison with models of secondary structure for maize chloroplast 23S rRNA and for large portions of mouse and human 16S mitochondrial rRNAs
227 Citations1981Christiane Branlant, Alain Krol +5 more
This study strongly suggests that in cytoplasmic ribosomes the 3'-end of 5.8S rRNA is basepaired with the 5'- end of 26S r RNA, which confirms the idea that 5.4S RNA is the counterpart of the 5-terminal region of prokaryotic 23S rRNAs.
Current GeneticsThe complete DNA sequence of the mitochondrial genome of Podospora anserina
215 Citations1990Donald J. Cummings, Kenneth L. McNally +2 more
DNA sequence studies of several excision-amplification plasmids demonstrate a common feature to be the presence of short repeated sequences at both termini with a prevalence of GGCGCAAGCTC.
GeneNucleotide sequence of the Bacillus subtilis ribosomal RNA operon, rrnB
212 Citations1985Christopher J. Green, George C. Stewart +3 more
The primary sequence of DNA covering a complete ribosomal RNA (rRNA) operon from Bacillus subtilis, designated rrnB has been elucidated and represents the first report of the entire sequence of an rRNA operon to be reported from B. subtILis or from any Gram-positive organism.
Journal of Biological ChemistryThe Complete Nucleotide Sequence, Gene Organization, and Genetic Code of the Mitochondrial Genome of Paracentrotus lividus
211 Citations1989Palmiro Cantatore, Marina Roberti +3 more
During invertebrate evolution each lineage developed its own mechanism of mitochondrial DNA replication and transcription and of RNA processing and translation, according to reports on Paracentrotus lividus mitochondrial DNA.
Journal of Molecular EvolutionThe complete mitochondrial DNA sequence of the harbor seal, Phoca vitulina
210 Citations1992�lfur �rnason, Ellinor Johnsson
The nucleotide sequence of the mitochondrial DNA of the harbor seal, Phoca vitulina, was determined and the organization of the coding regions of the molecule conforms with that of other mammals, but the control region is unusually long.
Systematic and Applied MicrobiologyArchaeal Phylogeny: Reexamination of the Phylogenetic Position of Archaeoglohus fulgidus in Light of Certain Composition-induced Artifacts
207 Citations1991Carl R. Woese, Laurie A. Achenbach +2 more
The analysis shows clearly that the previously reported deep branching of the A. fulgidus lineage is incorrect, and that the lineage actually groups with a previously recognized unit that comprises the Methanomicrobiales and extreme halophiles.
Nucleic Acids ResearchThe ribosomal RNA Database project
205 Citations1991G. J. Olsen, Niels B. Larsen +1 more
The RDP (ribosomal RNA database project) is a new start receiving support from the National Science Foundation, Division of Instrumentation and Resources, and will be operational by the time of this publication.
Nucleic Acids ResearchSecondary structure of the large subunit ribosomal RNA from Escherichia coli, Zea mays chloroplast, and human and mouse mitochondrial ribosomes
197 Citations1981Carola Glotz, Christian Zwieb +3 more
CellScrambled ribosomal RNA gene pieces in chlamydomonas reinhardtii mitochondrial DNA
191 Citations1988Poppo H. Boer, Michael W. Gray
Secondary structure modeling supports the view that the SSU and LSU rRNAs each functions as a noncovalent network of small RNAs, rather than as a single covalently continuous molecule and proposes that such a modular pattern may reflect the structure of the primordial ribosome.
Nucleic Acids ResearchNucleotide sequence of the 5.8S and 25S rRNA genes and of the internal transcribed spacers from<i>Arabidopsis thaliana</i>
187 Citations1990Inge Untried, Peter Gruendler
The nucleotide sequences of the 5.8S rRNA and the 25S r RNA genes as well as of the internal transcribed spacers (ITS) are presented and it is indicated that most of the ITS's could be important for post-transcriptional processing.
