Abstract：
: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.
journal_name
J Mol Evoljournal_title
Journal of molecular evolutionauthors
Gorab E,Garcia de Lacoba M,Botella LMdoi
10.1007/BF00173183subject
Has Abstractpub_date
1995-12-01 00:00:00pages
1016-21issue
6eissn
0022-2844issn
1432-1432journal_volume
41pub_type
杂志文章abstract：:Seven new Italian and two new British HTLV-II isolates were obtained from injecting drug users and the entire long terminal repeat (LTR) region was sequenced. Restriction analysis showed that all the Italian isolates are of the IIb subtype, whereas the British isolates are of the IIa subtype. To understand whether the...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/pl00006340
更新日期：1998-05-01 00:00:00
abstract：:There have been two distinct phases of evolution of the genetic code: an ancient phase--prior to the divergence of the three domains of life, during which the standard genetic code was established--and a modern phase, in which many alternative codes have arisen in specific groups of genomes that differ only slightly f...
journal_title：Journal of molecular evolution
pub_type： 杂志文章,评审
doi：10.1007/s00239-015-9686-8
更新日期：2015-06-01 00:00:00
abstract：:Previous reports indicate that in laboratory strains of mice, males are distinct from females in possession of repetitive DNA, notably devoid of Eco RI and Hae III sites and rich in the simple tetranucleotides GATA/GACA. We report here that such sequences originated in an ancestor common to laboratory mice, Mus hortul...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF02100013
更新日期：1987-01-01 00:00:00
abstract：:Sequence divergence among orthologous proteins was characterized with 34 amino acid replacement matrices, sequence context analysis, and a phylogenetic tree. The model was trained on very large datasets of aligned protein sequences drawn from 15 organisms including protists, plants, Dictyostelium, fungi, and animals. ...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-005-0060-0
更新日期：2005-11-01 00:00:00
abstract：:A+T content, phylogenetic relationships, codon usage, evolutionary rates, and ratio of synonymous versus non-synonymous substitutions have been studied in partial sequences of the atpD and aroQ/pheA genes of primary ( Buchnera) and secondary symbionts of aphids and a set of selected non-symbiotic bacteria, belonging t...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-001-2307-8
更新日期：2002-08-01 00:00:00
abstract：:We report the nucleotide sequence of the single muscle actin gene of the sea urchin Strongylocentrotus purpuratus. Comparison of the protein-coding sequence of this muscle actin gene (pSpG28) with that of two linked sea urchin cytoskeletal actin genes (pSpG17 and CyIIa) reveals a region of exceptional sequence conserv...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF02100039
更新日期：1987-01-01 00:00:00
abstract：:Microsatellite DNA sequences have become the dominant source of nuclear genetic markers for most applications. It is important to investigate the basis of variation between alleles and to know if current assumptions about the mechanisms of microsatellite mutation (that is to say, variations involving simple changes in...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/pl00006151
更新日期：1997-03-01 00:00:00
abstract：:The C-terminal domain of methionyl-tRNA synthetase (MetRS-C) from Nanoarchaeum equitans is homologous to a tRNA-binding protein consisting of 111 amino acids (Trbp111) from Aquifex aeolicus. The crystal structure of MetRS-C showed that it existed as a homodimer, and that each monomer possessed an oligonucleotide/oligo...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-017-9796-6
更新日期：2017-06-01 00:00:00
abstract：:The genome organization of the Hardness locus in the tribe Triticeae constitutes an excellent model for studying the mechanisms of evolution that played a role in the preservation and potential functional innovations of duplicate genes. Here we applied the nonsynonymous-synonymous rate ratio (d ( N )/d ( S ) or omega)...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-005-0292-z
更新日期：2006-10-01 00:00:00
abstract：:The heterotrophic theory of the origin of life is the only proposal available with experimental support. This comes from the ease of prebiotic synthesis under strongly reducing conditions. The prebiotic synthesis of organic compounds by reduction of CO(2) to monomers used by the first organisms would also be considere...
