Organellar RNA editing and plant-specific extensions of pentatricopeptide repeat proteins in jungermanniid but not in marchantiid liverworts.

abstract：:The genetic basis of organisms' adaptation to different environments is a central issue of molecular evolution. The budding yeast Saccharomyces cerevisiae and its relatives predominantly ferment glucose into ethanol even in the presence of oxygen. This was suggested to be an adaptation to glucose-rich habitats, but th...

journal_title：Molecular biology and evolution

authors： Lin Z,Li WH

更新日期：2011-01-01 00:00:00

abstract：:The evolution of DNA base composition evolution is simplified to a six-parameter model when there are no strand biases for mutation and selection. We analyzed the dynamics of this model with special attention to the influence of a change in substitution rates. The G + C content of the DNA sequence tends to an equilibr...

journal_title：Molecular biology and evolution

authors： Lobry JR,Lobry C

更新日期：1999-06-01 00:00:00

abstract：:Interspecific hybridization is one of the major factors leading to phylogenetic incongruence among loci, but the knowledge is still limited about the potential of each locus to introgress between species. By directly sequencing three DNA regions: chloroplast DNAs (matK gene and trnL-F noncoding region), the nuclear ri...

journal_title：Molecular biology and evolution

authors： Okuyama Y,Fujii N,Wakabayashi M,Kawakita A,Ito M,Watanabe M,Murakami N,Kato M

更新日期：2005-02-01 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：:Statistical criteria have long been the standard for selecting the best model for phylogenetic reconstruction and downstream statistical inference. Although model selection is regarded as a fundamental step in phylogenetics, existing methods for this task consume computational resources for long processing time, they ...

journal_title：Molecular biology and evolution

authors： Abadi S,Avram O,Rosset S,Pupko T,Mayrose I

更新日期：2020-11-01 00:00:00

abstract：:Hybridization is often considered maladaptive, but sometimes hybrids can invade new ecological niches and adapt to novel or stressful environments better than their parents. The genomic changes that occur following hybridization that facilitate genome resolution and/or adaptation are not well understood. Here, we exam...

journal_title：Molecular biology and evolution

authors： Smukowski Heil CS,DeSevo CG,Pai DA,Tucker CM,Hoang ML,Dunham MJ

更新日期：2017-07-01 00:00:00

abstract：:The quantitative immunological technique of micro-complement fixation (MC'F) has been routinely used during the past decade to assess evolutionary relationships among living vertebrate species. The large data base that has been generated, along with the excellent correlations between immunologically measured genetic d...

journal_title：Molecular biology and evolution

authors： Maxson RD,Maxson LR

更新日期：1986-09-01 00:00:00

abstract：:Photosystem II, the water oxidizing enzyme, altered the course of evolution by filling the atmosphere with oxygen. Here, we reconstruct the origin and evolution of water oxidation at an unprecedented level of detail by studying the phylogeny of all D1 subunits, the main protein coordinating the water oxidizing cluster...

journal_title：Molecular biology and evolution

authors： Cardona T,Murray JW,Rutherford AW

更新日期：2015-05-01 00:00:00

abstract：:It is known that the effective population size (Ne) and the mutation rate (u) vary across the genome. Here, we show that ignoring this heterogeneity may lead to biased estimates of past demography. To solve the problem, we develop new methods for jointly inferring past changes in population size and detecting variatio...

journal_title：Molecular biology and evolution

authors： Zeng K,Jackson BC,Barton HJ

更新日期：2019-02-01 00:00:00

abstract：:Epigenetic information, which can be passed on independently of the DNA sequence, is stored in part in the form of histone posttranslational modifications and specific histone variants. Although complexes necessary for deposition have been identified for canonical and variant histones, information regarding the chroma...

journal_title：Molecular biology and evolution

authors： Ashraf K,Nabeel-Shah S,Garg J,Saettone A,Derynck J,Gingras AC,Lambert JP,Pearlman RE,Fillingham J

更新日期：2019-05-01 00:00:00

abstract：:Plant phenotypic plasticity describes altered phenotypic performance of an individual when grown in different environments. Exploring genetic architecture underlying plant plasticity variation may help mitigate the detrimental effects of a rapidly changing climate on agriculture, but little research has been done in t...

