Distinct Patterns of Selection in Selenium-Dependent Genes between Land and Aquatic Vertebrates.

abstract：:Selection on codon usage bias is well documented in a number of microorganisms. Whether codon usage is also generally shaped by natural selection in large organisms, despite their relatively small effective population size (Ne), is unclear. In animals, the population genetics of codon usage bias has only been studied ...

journal_title：Molecular biology and evolution

authors： Galtier N,Roux C,Rousselle M,Romiguier J,Figuet E,Glémin S,Bierne N,Duret L

更新日期：2018-05-01 00:00:00

abstract：:This paper concludes that the statistical properties of protein evolution are compatible with a particular model of evolution by natural selection. The argument begins with a statistical description of the molecular clock based on a Poisson process with a randomly varying tick rate. If the time scale of the change of ...

journal_title：Molecular biology and evolution

authors： Gillespie JH

更新日期：1986-03-01 00:00:00

abstract：:The human Y chromosome consists of ampliconic genes, which are located in palindromes and undergo frequent gene conversion, and single-copy genes including the primary sex-determining locus, SRY. Here, we demonstrate that SRY is duplicated in a large palindrome in the European rabbit (Oryctolagus cuniculus). Furthermo...

journal_title：Molecular biology and evolution

authors： Geraldes A,Rambo T,Wing RA,Ferrand N,Nachman MW

更新日期：2010-11-01 00:00:00

abstract：:Hox genes encode a family of transcriptional regulators that operate differential developmental programs along the anteroposterior axis of bilateral animals. Regulatory changes affecting Hox gene expression are believed to have been crucial for the evolution of animal body plans. In Drosophila melanogaster, Hox expres...

journal_title：Molecular biology and evolution

authors： Patraquim P,Warnefors M,Alonso CR

更新日期：2011-09-01 00:00:00

abstract：:We review all instances in which the nuclear 5S rRNA genes of fungi, protist, nematode, and arthropod species have been reported to be linked to the tandemly repeated units of the rDNA, trans-spliced leader, and histone multigene families. The evolution of these gene arrangements is analyzed by mapping them to indepen...

journal_title：Molecular biology and evolution

authors： Drouin G,de Sá MM

更新日期：1995-05-01 00:00:00

abstract：:The serial coalescent extends traditional coalescent theory to include genealogies in which not all individuals were sampled at the same time. Inference in this framework is powerful because population size and evolutionary rate may be estimated independently. However, when the sequences in question are affected by se...

journal_title：Molecular biology and evolution

authors： O'Fallon BD

更新日期：2011-11-01 00:00:00

abstract：:Isoprene is the most abundant biogenic volatile hydrocarbon compound naturally emitted by plants and plays a major role in atmospheric chemistry. It has been proposed that isoprene synthases (IspS) may readily evolve from other terpene synthases, but this hypothesis has not been experimentally investigated. We isolate...

journal_title：Molecular biology and evolution

authors： Li M,Xu J,Algarra Alarcon A,Carlin S,Barbaro E,Cappellin L,Velikova V,Vrhovsek U,Loreto F,Varotto C

更新日期：2017-10-01 00:00:00

abstract：:The relative evolutionary rates at individual sites in proteins are informative measures of conservation or adaptation. Often used as evolutionarily aware conservation scores, relative rates reveal key functional or strongly selected residues. Estimating rates in a phylogenetic context requires specifying a protein su...

journal_title：Molecular biology and evolution

authors： Spielman SJ,Kosakovsky Pond SL

更新日期：2018-09-01 00:00:00

abstract：:The Orthonectida is a small, poorly known phylum of parasites of marine invertebrates. Their phylogenetic placement is obscure; they have been considered to be multicellular protozoans, primitive animals at a "mesozoan" grade of organization, or secondarily simplified flatworm-like organisms. The best known species in...

journal_title：Molecular biology and evolution

authors： Hanelt B,Van Schyndel D,Adema CM,Lewis LA,Loker ES

更新日期：1996-11-01 00:00:00

abstract：:Multilocus sequence typing (MLST) is a recently developed nucleotide sequence-based method for the definitive assignment of isolates within bacterial populations to specific clones. MLST uses the same principles as multilocus enzyme electrophoresis and provides data that can be used to investigate aspects of the popul...

