Structural constraints in expansion segments from a midge 26S rDNA.


:DNA sequences representing approximately 40% of the large-subunit rRNA gene from the lower dipteran Chironomus thummi were analyzed. Once aligned with their Drosophila counterparts, sequence and base content comparisons were carried out. Sequence identity was found to be high overall, except for six regions that displayed a local bias in nucleotide composition toward AT. These regions were identified as expansion segments D3, D4, D5, D6, D7a, and D12. Besides base sequence divergence, differences in length were observed between the respective variable domains of the two species, particularly for D7a. Prediction of secondary structure showed that the folding of the Chironomus expansion segments analyzed is in agreement with the general patterns proposed for eukaryotic LSU rRNA. The comparison with Drosophila revealed also that the Chironomus secondary structures of the variable domains are supported by multiple compensatory substitutions or even compensatory insertions. Chironomus D7a displayed an unusual structural feature with respect to the insect D7a models that have been inferred up to now. The structural constraint observed in the expansion segments of Diptera so distantly related as midges and Drosophila suggests that these regions contribute to some functional role. Concerning the D7a of insects so far analyzed, there can be, in addition to a conserved secondary structure, a nucleotide composition constraint that might be important for the process giving rise to the alpha and beta halves of the 26S rRNA.


J Mol Evol


Gorab E,Garcia de Lacoba M,Botella LM




Has Abstract


1995-12-01 00:00:00












  • Domains within the mammalian ornithine decarboxylase messenger RNA have evolved independently and episodically.

    abstract::Ornithine decarboxylase (ODC) is the first enzyme in the polyamine biosynthetic pathway. We have studied the evolutionary history of the mammalian ODC mRNA, focusing on the rate of accumulation of sequence divergence within specific subregions of the molecule. The phylogenetic relationships among the mRNAs from severa...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Johannes GJ,Berger FG

    更新日期:1993-06-01 00:00:00

  • In vitro selection of high temperature Zn(2+)-dependent DNAzymes.

    abstract::In vitro selection of Zn(2+)-dependent RNA-cleaving DNAzymes with activity at 90 degrees C has yielded a diverse spool of selected sequences. The RNA cleavage efficiency was found in all cases to be specific for Zn(2+) over Pb(2+), Ca(2+), Cd(2+), Co(2+), Hg(2+), and Mg(2+). The Zn(2+)-dependent activity assay of the ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Nelson KE,Bruesehoff PJ,Lu Y

    更新日期:2005-08-01 00:00:00

  • Nucleotide composition as a driving force in the evolution of retroviruses.

    abstract::All complete retrovirus sequences in the GenEMBL database were examined with the goal of assessing possible relationships between the nucleotide composition of retroviral genomes, the amino acid composition of retroviral proteins, and evolutionary strategies used by retroviruses. The results demonstrated that the geno...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Bronson EC,Anderson JN

    更新日期:1994-05-01 00:00:00

  • Diversification of the microtubule system in the early stage of eukaryote evolution: elongation factor 1 alpha and alpha-tubulin protein phylogeny of termite symbiotic oxymonad and hypermastigote protists.

    abstract::The symbiotic protists of the lower termite have been regarded as a model of early-branched eukaryotes because of their simple cellular systems and morphological features. However, cultivation of these symbiotic protists is very difficult. For this reason, these interesting protists have not been well characterized in...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Moriya S,Tanaka K,Ohkuma M,Sugano S,Kudo T

    更新日期:2001-01-01 00:00:00

  • Evolutionary sequence divergence within repeated DNA families of higher plant genomes. II. Analysis of thermal denaturation.

    abstract::An assay based on derivative analysis of thermal denaturation (melting) behavior of reassociated DNA was developed in an attempt to characterize the sequence relationships in repeated DNA families according to the homogeneous or heterogeneous models of Bendich and Anderson (1977). The validity of the technique was con...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Preisler RS,Thompson WF

    更新日期:1981-01-01 00:00:00

  • A molecular footprint of limb loss: sequence variation of the autopodial identity gene Hoxa-13.