journal_title：Molecular biology and evolution

authors： Liu N,Du Y,Warburton ML,Xiao Y,Yan J

更新日期：2020-11-03 00:00:00

abstract：:The minimum-evolution (ME) method of phylogenetic inference is based on the assumption that the tree with the smallest sum of branch length estimates is most likely to be the true one. In the past this assumption has been used without mathematical proof. Here we present the theoretical basis of this method by showing ...

journal_title：Molecular biology and evolution

authors： Rzhetsky A,Nei M

更新日期：1993-09-01 00:00:00

abstract：:In phylogenetic inference, an evolutionary model describes the substitution processes along each edge of a phylogenetic tree. Misspecification of the model has important implications for the analysis of phylogenetic data. Conventionally, however, the selection of a suitable evolutionary model is based on heuristics or...

journal_title：Molecular biology and evolution

authors： Kedzierska AM,Drton M,Guigó R,Casanellas M

更新日期：2012-03-01 00:00:00

abstract：:As human populations dispersed throughout the world, they were subjected to new selective forces, which must have led to local adaptation via natural selection and hence altered patterns of genetic variation. Yet, there are very few examples known in which such local selection has clearly influenced human genetic vari...

journal_title：Molecular biology and evolution

authors： Kayser M,Brauer S,Stoneking M

更新日期：2003-06-01 00:00:00

abstract：:Genetic studies of Tibetans, an ethnic group with a long-lasting presence on the Tibetan Plateau which is known as the highest plateau in the world, may offer a unique opportunity to understand the biological adaptations of human beings to high-altitude environments. We conducted a genome-wide study of 1,000,000 genet...

journal_title：Molecular biology and evolution

authors： Xu S,Li S,Yang Y,Tan J,Lou H,Jin W,Yang L,Pan X,Wang J,Shen Y,Wu B,Wang H,Jin L

更新日期：2011-02-01 00:00:00

abstract：:We examined microsatellite variation in two diploid, outcrossing relatives of Arabidopsis thaliana, Arabis petraea and Arabis lyrata. The primer sequences were derived from A. thaliana. About 50% (14 loci) of the A. thaliana primers could successfully amplify microsatellites in the related species. Analysis of microsa...

journal_title：Molecular biology and evolution

authors： van Treuren R,Kuittinen H,Kärkkäinen K,Baena-Gonzalez E,Savolainen O

更新日期：1997-03-01 00:00:00

abstract：:There is increasing evidence that dosage compensation is not a ubiquitous feature following sex chromosome evolution, especially not in organisms where females are the heterogametic sex, like in birds. Even when it occurs, compensation can be incomplete and limited to dosage-sensitive genes. However, previous work has...

journal_title：Molecular biology and evolution

authors： Uebbing S,Konzer A,Xu L,Backström N,Brunström B,Bergquist J,Ellegren H

更新日期：2015-10-01 00:00:00

abstract：:Microsporidia are a diverse group of highly derived fungal relatives that are intracellular parasites of many animals. Both transcription and introns have been shown to be unusual in microsporidia: The complete genome of the human parasite Encephalitozoon cuniculi has only a few very short introns, and two distantly r...

journal_title：Molecular biology and evolution

authors： Gill EE,Lee RC,Corradi N,Grisdale CJ,Limpright VO,Keeling PJ,Fast NM

更新日期：2010-07-01 00:00:00

abstract：:The mutational process varies at many levels, from within genomes to among taxa. Many mechanisms have been linked to variation in mutation, but understanding of the evolution of the mutational process is rudimentary. Physiological condition is often implicated as a source of variation in microbial mutation rate and ma...

journal_title：Molecular biology and evolution

authors： Saxena AS,Salomon MP,Matsuba C,Yeh SD,Baer CF

更新日期：2019-02-01 00:00:00

abstract：:Microarray platforms are used increasingly to make comparative inferences through genome-wide surveys of gene expression. Although recent studies focus on describing the evidence for natural selection using estimates of the within- and between-taxa mutational variances, these methods do not explicitly or flexibly acco...

journal_title：Molecular biology and evolution

authors： Eng KH,Bravo HC,Keleş S

更新日期：2009-10-01 00:00:00

abstract：:The order of genes on eukaryotic chromosomes is nonrandom. Some neighboring genes show order conservation among species, while some neighboring genes separate during evolution. Here, we investigated whether neighboring genes show interactions after their separation. We found that neighboring gene pairs tend to show in...