Journal of Molecular BiologyEvolutionary relationships amongst archaebacteria
185 Citations1987Henrik Leffers, Jørgen Kjems +3 more
The 23 S RNA genes representative of each of the main archaebacterial subkingdoms, Desulfurococcus mobilis an extreme thermophile, Halococcus morrhuae an extreme halophile and Methanobacterium thermoautotrophicum a thermophilic methanogen, were cloned and sequenced.
Nucleic Acids ResearchThe rRNA operon from Zea mays chloroplasts: nucleotide sequence of 23S rDNA and its homology with E.coli 23S rDNA
177 Citations1981Katarina Edwards, H. Kdssel
The nucleotide sequence of 23S rDNA from Zea mays chloroplasts has been determined and reveals three small insertion sequences of 25, 65 and 78 base pairs, whereas maize 16S r DNA shows only deletions when compared with the E.coli species.
Proceedings of the National Academy of SciencesDNA systematics and evolution of the artiodactyl family Bovidae.
174 Citations1992Marc W. Allard, Michael M. Miyamoto +3 more
These sequence comparisons suggest that most bovid tribes originated early in the Miocene with all extant lineages present by approximately 16-17 million years ago, and provide an example of rapid cladogenesis, following the origin of families in the infraorder Pecora.
NatureDistinctive sequence of human mitochondrial ribosomal RNA genes
170 Citations1980Ian C. Eperon, Stephen K. Anderson +1 more
The nucleotide sequence spanning the ribosomal RNA (rRNA) genes of cloned human mitochondrial DNA reveals an extremely compact genome organization wherein the putative tRNA genes are probably ‘butt-jointed’ around the two rRNA genes.
Nucleic Acids ResearchThe structure of rat 28S ribosomal ribonucleic add inferred from the sequence of nuclotides in a gene
169 Citations1983Yuen‐Ling Chan, Jose Olvera +1 more
The nucleotide sequence of a rat 28S rRNA gene was determined and it was found that the additional bases are inserted in specific regions and tend to be rich in guanine and cytosine.
Nucleic Acids ResearchSequence analysis of 28S ribosomal DNA from the amphibian<i>Xenopus laevis</i>
164 Citations1983Vassie C. Ware, Brian W. Tague +4 more
The Xenopus 28S rDNA has nine major areas of sequence inserted when compared to E. coli 23S r DNA, and in one insert there are 25 bases completely conserved between the various eukaryotes, suggesting that this area is important for eUKaryotic ribosomes.
Nucleic Acids ResearchNucleotide sequence of the mitochondrial genome of<i>Paramecium</i>
151 Citations1990A. Earl Pritchard, Jeffrey J. Seilhamer +4 more
Based on sequence comparisons with known tRNAs, only those for phe, trp, and tyr are encoded in Paramecium mt DNA, and all of the identified genes are transcribed.
Nucleic Acids ResearchLocalization and structural analysis of the ribosomal RNA operons of<i>Rhodobacter sphaeroides</i>
151 Citations1990Sylvia C. Dryden, Samuel Kaplan
Physical mapping, genetic analysis, and Southern hybridization data indicate that rrnA is contained on a large chromosome and rrnB and rnC are contained onA second smaller chromosome, which is discussed in relation to the origins of diploidy.
CellPrecise localization and nucleotide sequence of the two mouse mitochondrial rRNA genes and three immediately adjacent novel tRNA genes
146 Citations1980Richard A. Van Etten, Mark W. Walberg +1 more
The organization of the genes of the rRNA operon of mouse mtDNA, when compared to the organization of rRNA and tRNA genes in bacterial or eucaryotic nuclear genomes, provides evidence for the endosymbiotic hypothesis of the biogenesis of mammalian mitochondria.
GeneAnalysis of a ribosomal RNA operon in the actinomycete Frankia
145 Citations1992Philippe Normand, Benoît Cournoyer +2 more
Sequencing showed that the 16S-rRNA-encoding gene of ORS020606 is very closely related to that of another Alnus-infective Frankia strain and highly homologous to corresponding genes of Streptomyces spp.