    abstract::The homeobox gene Hoxa-13 codes for a transcription factor involved in multiple functions, including body axis and hand/foot development in tetrapods. In this study we investigate whether the loss of one function (e.g., limb loss in snakes) left a molecular footprint in exon 1 of Hoxa-13 that could be associated with ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Kohlsdorf T,Cummings MP,Lynch VJ,Stopper GF,Takahashi K,Wagner GP

    更新日期:2008-12-01 00:00:00

  • Intron dynamics and the evolution of integrin beta-subunit genes: maintenance of an ancestral gene structure in the coral, Acropora millepora.

    abstract::We have determined the genomic structure of an integrin beta-subunit gene from the coral, Acropora millepora. The coding region of the gene contains 26 introns, spaced relatively uniformly, and this is significantly more than have been found in any integrin beta-subunit genes from higher animals. Twenty-five of the 26...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Schmitt DM,Brower DL

    更新日期:2001-12-01 00:00:00

  • Phylogenetic relationships among eutherian orders estimated from inferred sequences of mitochondrial proteins: instability of a tree based on a single gene.

    abstract::The phylogenetic relationships among Primates (human), Artiodactyla (cow), Cetacea (whale), Carnivora (seal), and Rodentia (mouse and rat) were estimated from the inferred amino acid sequences of the mitochondrial genomes using Marsupialia (opossum), Aves (chicken), and Amphibia (Xenopus) as an outgroup. The overall e...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Cao Y,Adachi J,Janke A,Pääbo S,Hasegawa M

    更新日期:1994-11-01 00:00:00

  • Evolution of a metal-binding cluster in the NH(2)-terminal variable region of avian fast skeletal muscle troponin T: functional divergence on the basis of tolerance to structural drifting.

    abstract::This study investigated the evolution of a transition metal ion-binding cluster ([H--X--X--X--H](n); Tx) in the alternatively spliced NH(2)-terminal variable region of avian pectoral muscle troponin T (TnT). Encoded by avian fast skeletal muscle TnT-specific P exons, Tx-like structures were expressed in the breast mus...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Jin JP,Samanez RA

    更新日期:2001-02-01 00:00:00

  • Comparative structure analysis of vertebrate U17 small nucleolar RNA (snoRNA).

    abstract::Intron-encoded U17 RNA is a member of the H/ACA box class of small nucleolar RNAs (snoRNAs) involved in ribosomal RNA (rRNA) maturation. U17 snoRNA shows typical characteristics of guide RNAs, which specify sites of pseudouridylation on the precursor rRNA (pre-rRNA). However, in spite of the presence of H and ACA boxe...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Cervelli M,Cecconi F,Giorgi M,Annesi F,Oliverio M,Mariottini P

    更新日期:2002-02-01 00:00:00

  • Variation in protein structure and function: Primate hemoglobins.

    abstract::Variation in structure among primate hemoglobins is associated with variation in function. This supports the hypothesis that most substitutions observed among homologous proteins in different species have been fixed by natural selection because they contribute to the fitness of the genotype. It does not support the co...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Sullivan B

    更新日期:1972-12-01 00:00:00

  • Protein modules conserved since LUCA.

    abstract::Universal scale of the sequence conservation has been recently introduced based on omnipresence of the protein sequence motifs across species. A large spectrum of short sequences, up to eight residues has been found to reside in all or almost all prokaryotic organisms. By this discovery a principally novel quantitativ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Sobolevsky Y,Trifonov EN

    更新日期:2006-11-01 00:00:00

  • Comparisons of two large phaeoviral genomes and evolutionary implications.

    abstract::The evolution of viral genomes has recently attracted considerable attention. We compare the sequences of two large viral genomes, EsV-1 and FirrV-1, belonging to the family of phaeoviruses which infect different species of marine brown algae. Although their genomes differ substantially in size, these viruses share si...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Delaroque N,Boland W,Müller DG,Knippers R

    更新日期:2003-12-01 00:00:00

  • Horizontal Gene Transfer Building Prokaryote Genomes: Genes Related to Exchange Between Cell and Environment are Frequently Transferred.

