Pervasiveness of gene conservation and persistence of duplicates in cellular genomes.

abstract：:In bacteria, synonymous codon usage can be considerably affected by base composition at neighboring sites. Such context-dependent biases may be caused by either selection against specific nucleotide motifs or context-dependent mutation biases. Here we consider the evolutionary conservation of context-dependent codon b...

journal_title：Journal of molecular evolution

authors： McVean GA,Hurst GD

更新日期：2000-03-01 00:00:00

abstract：:Natural populations of the Midas cichlid species in several different crater lakes in Nicaragua exhibit a conspicuous color polymorphism. Most individuals are dark and the remaining have a gold coloration. The color morphs mate assortatively and sympatric population differentiation has been shown based on neutral mole...

journal_title：Journal of molecular evolution

authors： Henning F,Renz AJ,Fukamachi S,Meyer A

更新日期：2010-05-01 00:00:00

abstract：:This study examines the diverse maximum wavelength absorption (lambdamax) found in crayfishes (Decapoda: Cambaridae and Parastacidae) and the associated genetic variation in their opsin locus. We measured the wavelength absorption in the photoreceptors of six species that inhabit environments of different light intens...

journal_title：Journal of molecular evolution

authors： Crandall KA,Cronin TW

更新日期：1997-11-01 00:00:00

abstract：:Previous studies have revealed a major difference in the phylogenetic structure, extent of genetic diversity, and selection pressure between the surface glycoproteins and internal gene segments of avian influenza viruses (AIV) sampled from wild birds. However, what evolutionary processes are responsible for these stri...

journal_title：Journal of molecular evolution

authors： Chen R,Holmes EC

更新日期：2010-01-01 00:00:00

abstract：:Orphan genes, lacking detectable homologs in outgroup species, typically represent 10-30% of eukaryotic genomes. Efforts to find the source of these young genes indicate that de novo emergence from non-coding DNA may in part explain their prevalence. Here, we investigate the roots of orphan gene emergence in the Droso...

journal_title：Journal of molecular evolution

authors： Heames B,Schmitz J,Bornberg-Bauer E

更新日期：2020-05-01 00:00:00

abstract：:Fox and Woese (1975a) have shown that a model of 5S RNA secondary structure similar to the one originally derived for Chlorella 5S RNA can be generalized with relatively minor variations to all sequenced 5S RNA molecules, i.e. that corresponding base paired regions can be formed at approximately the same positions. We...

journal_title：Journal of molecular evolution

authors： Vigne R,Jordan BR

更新日期：1977-09-20 00:00:00

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

authors： Young B,Cech TR

更新日期：1989-12-01 00:00:00

abstract：:Microsporidia are unicellular eukaryotes living as obligate intracellular parasites. Lacking mitochondria, they were initially considered as having diverged before the endosymbiosis at the origin of mitochondria. That microsporidia were primitively amitochondriate was first questioned by the discovery of microsporidia...

journal_title：Journal of molecular evolution

authors： Thomarat F,Vivarès CP,Gouy M

更新日期：2004-12-01 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

authors： Nitschke W,Russell MJ

更新日期：2009-11-01 00:00:00

abstract：:The complete or partial sequences of 47 E. coli ribosomal proteins described in the literature have been examined by computerized search and matching programs. In contrast to results previously reported by other investigators, sequence homologies were uncovered among some of these ribosomal proteins that are well beyo...

journal_title：Journal of molecular evolution

authors： Jue RA,Woodbury NW,Doolittle RF

更新日期：1980-05-01 00:00:00

abstract：:The codon assignment of the quasi-universal genetic code can be assumed to have resulted from the evolutionary pressures that prevailed when the code was still evolving. Here, we review studies of the structure of the genetic code based on optimization models. We also review studies that, from the structure of the cod...