journal_title：Molecular biology and evolution

authors： Feil EJ,Maiden MC,Achtman M,Spratt BG

更新日期：1999-11-01 00:00:00

abstract：:Molecular clocks are routinely tested for linearity using a relative rate test and routinely calibrated against the geological time scale using a single or average paleontologically determined time of divergence between living taxa. The relative rate test is a test of parallel rate equality, not a test of rate constan...

journal_title：Molecular biology and evolution

authors： Gingerich PD

更新日期：1986-05-01 00:00:00

abstract：:We examine rate heterogeneity among evolutionary lineages of the grass family at two plasmid loci, ndhF and rbcL, and we introduce a method to determine whether patterns of rate heterogeneity are correlated between loci. We show both that rates of synonymous evolution are heterogeneous among grass lineages and that ar...

journal_title：Molecular biology and evolution

authors： Gaut BS,Clark LG,Wendel JF,Muse SV

更新日期：1997-07-01 00:00:00

abstract：:The orientation of closely linked genes in mammalian genomes is not random: there are more head-to-head (h2h) gene pairs than expected. To understand the origin of this enrichment in h2h gene pairs, we have analyzed the phylogenetic distribution of gene pairs separated by less than 600 bp of intergenic DNA (gene duos)...

journal_title：Molecular biology and evolution

authors： Franck E,Hulsen T,Huynen MA,de Jong WW,Lubsen NH,Madsen O

更新日期：2008-09-01 00:00:00

abstract：:Serotonin is a neurotransmitter that plays an important role in regulating behavior and personality in humans and other mammals. Polymorphisms in genes coding for the serotonin receptor subtype 1A (HTR1A), the serotonin transporter (SLC6A4), and the serotonin degrading enzyme monoamine oxidase A (MAOA) are associated ...

journal_title：Molecular biology and evolution

authors： Staes N,Sherwood CC,Freeman H,Brosnan SF,Schapiro SJ,Hopkins WD,Bradley BJ

更新日期：2019-07-01 00:00:00

abstract：:Protein interactions are central to most biological processes. We investigated the dynamics of emergence of the protein interaction network of Saccharomyces cerevisiae by mapping origins of proteins on an evolutionary tree. We demonstrate that evolutionary periods are characterized by distinct connectivity levels of t...

journal_title：Molecular biology and evolution

authors： Kunin V,Pereira-Leal JB,Ouzounis CA

更新日期：2004-07-01 00:00:00

abstract：:Rearrangements of mitochondrial DNA gene order have been suggested as a tool for defining the pattern of evolutionary divergence in arthropod taxa. We have employed a combination of highly conserved insect-based polymerase chain reaction (PCR) primers with long-PCR to survey 14 noninsect arthropods for mitochondrial g...

journal_title：Molecular biology and evolution

authors： Roehrdanz RL,Degrugillier ME,Black WC 4th

更新日期：2002-06-01 00:00:00

abstract：:Numerous studies have used indices of genetic distance between species to reconstruct evolutionary relationships and to estimate divergence time. However, the empirical relationship between molecular-based indices of genetic divergence and divergence time based on the fossil record is poorly known. To date, the result...

journal_title：Molecular biology and evolution

authors： Wayne RK,Van Valkenburgh B,O'Brien SJ

更新日期：1991-05-01 00:00:00

abstract：:Pseudogenes are defined as nonfunctional DNA sequences with homology to functional protein-coding genes, and they typically contain nonfunctional mutations within the presumptive coding region. In theory, pseudogenes can also be caused by mutations in upstream regulatory regions, appearing as open reading frames with ...

journal_title：Molecular biology and evolution

authors： Yang L,Takuno S,Waters ER,Gaut BS

更新日期：2011-03-01 00:00:00

abstract：:Non-long terminal repeat retroelements continue to impact the human genome through cis-activity of long interspersed element-1 (LINE-1 or L1) and trans-mobilization of Alu. Current activity is dominated by modern subfamilies of these elements, leaving behind an evolutionary graveyard of extinct Alu and L1 subfamilies....

journal_title：Molecular biology and evolution

authors： Wagstaff BJ,Kroutter EN,Derbes RS,Belancio VP,Roy-Engel AM

更新日期：2013-01-01 00:00:00

abstract：:Functional redundancy in genomes arises from genes with overlapping functions, allowing phenotypes to persist after gene knockouts. Evolutionary redundancy or evolvability of a genome is one step removed, in that functional redundancy is absent but the genome has the potential to evolve to restore a lost phenotype. Ex...