    abstract::Horizontal gene transfer (HGT) has a major impact on the evolution of prokaryotic genomes, as it allows genes evolved in different contexts to be combined in a single genome, greatly enhancing the ways evolving organisms can explore the gene content space and adapt to the environment. A systematic analysis of HGT in a...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Paquola ACM,Asif H,Pereira CAB,Feltes BC,Bonatto D,Lima WC,Menck CFM

    更新日期:2018-04-01 00:00:00

  • Close evolutionary relatedness of alpha-amylases from Archaea and plants.

    abstract::The amino acid sequences of 22 alpha-amylases from family 13 of glycosyl hydrolases were analyzed with the aim of revealing the evolutionary relationships between the archaeal alpha-amylases and their eubacterial and eukaryotic counterparts. Two evolutionary distance trees were constructed: (i) the first one based on ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Janecek S,Lévêque E,Belarbi A,Haye B

    更新日期:1999-04-01 00:00:00

  • Group Selection May Explain Cancer Predisposition and Other Human Traits' Evolution.

    abstract::Group selection is a matter of acute controversy among evolutionary biologists. The most well-publicized debate in this regard is that between Edward O. Wilson and Richard Dawkins. As is widely known, Edward O. Wilson is very excited about the idea of social selection and eusociality; by contrast Richard Dawkins favor...

    journal_title:Journal of molecular evolution

    pub_type: 社论


    authors: Voskarides K

    更新日期:2018-04-01 00:00:00

  • The implications and limitations of the findings of the Viking organic analysis experiment.

    abstract::The gas chromatograph mass spectrometer instrument of the Viking mission has demonstrated the absence of organic compounds in the immediate surface layer of the two landing sites. The demonstration of the successful operation of the instrument (comparison of ground-based test data with those obtained during interplane...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Biemann K

    更新日期:1979-12-01 00:00:00

  • Specificity for 3',5'-linked substrates in RNA-catalyzed RNA polymerization.

    abstract::The finding that ribozymes can catalyze RNA chain elongation has led to the proposal that an early self-replicating system could have consisted of RNA alone. In such a chain elongation reaction, the Tetrahymena ribozyme was found to select 3',5'-linked substrates from a pool that contained a large molar excess of 2',5...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Young B,Cech TR

    更新日期:1989-12-01 00:00:00

  • Patterns of gene duplication in Saccharomyces cerevisiae and Caenorhabditis elegans.

    abstract::In this paper we present a new method for detecting block duplications in a genome. It is more stringent than previous ones in that it requires a more rigorous definition of paralogous genes and that it requires the paralogous proteins on the two blocks to be contiguous. In addition, it provides three criterion choice...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Cavalcanti AR,Ferreira R,Gu Z,Li WH

    更新日期:2003-01-01 00:00:00

  • Comparative study of translation termination sites and release factors (RF1 and RF2) in procaryotes.

    abstract::Translation termination is catalyzed by release factors that recognize stop codons. However, previous works have shown that in some bacteria, the termination process also involves bases around stop codons. Recently, Ito et al. analyzed release factors and identified the amino acids therein that recognize stop codons. ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Ozawa Y,Saito R,Washio T,Tomita M

    更新日期:2003-06-01 00:00:00

  • Hydrothermal focusing of chemical and chemiosmotic energy, supported by delivery of catalytic Fe, Ni, Mo/W, Co, S and Se, forced life to emerge.

    abstract::Energised by the protonmotive force and with the intervention of inorganic catalysts, at base Life reacts hydrogen from a variety of sources with atmospheric carbon dioxide. It seems inescapable that life emerged to fulfil the same role (i.e., to hydrogenate CO(2)) on the early Earth, thus outcompeting the slow geoche...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Nitschke W,Russell MJ

    更新日期:2009-11-01 00:00:00

  • Positive Darwinian selection drives the evolution of the morphology-related gene, EPCAM, in particularly species-rich lineages of African cichlid fishes.

    abstract::The study of genetic evolution within the context of adaptive radiations offers insights to genes and selection pressures that result in rapid morphological change. Cichlid fishes are very species-rich and variable in coloration, behavior, and morphology, and so provide a classical model system for studying the geneti...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Fan S,Elmer KR,Meyer A