journal_title：Journal of molecular evolution

authors： Jestin JL,Kempf A

更新日期：2009-11-01 00:00:00

abstract：:In this article, we investigated the structural and dynamical evolutionary behaviour of a set of ten thioredoxin proteins as formed by three extant forms and seven resurrected ones in laboratory. Starting from the crystallographic structures, we performed all-atom molecular dynamics simulations and compare the traject...

journal_title：Journal of molecular evolution

authors： Del Galdo S,Alba J,Amadei A,D'Abramo M

更新日期：2019-07-01 00:00:00

abstract：:We investigated the molecular evolution of duplicated color vision genes (LWS-1 and SWS2) within cyprinid fish, focusing on the most cavefish-rich genus--Sinocyclocheilus. Maximum likelihood-based codon substitution approaches were used to analyze the evolution of vision genes. We found that the duplicated color visio...

journal_title：Journal of molecular evolution

authors： Li Z,Gan X,He S

更新日期：2009-10-01 00:00:00

abstract：:A cDNA encoding a new member of the gene family of major royal jelly proteins (MRJPs) from the honeybee, Apis mellifera, was isolated and sequenced. Royal jelly (RJ) is a secretion of the cephalic glands of nurse bees. The origin and biological function of the protein component (12.5%, w/w) of RJ is unknown. We show t...

journal_title：Journal of molecular evolution

authors： Albert S,Bhattacharya D,Klaudiny J,Schmitzová J,Simúth J

更新日期：1999-08-01 00:00:00

abstract：:cDNA encoding the adhesive protein of the mussel Mytilus coruscus (Mcfp1) was isolated. The coding region encoded 848 amino acids (a.a.) comprising the 20-a.a. signal peptide, the 21-a.a. nonrepetitive linker, and the 805-a.a. repetitive domain. Although the first 204 nucleotides and the 3'-untranslated region of Mcfp...

journal_title：Journal of molecular evolution

authors： Inoue K,Takeuchi Y,Takeyama S,Yamaha E,Yamazaki F,Odo S,Harayama S

更新日期：1996-10-01 00:00:00

abstract：:RNA editing affecting chloroplast and mitochondrial genomes has been identified in all major clades of land plants. The frequency of edited sites varies greatly between lineages but hornworts represent an extreme in propensity for editing in both their chloroplast and mitochondrial genomes. cDNA sequences from seven t...

journal_title：Journal of molecular evolution

authors： Duff RJ,Moore FB

更新日期：2005-11-01 00:00:00

abstract：:Evaporation of a solution of thymidine plus either the exo or the endo diastereomer of uridine cyclic 2',3'-O, O-phosphorothioate (U greater than p(S) in 1,2-diaminoethane hydrochloride buffer gave the 2',5' and 3',5' isomers of (P-thio) uridylylthymidine (Up(S)dT) in a ratio of 1:2 with a combined yield of about 20%....

journal_title：Journal of molecular evolution

authors： Usher DA,Yee D

更新日期：1979-11-01 00:00:00

abstract：:In the previous three reports in this series we demonstrated that the EF-hand family of proteins evolved by a complex pattern of gene duplication, transposition, and splicing. The dendrograms based on exon sequences are nearly identical to those based on protein sequences for troponin C, the essential light chain myos...

journal_title：Journal of molecular evolution

authors： Kretsinger RH,Nakayama S

更新日期：1993-05-01 00:00:00

abstract：:Artesian groundwaters of high radionuclide concentration are ubiquitous and may have provided the large, sustained energy sources that were required to drive the multistage process of DNA and primordial cell evolution. The rapid, early development of the genetic code as well as its degeneracy can be attributed to exce...

journal_title：Journal of molecular evolution

authors： Martell EA

更新日期：1992-10-01 00:00:00

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

authors： Biemann K

更新日期：1979-12-01 00:00:00

abstract：:Here we report DNA sequences from mitochondrial cytochrome b gene segments (1,005 base pairs per species) for the extinct woolly mammoth (Mammuthus primigenius) and Steller's sea cow (Hydrodamalis gigas) and the extant Asian elephant (Elephas maximus), the Western Indian manatee (Trichechus manatus), and the hyrax (Pr...