journal_title：Molecular biology and evolution

authors： Dai Z,Xiong Y,Dai X

更新日期：2014-05-01 00:00:00

abstract：:Many methods exist for detecting introgression between nonsister species, but the most commonly used require either a single sequence from four or more taxa or multiple sequences from each of three taxa. Here, we present a test for introgression that uses only a single sequence from three taxa. This test, denoted D3, ...

journal_title：Molecular biology and evolution

authors： Hahn MW,Hibbins MS

更新日期：2019-12-01 00:00:00

abstract：:Since the endosymbiotic origin of chloroplasts from cyanobacteria 2 billion years ago, the evolution of plastids has been characterized by massive loss of genes. Most plants and algae depend on photosynthesis for energy and have retained ∼110 genes in their chloroplast genome that encode components of the gene express...

journal_title：Molecular biology and evolution

authors： Delannoy E,Fujii S,Colas des Francs-Small C,Brundrett M,Small I

更新日期：2011-07-01 00:00:00

abstract：:The chemokine receptor CCR5 can serve as a coreceptor for M-tropic HIV-1 infection and both M-tropic and T-tropic SIV infection. We sequenced the entire CCR5 gene from 10 nonhuman primates: Pongo pygmaeus, Hylobates leucogenys, Trachypithecus francoisi, Trachypithecus phayrei, Pygathrix nemaeus, Rhinopithecus roxellan...

journal_title：Molecular biology and evolution

authors： Zhang YW,Ryder OA,Zhang YP

更新日期：1999-09-01 00:00:00

abstract：:Analysis of mitochondrial DNA restriction fragment length polymorphism in European anchovy (Engraulis encrasicolus) revealed a large number of mitotypes that form two distinct clusters (phylads). Phylad A consists of one common mitotype and many rare secondary mitotypes that are one mutational step removed from the ma...

journal_title：Molecular biology and evolution

authors： Magoulas A,Tsimenides N,Zouros E

更新日期：1996-01-01 00:00:00

abstract：:Partial 18S rRNA sequence of the nemertine Cerebratulus lacteus was obtained and compared with those of coelomate metazoans and acoelomate platyhelminths to test whether nemertines share a most recent common ancestor with the platyhelminths, as traditionally has been implied, or whether nemertines lie within a protost...

journal_title：Molecular biology and evolution

authors： Turbeville JM,Field KG,Raff RA

更新日期：1992-03-01 00:00:00

abstract：:Siberia is one of the coldest environments on Earth and has great seasonal temperature variation. Long-term settlement in northern Siberia undoubtedly required biological adaptation to severe cold stress, dramatic variation in photoperiod, and limited food resources. In addition, recent archeological studies show that...

journal_title：Molecular biology and evolution

authors： Hsieh P,Hallmark B,Watkins J,Karafet TM,Osipova LP,Gutenkunst RN,Hammer MF

更新日期：2017-11-01 00:00:00

abstract：:Successful fertilization in free-spawning marine organisms depends on the interactions between genes expressed on the surfaces of eggs and sperm. Positive selection frequently characterizes the molecular evolution of such genes, raising the possibility that some common deterministic process drives the evolution of gam...

journal_title：Molecular biology and evolution

authors： Riginos C,Wang D,Abrams AJ

更新日期：2006-10-01 00:00:00

abstract：:DNA fingerprinting exhibits multilocus genotypes of individuals, detected by the use of a single multilocus probe. Consequently, population data on DNA fingerprinting do not provide a complete characterization of the genetic variation in terms of allele-frequency distributions, since neither the number of loci nor the...

journal_title：Molecular biology and evolution

authors： Jin L,Chakraborty R

更新日期：1994-01-01 00:00:00

abstract：:The diploid D-genome lineage of the Triticum/Aegilops complex has an evolutionary history involving genomic contributions from ancient A- and B/S-genome species. We explored here the possible cytonuclear evolutionary responses to this history of hybridization. Phylogenetic analysis of chloroplast DNAs indicates that t...

journal_title：Molecular biology and evolution

authors： Li C,Sun X,Conover JL,Zhang Z,Wang J,Wang X,Deng X,Wang H,Liu B,Wendel JF,Gong L

更新日期：2019-02-01 00:00:00