Nucleic Acids ResearchThe nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript
140 Citations1981Geertruida M. Veldman, Jacobus Klootwijk +2 more
A model for the processing of yeast rRNA in which a processing enzyme sequentially recognizes several combinations of a type I and a type II consensus sequence is discussed, which further support the suggestion that both consensus sequences are involved in the recognition of precursor rRNA by the processing nuclease(s).
Nucleic Acids ResearchThe ribosomal RNA genes of<i>Drosophila</i>mitochondrial DNA
139 Citations1985Douglas O. Clary, David R. Wolstenholme
The nucleotide sequence of a segment of the mtDNA molecule of Drosophila yakuba which contains the A+T-rich region and the small and large rRNA genes separated by the tRNAval gene has been determined and can be folded into secondary structures which are remarkably similar to secondary structures proposed for the rRNAs of mouse mtDNA.
Proceedings of the National Academy of SciencesPhylogeny and evolution of antlered deer determined from mitochondrial DNA sequences.
136 Citations1990Michael M. Miyamoto, Fred Kraus +1 more
Nucleic Acids ResearchNucleotide sequence of<i>Aspergillus nidulans</i>mitochondrial genes coding for ATPase subunit 6, cytochrome oxidase subunit 3, seven unidentified proteins, four tRNAs and L-rRNA
133 Citations1982Roland Netzker, Heinrich G. Köchel +2 more
The complete nucleotide sequence of a 14 kb segment of A. nidulans mtDNA reveals a rather compact organization of genes transcribed from the same strand and coding for two functionally known proteins, seven unidentified polypeptides (URFs), 24 tRNAs and two rRNAs.
GeneOrganization and nucleotide sequence analysis of a ribosomal RNA gene cluster from Streptomyces ambofaciens
129 Citations1989Jean‐Luc Pernodet, Frédéric Boccard +3 more
The Streptomyces ambofaciens genome contains four rRNA gene clusters, which possess striking similarity with other eubacterial rRNA genes, and comparison with other rRNA sequences allowed the putative localization of the sequences encoding mature rRNAs.
Journal of Molecular BiologyPrecise identification of cleavage sites involved in the unusual processing of trypanosome ribosomal RNA
125 Citations1987David Campbell, Ken Kubo +2 more
The complete nucleotide sequence of two regions of the ribosomal DNA repeat unit is reported, infering that all the cleavages apparently occur near the junction of single- and double-stranded regions.
FEMS Microbiology LettersComparative analysis of 23S ribosomal RNA gene sequences of Bacillus anthracis and emetic Bacillus cereus determined by PCR-direct sequencing
123 Citations1992C. Ash
The primary structures of the 23S ribosomal RNA genes of Bacillin anthracis and an emetic strain of Bacillus cereus were determined by direct sequencing of enzymatically amplified chromosomal DNA and the feasibility of using PCR-direct sequencing for the rapid sequence determination of large-subunit rRNA genes is demonstrated.
Molecular and Biochemical ParasitologyStructural features of Plasmodium cytochrome b that may underlie susceptibility to 8-aminoquinolines and hydroxynaphthoquinones
123 Citations1993Akhil B. Vaidya, Monir S. Lashgari +2 more
The presumptive mitochondrial DNA, the 6-kb element, of Plasmodium falciparum is sequenced, permitting an analysis of the predicted structure of parasite electron transport proteins, suggesting that the same features are responsible for increased affinity of the parasite cyt b for antimalarial compounds of class 8-aminoquinolines and hydroxynaphthoquinones, explaining the therapeutic value of these drugs.
Proceedings of the National Academy of SciencesEvolution of parasitism: kinetoplastid protozoan history reconstructed from mitochondrial rRNA gene sequences.
113 Citations1988James A. Lake, Vidal F. de la Cruz +3 more
The molecular data suggest that these eukaryotic parasites have an evolutionary history that extends back to the origin of their insect host, which implies that the ancestral kinetoplastid and its insect host appeared at approximately the same time.