journal_title：Molecular biology and evolution

authors： Heineman RH,Bull JJ,Molineux IJ

更新日期：2009-06-01 00:00:00

abstract：:The phylogenies for each of the protein-coding genes from the Methanococcus jannaschii genome were surveyed to determine the history of the major groups of life. For each gene, homologous sequences from other archaea, eucarya, and Gram-positive and Gram-negative bacteria were collected and aligned, and a phylogeny was...

journal_title：Molecular biology and evolution

authors： Ribeiro S,Golding GB

更新日期：1998-07-01 00:00:00

abstract：:The high frequency of alternative splicing among the serine/arginine-rich (SR) family of proteins in plants has been linked to important roles in gene regulation during development and in response to environmental stress. In this article, we have searched and manually annotated all the SR proteins in the genomes of ma...

journal_title：Molecular biology and evolution

authors： Rauch HB,Patrick TL,Klusman KM,Battistuzzi FU,Mei W,Brendel VP,Lal SK

更新日期：2014-03-01 00:00:00

abstract：:We report the complete sequence of a paralogous copy of elongation factor-1 alpha (EF-1 alpha) in the honeybee, Apis mellifera (Hymenoptera: Apidae). This copy differs from a previously described copy in the positions of five introns and in 25% of the nucleotide sites in the coding regions. The existence of two paralo...

journal_title：Molecular biology and evolution

authors： Danforth BN,Ji S

更新日期：1998-03-01 00:00:00

abstract：:Multiple sequence alignment (MSA) is the heart of comparative sequence analysis. Recent studies demonstrate that MSA algorithms can produce different outcomes when analyzing genomes, including phylogenetic tree inference and the detection of adaptive evolution. These studies also suggest that the difference between MS...

journal_title：Molecular biology and evolution

authors： Blackburne BP,Whelan S

更新日期：2013-03-01 00:00:00

abstract：:Most "tests of neutrality" assess whether particular data sets depart from the predictions of a standard neutral model with no recombination. For Drosophila, where nuclear polymorphism data routinely show evidence of genetic exchange, the assumption of no recombination is often unrealistic. In addition, while conserva...

journal_title：Molecular biology and evolution

authors： Przeworski M,Wall JD,Andolfatto P

更新日期：2001-03-01 00:00:00

abstract：:Complex metazoan bodies require cell-to-cell communication for development, a process often mediated by signaling molecules binding to specific receptors. Relatively few signaling pathways have been recruited during evolution to build multicellular animals from unicellular zygotes. Of these few signaling pathways, one...

journal_title：Molecular biology and evolution

authors： Bertrand S,Iwema T,Escriva H

更新日期：2014-02-01 00:00:00

abstract：:The variation of amino acid substitution rates in proteins depends on several variables. Among these, the protein's expression level, functional category, essentiality, or metabolic costs of its amino acid residues may play an important role. However, the relative importance of each variable has not yet been evaluated...

journal_title：Molecular biology and evolution

authors： Rocha EP,Danchin A

更新日期：2004-01-01 00:00:00

abstract：:zeta-Crystallin is a novel nicotinamide adenine dinucleotide phosphate:quinone reductase, present at enzymatic levels in various tissues of different species, which is highly expressed in the lens of some hystricomorph rodents and camelids. We report here the complementary DNA (cDNA) cloning of zeta-crystallin from li...

journal_title：Molecular biology and evolution

authors： Gonzalez P,Hernández-Calzadilla C,Rao PV,Rodriguez IR,Zigler JS Jr,Borrás T

更新日期：1994-03-01 00:00:00

abstract：:The plant MADS-box regulatory gene family includes several loci that control different aspects of inflorescence and floral development. Orthologs to the Arabidopsis thaliana MADS-box floral meristem genes APETALA1 and CAULIFLOWER and the floral organ identity genes APETALA3 and PISTILLATA were isolated from the congen...

journal_title：Molecular biology and evolution

authors： Lawton-Rauh AL,Buckler ES 4th,Purugganan MD

更新日期：1999-08-01 00:00:00

abstract：:The functionality of long noncoding RNAs (lncRNAs) is disputed. In general, lncRNAs are under weak selective pressures, suggesting that the majority of lncRNAs may be nonfunctional. However, although some surveys showed negligible phenotypic effects upon lncRNA perturbation, key biological roles were demonstrated for ...

journal_title：Molecular biology and evolution

authors： Darbellay F,Necsulea A

更新日期：2020-01-01 00:00:00