journal_title：Journal of molecular evolution
pub_type： 杂志文章,评审
doi：
更新日期：1999-10-01 00:00:00
abstract：:We describe the structure of a gene expressed in the salivary gland cells of the dipteran Chironomus tentans and show that it encodes 1 of the approximately 15 secretory proteins exported by the gland cells. This sp115,140 gene consists of approximately 65 copies of a 42-bp sequence in a central uninterrupted core blo...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF02101791
更新日期：1990-07-01 00:00:00
abstract：:TT virus (TTV) has a remarkable genetic heterogeneity. To study TTV evolution, phylogenetic analyses were performed on 739 DNA sequences mapping in the N22 region of ORF1. Analysis of neighbor-joining consensus trees shows significant differences between DNA and protein phylogeny. Median joining networks phylogenetic ...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-002-2352-y
更新日期：2002-11-01 00:00:00
abstract：:Friedreich ataxia is an autosomal recessive neurodegenerative disorder associated with a GAA repeat expansion in the first intron of the gene (FRDA) encoding a novel, highly conserved, 210 amino acid protein known as frataxin. Normal variation in repeat size was determined by analysis of more than 600 DNA samples from...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s002390010151
更新日期：2001-03-01 00:00:00
abstract：:The amino acid sequences of the largest subunits of the RNA polymerases I, II, and III from eukaryotes were compared with those of archaebacterial and eubacterial homologs, and their evolutionary relationships were analyzed in detail by a recently developed tree-making method, the likelihood method of protein phylogen...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF02099931
更新日期：1991-01-01 00:00:00
abstract：:Analysis of the expanded data set of Sibley and Ahlquist (1987) on primate phylogeny using a maximum likelihood mixed model analysis of variance method shows that there is significant evidence for resolving the Homo-Pan-Gorilla trifurcation in favor of a Homo-Pan clade. The resulting tree is close to that estimated by...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF02111286
更新日期：1987-01-01 00:00:00
abstract：:Parsimony is commonly used to infer the direction of substitution and mutation. However, it is known that parsimony is biased when the base composition of the DNA sequence is skewed. Here I quantify this effect for several simple cases. The analysis demonstrates that parsimony can be misleading even when levels of seq...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/pl00006427
更新日期：1998-12-01 00:00:00
abstract：:The mammalian olfactory system utilizes three large receptor families: the olfactory receptors (ORs) of the main nose and the vomeronasal type-1 and type-2 receptor genes (V1Rs and V2Rs) of the vomeronasal organ. We find that these loci are among the most long interspersed nuclear element (LINE)-dense regions of mamma...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-008-9195-0
更新日期：2009-02-01 00:00:00
abstract：:Membrane proteins that transport ATP and ADP have been identified in mitochondria, plastids, and obligate intracellular parasites. The mitochondrial ATP/ADP transporters are derived from a broad-specificity transport family of eukaryotic origin, whereas the origin of the plastid/parasite ATP/ADP translocase is more el...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-002-2387-0
更新日期：2003-02-01 00:00:00
abstract：:Small heat shock proteins (sHSPs), as one subclass of molecular chaperones, are important for cells to protect proteins under stress conditions. Unlike the large HSPs (represented by Hsp60 and Hsp70), sHSPs are highly divergent in both primary sequences and oligomeric status, with their evolutionary relationships bein...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-005-0076-5
更新日期：2006-03-01 00:00:00
abstract：:Phylogenetic relationships of nematodes, nematomorphs, kinorhynchs, priapulids, and some other major groups of invertebrates were studied by 18S rRNA gene sequencing. Kinorhynchs and priapulids form the monophyletic Cephalorhyncha clade that is the closest to the coelomate animals. When phylogenetic trees were generat...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/pl00006416
更新日期：1998-11-01 00:00:00
abstract：:The attachment site (attlambda) of bacteriophage lambda was examined in wild strains of Escherichia coli. Although the att region is non-coding, the DNA sequence was invariant in the 13 strains examined. Two other non-coding regions showed nine changes, all associated with a single strain. In four of 33 strains, seque...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s002390010247
更新日期：2001-12-01 00:00:00
abstract：:The mammalian defensin molecule is a short, highly cationic peptide cytotoxic to both microbial and mammalian cells which is cleaved from a precursor including a signal peptide and a highly anionic propiece. A phylogenetic analysis of 28 complete sequences from five mammalian species (mouse, rat, guinea pig, rabbit, a...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/pl00006191
更新日期：1997-06-01 00:00:00
abstract：:Several distinct families of endogenous retroviruses exist in the genomes of primates. Most of them are remnants of ancient germ-line infections. The human endogenous retrovirus family HERV-K represents the unique known case of endogenous retrovirus that amplified in the human genome after the divergence of human and ...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s002390010213
更新日期：2001-09-01 00:00:00
abstract：:Comparisons of the sequence divergence of three species of Hawaiian Drosophila have been made by hybridization of single-copy tracer DNA of each of the species with driver DNA from each species, and measurement of the average melting temperature (Tma) in a chaotropic solvent (2.4 M tetraethylammonium chloride) which m...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF01734358
更新日期：1981-01-01 00:00:00
abstract：:A model of nucleotide substitution that allows the transition/transversion rate bias to vary across sites was constructed. We examined the fit of this model using likelihood-ratio tests by analyzing 13 protein coding genes and 1 pseudogene. Likelihood-ratio testing indicated that a model that allows variation in the t...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/pl00006448
更新日期：1999-01-01 00:00:00
abstract：:Calmodulin is a calcium-binding EF-hand protein that is an activator of many enzymes as well as ion pumps and channels. Due to its multiple targets and its central role in the cell, understanding the evolutionary history of calmodulin genes should provide insights into the origin of genetic complexity in eukaryotes. W...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s002390010074
更新日期：2000-08-01 00:00:00
abstract：:Mitochondrial DNA (mtDNA) restriction site maps for nine species of the Drosophila obscura subgroup and for Drosophila melanogaster were established. Taking into account all restriction enzymes (12) and strains (45) analyzed, a total of 105 different sites were detected, which corresponds to a sample of 3.49% of the m...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/BF02109481
更新日期：1990-08-01 00:00:00
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
doi：10.1007/s00239-009-9289-3
更新日期：2009-11-01 00:00:00
abstract：:The slow-evolving mitochondrial DNAs of plants have potentially conserved information on the phylogenetic branching of the earliest land plants. We present the nad2 gene structures in hornworts and liverworts and in the presumptive earliest-branching vascular land plant clade, the Lycopodiopsida. Taken together with t...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-002-2324-2
更新日期：2002-09-01 00:00:00
abstract：:Group I introns are mobile RNA enzymes (ribozymes) that encode conserved primary and secondary structures required for autocatalysis. The group I intron that interrupts the tRNA-Leu gene in cyanobacteria and plastids is remarkable because it is the oldest known intervening sequence and may have been present in the com...
journal_title：Journal of molecular evolution
pub_type： 杂志文章
doi：10.1007/s00239-003-2533-3
更新日期：2003-12-01 00:00:00