GeneThe complete nucleotide sequence of a rice 25S β rRNA gene
112 Citations1985Fumio Takaiwa, Kiyoharu Oono +2 more
The complete nucleotide (nt) sequence of a rice nuclear 25S.rRNA gene has been determined and the structural organization of this rRNA is very similar to that of yeast 26S rRNA.
Nucleic Acids ResearchThe major transcripts of the kinetoplast DNA of<i>Trypanosoma brucei</i>are very small ribosomal RNAs
111 Citations1983Ian C. Eperon, Johannes W.G. Janssen +2 more
The nucleotide sequence has been determined of a 2.2 kb segment of kinetoplast DNA, which encodes the major mitochondrial transcripts of Trypanosoma brucei, and shows that the 12S RNA is a large subunit rRNA, although sufficiently unusual for resistance to chloramphenicol to be predicted.
European Journal of BiochemistryThe Complete Nucleotide Sequence of a 23‐S rRNA Gene from Tobacco Chloroplasts
110 Citations1982F. Takaiwa, Masahiro Sugiura
A comparison with the 23-S rRNA sequence of Escherichia coli reveals strong homology and further shows a similarity between the chloroplast 4.5-SrRNA gene and the 3'-terminal region of E. coli 23- S rRNA.
Nucleic Acids ResearchHomologies between the contiguous and fragmented rRNAs of the two<i>Plasmodium falciparum extrachromosomal</i>DNAs are limited to core sequences
108 Citations1992Jean E. Feagin, Erica Werner +3 more
Both the 6 kb element and 35 kb rDNAs show less conservation to each other than to E. coli sequences, suggesting that the two extrachromosomal DNAs of P. falciparum are not closely related.
Nucleic Acids ResearchNucleotide sequence through the 18S-28S intergene region of a vertebrate ribosomal transcription unit
108 Citations1980Lucinda M. C. Hall, B. Edward H. Maden
The EMBO JournalMultiple spacer sequences in the nuclear large subunit ribosomal RNA gene of Crithidia fasciculata
107 Citations1987David F. Spencer, James C. Collings +2 more
Within a proposed secondary structure model of C. fasciculata LSU rRNA, discontinuities between the different segments map to regions that are highly variable in structure in covalently continuous LSU r RNAs, suggesting that ‘rRNA genes in pieces’ and discontinuous rRNAs may represent an evolutionarily ancient pattern.
Biochemical JournalClones of human ribosomal DNA containing the complete 18 S-rRNA and 28 S-rRNA genes. Characterization, a detailed map of the human ribosomal transcription unit and diversity among clones
105 Citations1987B.E.H. Maden, Carolyn L. Dent +4 more
A detailed map of the human ribosomal transcription unit with the locations of numerous useful restriction sites is presented, including a unique NheI site in the 5.8 S-rRNA gene that enabled this gene to be mapped with respect to the 18 and 28 S- rRNA genes.
Proceedings of the National Academy of SciencesEvolution of compensatory substitutions through G.U intermediate state in Drosophila rRNA.
102 Citations1991François Rousset, Michel Pélandakis +1 more
The rate of evolution of compensatory substitution in Watson-Crick base-pair compensatory substitutions in RNA helical structures is close to that predicted by a simple model of compensatories substitution through slightly deleterious or slightly advantageous G.U pairs, although some exceptions are presented.
Nucleic Acids ResearchPrimary and secondary structure of rat 28 S ribosomal RNA
100 Citations1984A.A. Hadjiolov, O.I. Georgiev +2 more
The primary structure of rat (Rattus norvegicus) 28 S rRNA is determined inferred from the sequence of cloned rDNA fragments, and all G+C-rich segments appear to form strongly base-paired structures.