    更新日期:2011-08-01 00:00:00

  • Molecular mechanisms for the variation of mitochondrial gene content and gene arrangement among chigger mites of the genus Leptotrombidium (Acari: Acariformes).

    abstract::The gene content of a mitochondrial (mt) genome, i.e., 37 genes and a large noncoding region (LNR), is usually conserved in Metazoa. The arrangement of these genes and the LNR is generally conserved at low taxonomic levels but varies substantially at high levels. We report here a variation in mt gene content and gene ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Shao R,Barker SC,Mitani H,Takahashi M,Fukunaga M

    更新日期:2006-08-01 00:00:00

  • A method for determining the position and size of optimal sequence regions for phylogenetic analysis.

    abstract::The availability of fast and accurate sequencing procedures along with the use of PCR has led to a proliferation of studies of variability at the molecular level in populations. Nevertheless, it is often impractical to examine long genomic stretches and a large number of individuals at the same time. In order to optim...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Martin MJ,González-Candelas F,Sobrino F,Dopazo J

    更新日期:1995-12-01 00:00:00

  • Gypsy/Ty3-class retrotransposons integrated in the DNA of herring, tunicate, and echinoderms.

    abstract::Eight new examples of retrotransposons of the Gypsy/Ty3 class have been identified in marine species. A 525-nt pol gene-coding region was amplified using degenerate primers from highly conserved regions and has extended the range of recognition of Gypsy/Ty3 far beyond those previously known. The following matrix shows...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Britten RJ,McCormack TJ,Mears TL,Davidson EH

    更新日期:1995-01-01 00:00:00

  • The compositional properties of human genes.

    abstract::The present work represents the first attempt to study in greater detail previously proposed compositional correlations in genomes, based on a body of additional data relating to gene localizations as well as to extended flanking sequences extracted from gene banks. We have investigated the correlations that exist bet...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Aïssani B,D'Onofrio G,Mouchiroud D,Gardiner K,Gautier C,Bernardi G

    更新日期:1991-06-01 00:00:00

  • Evolution of Alu family repeats since the divergence of human and chimpanzee.

    abstract::The DNA sequences of three members of the Alu family of repeated sequences located 5' to the chimpanzee alpha 2 gene have been determined. The base sequences of the three corresponding human Alu family repeats have been previously determined, permitting the comparison of identical Alu family members in human and chimp...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Sawada I,Willard C,Shen CK,Chapman B,Wilson AC,Schmid CW

    更新日期:1985-01-01 00:00:00

  • Changes in the pattern of twisted gastrulation gene expression among Drosophila species.

    abstract::A long-standing hypothesis posits that morphological changes may be more likely to result from changes in regulation of gene expression than from changes in the protein coding sequences of genes. We have compared the expression pattern of the twisted gastrulation (tsg) gene among five Drosophila species: D. melanogast...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Mason ED,Marsh JL

    更新日期:1998-02-01 00:00:00

  • Diversity in a chorion multigene family created by tandem duplications and a putative gene-conversion event.

    abstract::Two families of high-cysteine chorion proteins in Bombyx mori are encoded in 15 tandemly arranged nonidentical gene pairs. It is assumed that this locus arose by duplication with subsequent sequence divergence. We have compared DNA sequences from two such neighboring pairs of genes in an attempt to understand the mann...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Rodakis GC,Lecanidou R,Eickbush TH

    更新日期:1984-01-01 00:00:00

  • The evolutionary origin of red algae as deduced from the nuclear genes encoding cytosolic and chloroplast glyceraldehyde-3-phosphate dehydrogenases from Chondrus crispus.

    abstract::Algae are a heterogeneous group of photosynthetic eukaryotes traditionally separated into three major subdivisions: rhodophytes, chlorophytes, and chromophytes. The evolutionary origin of rhodophytes or red algae and their links to other photosynthetic and nonphotosynthetic eukaryotes have been a matter of much contro...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章


    authors: Liaud MF,Valentin C,Martin W,Bouget FY,Kloareg B,Cerff R

    更新日期:1994-04-01 00:00:00