journal_title：Journal of molecular evolution

authors： Ozawa T,Hayashi S,Mikhelson VM

更新日期：1997-04-01 00:00:00

abstract：:Runs of identical amino acids encoded by triplet repeats (homopolymers) are components of numerous proteins, yet their role is poorly understood. Large numbers of homopolymers are present in the Drosophila melanogaster mastermind (mam) protein surrounding several unique charged amino acid clusters. Comparison of mam s...

journal_title：Journal of molecular evolution

authors： Newfeld SJ,Schmid AT,Yedvobnick B

更新日期：1993-11-01 00:00:00

abstract：:The evolutionary relationships of four eukaryotic kingdoms--Animalia, Plantae, Fungi, and Protista--remain unclear. In particular, statistical support for the closeness of animals to fungi rather than to plants is lacking, and a preferred branching order of these and other eukaryotic lineages is still controversial ev...

journal_title：Journal of molecular evolution

authors： Kumar S,Rzhetsky A

更新日期：1996-02-01 00:00:00

abstract：:Two competing effects at two vastly different scales may explain collagen's current translation length. The necessity to have long molecules for maintaining mechanical integrity at the organism and supraorganism scales may be limited by the need to have small molecules capable of robust self-assembly at the nanoscale....

journal_title：Journal of molecular evolution

authors： Layton BE,D'Souza AJ,Dampier W,Zeiger A,Sabur A,Jean-Charles J

更新日期：2008-06-01 00:00:00

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

authors： Jin JP,Samanez RA

更新日期：2001-02-01 00:00:00

abstract：:Computational and experimental attempts tried to characterize a universal core of genes representing the minimal set of functional needs for an organism. Based on the increasing number of available complete genomes, comparative genomics has concluded that the universal core contains < 50 genes. In contrast, experiment...

journal_title：Journal of molecular evolution

authors： Carbone A

更新日期：2006-12-01 00:00:00

abstract：:We have continued our program aimed at understanding the origin and evolution of the genetic code and the process of protein synthesis by comparing the rates of esterification of 5'-AMP by a series of hydrophobic N-acetylamino acids. The reaction clearly shows differences in reaction rate (AcPhe greater than AcLeu gre...

journal_title：Journal of molecular evolution

authors： Mullins DW Jr,Lacey JC Jr

更新日期：1986-01-01 00:00:00

abstract：:The beta-globin gene cluster of Wistar rat was extensively cloned and the embryonic genes were mapped and sequenced. Four overlapping lambda Dash recombinant clones cover about 31 kb and contain four nonadult beta-globin genes, 5'-epsilon1-gamma1-gamma2-psigamma3-3'. The epsilon1 and gamma2 are active genes, since the...

journal_title：Journal of molecular evolution

authors： Satoh H,Inokuchi N,Nagae Y,Okazaki T

更新日期：1999-07-01 00:00:00

abstract：:Available molecular and biochemical data offer conflicting evidence for the origin of the cyanelle of Cyanophora paradoxa. We show that the similarity of cyanelle and green chloroplast sequences is probably a result of these two lineages independently developing the same pattern of directional nucleotide change (subst...

journal_title：Journal of molecular evolution

authors： Lockhart PJ,Howe CJ,Bryant DA,Beanland TJ,Larkum AW

更新日期：1992-02-01 00:00:00

abstract：:Long amino acid repeats are often observed in eukaryotic proteins. In humans, several neurological disorders are caused by proteins containing abnormally long polyglutamines. However, no systematic analysis has attempted to investigate the relationship between reiterations of particular amino acids and protein functio...

journal_title：Journal of molecular evolution

authors： Mar Albà M,Santibáñez-Koref MF,Hancock JM

更新日期：1999-12-01 00:00:00