European Journal of BiochemistryThe 23S ribosomal RNA higher‐order structure of <i>Pseudomonas cepacia</i> and other prokaryotes
96 Citations1989Peter Höpfl, Wolfgang Ludwig +2 more
A general higher-order structure model based on earlier published models has been derived from comparative analysis of 23S-like rRNAs of eubacteria, archaebacteria, organelles and eukaryotes, and Moderately large insertions and deletions have been found at new points in the secondary structure.
Nucleic Acids ResearchNucleotide sequence of the region between the 18S rRNA sequence and the 28S rRNA sequence of rat ribosomal DNA
95 Citations1982C S Subrahmanyam, Brandt Cassidy +2 more
Nucleic Acids ResearchSequence and variablity of the 5.8S and 26S rRNA genes of<i>Pneumocystis carinii</i>
93 Citations1992Yong Liu, Marissa Rocourt +3 more
The sequence of the coding region of the rRNA operon of rat-derived Pneumocystis carinii has been completed, including the genes for 5.8S and 26S rRNA, and an apparent group I self-splicing intron is present in the26S r RNA gene.
The EMBO JournalGenes encoding a subunit of respiratory NADH dehydrogenase (ND1) and a reverse transcriptase‐like protein (RTL) are linked to ribosomal RNA gene pieces in Chlamydomonas reinhardtii mitochondrial DNA.
93 Citations1988Poppo H. Boer, Michael W. Gray
A model, involving reverse transcription of rRNAs and insertion of the resulting cDNAs into the mitochondrial genome, is suggested that might account for the pattern of dispersed rRNA gene pieces in C. reinhardtii mitochondrial DNA.
PlasmidSequence analysis of the maize mitochondrial 26 S rRNA gene and flanking regions
93 Citations1984Roderic M. K. Dale, Nandini Mendu +2 more
A single copy of the large ribosomal 26 S rRNA gene is found in the maize mitochondrial genome and the sequence of this gene and the flanking regions has been determined using the M13 dideoxy sequencing method.
Nucleic Acids ResearchComplete DNA Sequence coding for the large ribosomal RNA of yeast mitochondria
89 Citations1983Fr ̈d ̈ric Sor, Hiroshi Fukuhara
The mitochondrial gene coding for the large ribosomal RNA (21S) has been isolated from a rho- clone of Saccharomyces cerevisiae and can be folded into a secondary structure according to the general models for prokaryotic and eukaryotic large Ribosomal RNAs.
Journal of Molecular BiologySixteen discrete RNA components in the cytoplasmic ribosome of Euglena gracilis
85 Citations1990Murray N. Schnare, Michael W. Gray
Sequence comparisons and secondary structure modeling indicate that these 14 RNAs exist as a non-covalent network that together must perform the functions attributed to the covalently continuous, high molecular weight, large subunit rRNA from other systems.
Nucleic Acids ResearchA compilation of large subunit (23S-like) ribosomal RNA sequences presented in a secondary structure format
84 Citations1990Robin R. Gutell, Murray N. Schnare +1 more
The compendium presented here is the immediate successor of the collection of large subunit (LSU; 23S-like) rRNA secondary structures compiled by Gutell and Fox in 1988, and presents each LSU rRNA sequence in the form of a secondary structure, as it is this structure that is a fundamental aspect of the biological activity of the LSU r RNA molecule.
Nucleic Acids ResearchFurther characterization of the extremely small mitocbondrial ribosomal RNAs from trypanosomes: a detailed comparison of the 9S and 12S RNAs from<i>Crithidia fasciculate</i>and<i>Trypanosoma brucei</i>with rRNAs from other organisms
80 Citations1985Paul Sloof, J. van den Burg +6 more
The results provide unequivocal evidence for a ribosomal function of the 9S and 12S RNAs of trypanosomal mitochondria, notwithstanding their extremely small size and their unusual base composition.
Molecular and Biochemical ParasitologyOrganisation and expression of small subunit ribosomal RNA genes encoded by a 35-kilobase circular DNA in Plasmodium falciparum
79 Citations1991Malcolm J. Gardner, Jean E. Feagin +5 more
Comparative sequence analysis of the rRNA gene and the proposed secondary structure ofThe rRNA suggest that it is of organellar origin, and while some characteristics of the small subunit r RNA gene are similar to mitochondrial sequences, others are more like those of plastids.
Proceedings of the National Academy of SciencesComplete nucleotide sequence of the 26S rRNA gene of Physarum polycephalum: its significance in gene evolution.
77 Citations1983T Otsuka, Hisayuki Nomiyama +4 more
The complete nucleotide sequences of the 5.8S and 26S rRNA genes ofphysarum polycephalum and the transcribed spacer between them were determined and showed that there are 16 highly homologous regions in the sequences of Physarum and E. coli and that eukaryotes have some eukARYote-specific extra sequences.
Nucleic Acids ResearchThe nucleotide sequence of the large ribosomal RNA gene and the adjacent tRNA genes from rat mitochondria
76 Citations1981Cecilia Saccone, Palmiro Cantatore +5 more
Comparative studies confirm that AGA and AGG are read as stop codons in mammalian mitochondria and the mt gene for tRNA Leu is of the conventional type and its primary structure is highly conserved among mammals.
Nucleic Acids ResearchSome characteristics of processing sites in ribosomal precursor RNA of yeast
76 Citations1980Geertruida M. Veldman, Reindert C. Brand +2 more
The DNA sequences of the intergenic region between the 17S and 5.8S rRNA genes of the ribosomal RNA operon in yeast has been determined and implies that the processing of yeast 37S Ribosomal precursor RNA is not directed by a double-strand specific ribonuclease previously shown to be involved in the processing in E. coli.
Nucleic Acids ResearchNucleotide sequence of a 25S rRNA gene from tomato
75 Citations1989Tamás Kiss, Mihály Kis +1 more
Nucleic Acids ResearchSequences of the coding and flanking regions of the large ribosomal subunit RNA gene of mosquito mitochondria
71 Citations1984Chuen-Chin HsuChen, Robert M. Kotin +1 more
A 1.6 kbp region of the mosquito (Aedes albopictus) mitochondrial genome containing the large ribosomal subunit ("LSU") RNA gene is sequenced, and the ends of the gene are located by S1 protection analysis and by comparison with RNA sequences.
Journal of Biological ChemistryParamecium mitochondrial genes. II. Large subunit rRNA gene sequence and microevolution.
70 Citations1984Jeffrey J. Seilhamer, Robin R. Gutell +1 more
Mature Paramecium mitochondrial large subunit rRNA consists of two stable segments: a 20 S segment described previously and a unique 283-base segment similar to 5.8 S rRNAs typically found in eucaryotic cytoplasmic RNA.
Journal of Molecular BiologyStructure and organization of Marchantia olymorpha chloroplast genome
69 Citations1988Takayuki Kohchi, Hiromasa Shirai +7 more
The genes in the regions of large inverted repeats and a small single copy of chloroplast DNA from Marchantia polymorpha are characterized and conserved, although the IR regions are smaller than any reported in higher plant chloroplasts.
Nucleic Acids ResearchThe 5.8S RNA gene sequence and the ribosomal repeat of<i>Schizosaccharomyces pombe</i>
68 Citations1982Jerome Schaak, Jen-i Mao +1 more
Analysis of isolated total cellular 5.8S RNA revealed the presence of eight species of 5.7S RNA, differing in the number of nucleotides at the 5'-end, and the sequence of the eight 5.4S RNA species appears to be identical and is the same sequence as coded for by the 5.
GeneThe complete nucleotide sequence of a 23S rRNA gene from a blue-green alga, Anacystis nidulans
66 Citations1983Masanobu Kumano, Noboru Tomioka +1 more
The complete nucleotide sequence of a 23S rRNA gene from a blue-green alga, Anacystis nidulans, has been determined and has strong homology with the chloroplast 4.5S r RNA.
Nucleic Acids ResearchComplete sequence of the extrachromosomal rDNA molecule from the ciliate<i>Tetrahymena thermophila</i>strain B1868VII
65 Citations1990Jan Engberg, Henrik Nielsen
A compilation of previously published sequence information together with new sequence data that completes the entire sequence of the 21 kb rDNA molecule is reported here.
Molecular Biology and EvolutionSequence evolution in mitochondrial ribosomal and ND-1 genes in lepidoptera: implications for phylogenetic analyses.
65 Citations1992Dorothy P. Pashley, Ke Li
Inability of molecular data to recover a well-established phylogeny may be rectified by additional characters or taxa, but it is clear that homoplasy is sufficiently high to caution against the acceptance of relationships generated with this molecular region that are not extremely robust.
Nucleic Acids ResearchNucleotide sequence of the 17S–25S spacer region from tomato rDNA
63 Citations1988Tamás Kiss, Mihály Kis +2 more
Journal of Molecular BiologyGene Organization, Primary Structure and RNA Processing Analysis of a Ribosomal RNA Operon in Lactococcus lactis
61 Citations1993Claude Chiaruttini, M. Milet
Southern blot analysis of genomic DNA of the mesophilic lactic bacterium Lactococcus lactis subsp.
Nucleic Acids ResearchComplete nucleotide sequence of the ribosomal RNA tandem repeat unit from<i>Giardia intestinalis</i>
61 Citations1990Andrew Healey, Roger W. Mitchell +3 more
The complete nucleotide sequence of the 5566 bp rRNA tandem repeat unit from the genome of the amitochondrial human intestinal parasite Giardia intestinalis is presented and is found to be similar to mitochondria] rRNA gene organisation.
Journal of Molecular BiologySix group I introns and three internal transcribed spacers in the chloroplast large subunit ribosomal RNA gene of the green alga Chlamydomonas eugametos
60 Citations1991Monique Turmel, Jean Boulanger +3 more
The finding that a polymorphic marker showing unidirectional gene conversion during crosses between C. eugametos and Chlamydomonas moewusii is located within the CeLSU.5 ORF makes it likely that this intron is a mobile element and that its ORF encodes a site-specific endonuclease promoting the transfer of the intron DNA sequence.
Journal of Molecular BiologySecondary structure constraints on the evolution of Drosophila 28 S ribosomal RNA expansion segments
59 Citations1991Andrés Ruiz‐Linares, John M. Hancock +1 more
The results suggest that the evolution of expansion segments in the rDNA multigene family is a balance between the homogenization of new mutations by unequal crossing over and a combination of selection against some such mutations per se and selection for subsequent compensatory mutations, in order to maintain a particular RNA secondary structure.
Nucleic Acids ResearchPrimary sequence and partial secondary structure of the 12S kinetoplast (mitochondrial) ribosomal RNA from<i>Leishmania tarentolae</i>: conservation of peptidyl-transferase structural elements
58 Citations1985Vidal F. de la Cruz, Agda M. Simpson +2 more
A partial secondary structure model of the 12S RNA molecule is presented which is equivalent in certain respects to the corresponding portions of the Escherichia coli 23S ribosomal RNA model.
Nucleic Acids ResearchSequence and secondary structure of moose 28S rRNA 5′terminal domain. Organisation of the 5.8S-28S rRNA complex
57 Citations1982Bernard Michot, Jean‐Pierre Bachellerie +1 more
The sequence of the 5' terminal 585 nucleotides of mouse 28S rRNA is presented as inferred from the DNA sequence of a cloned gene fragment, supporting the validity of the proposed structural model for 5.8S-28S r RNA complex in eukaryotes.
Molecular and Cellular BiologyComplex Transcription from the Extrachromosomal DNA Encoding Mitochondrial Functions of <i>Plasmodium yoelii</i>
57 Citations1990Kathleen Suplick, Joanne M. Morrisey +1 more
The results show that the unusual compactly organized mitochondrionlike DNA of malarial parasites is transcribed in a complex pattern.
…