A graphical method for detecting recombination in phylogenetic data sets.

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：:The ability to counter periods of low humidity is an important determinant of distribution range in Drosophila. Climate specialists with low physiological tolerance to desiccation stress are restricted to the tropics and may lack the ability to further increase resistance through evolution. Although the physiological ...

journal_title：Molecular biology and evolution

authors： Telonis-Scott M,Gane M,DeGaris S,Sgrò CM,Hoffmann AA

更新日期：2012-05-01 00:00:00

abstract：:There are many more selectively constrained noncoding than coding nucleotides in the mammalian genome, but most mammalian noncoding DNA is subject to weak selection, on average. One of the most striking discoveries to have emerged from comparisons among mammalian genomes is the hundreds of noncoding elements of more t...

journal_title：Molecular biology and evolution

authors： Halligan DL,Oliver F,Guthrie J,Stemshorn KC,Harr B,Keightley PD

更新日期：2011-09-01 00:00:00

abstract：:Epidemiological processes leave a fingerprint in the pattern of genetic structure of virus populations. Here, we provide a new method to infer epidemiological parameters directly from viral sequence data. The method is based on phylogenetic analysis using a birth-death model (BDM) rather than the commonly used coalesc...

journal_title：Molecular biology and evolution

authors： Stadler T,Kouyos R,von Wyl V,Yerly S,Böni J,Bürgisser P,Klimkait T,Joos B,Rieder P,Xie D,Günthard HF,Drummond AJ,Bonhoeffer S,Swiss HIV Cohort Study.

更新日期：2012-01-01 00:00:00

abstract：:Unlike mammals, fish are able to regenerate axons in their central nervous system. This difference has been partly attributed to the loss/acquisition of inhibitory proteins during evolution. Nogo-A--the longest isoform of the reticulon4 (rtn4) gene product--is commonly found in mammalian myelin where it acts as a pote...

journal_title：Molecular biology and evolution

authors： Shypitsyna A,Málaga-Trillo E,Reuter A,Stuermer CA

更新日期：2011-04-01 00:00:00

abstract：:Some genes have repeatedly been found to control diverse adaptations in a wide variety of organisms. Such gene reuse reveals not only the diversity of phenotypes these unique genes control but also the composition of developmental gene networks and the genetic routes available to and taken by organisms during adaptati...

journal_title：Molecular biology and evolution

authors： VanKuren NW,Massardo D,Nallu S,Kronforst MR

更新日期：2019-12-01 00:00:00

abstract：:Several new families of DNA transposons were identified by computer-assisted searches in a wide range of animal species that includes nematodes, flat worms, mosquitoes, sea squirt, zebrafish, and humans. Many of these elements have coding capacity for transposases, which are related to each other and to those encoded ...

journal_title：Molecular biology and evolution

authors： Feschotte C

更新日期：2004-09-01 00:00:00

abstract：:A large majority of bacterial genomes show strand asymmetry, such that G and T preferentially accumulate on the leading strand. The mechanisms are unknown, but cytosine deaminations are thought to play an important role. Here, we have examined DNA strand asymmetry in three strains of the aphid endosymbiont Buchnera ap...

journal_title：Molecular biology and evolution

authors： Klasson L,Andersson SG

更新日期：2006-05-01 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：:The structural genes for nitrogenase, nifK, nifD, and nifH, are crucial for nitrogen fixation. Previous phylogenetic analysis of the amino acid sequence of nifH suggested that this gene had been horizontally transferred from a proteobacterium to the gram-positive/cyanobacterial clade, although the confounding effects ...

journal_title：Molecular biology and evolution

authors： Hirsch AM,McKhann HI,Reddy A,Liao J,Fang Y,Marshall CR

更新日期：1995-01-01 00:00:00

abstract：:An improved understanding of the biological and numerical properties of measures of population differentiation across loci is becoming increasingly more important because of their growing use in analyzing genome-wide polymorphism data for detecting population structures, inferring the rates of migration, and identifyi...

journal_title：Molecular biology and evolution

authors： Maruki T,Kumar S,Kim Y

更新日期：2012-12-01 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：:Herpesviruses have been infecting and codiverging with their vertebrate hosts for hundreds of millions of years. The primate simplex viruses exemplify this pattern of virus-host codivergence, at a minimum, as far back as the most recent common ancestor of New World monkeys, Old World monkeys, and apes. Humans are the ...

journal_title：Molecular biology and evolution

authors： Wertheim JO,Smith MD,Smith DM,Scheffler K,Kosakovsky Pond SL

更新日期：2014-09-01 00:00:00

abstract：:Recently, many cases of rapid adaptive evolution, which is characterized by the higher substitution rates of nonsynonymous substitutions to synonymous ones, have been identified in the various genes of venomous and biodefense proteins, including the conger eel galectins, congerins I and II (ConI and ConII). To underst...

journal_title：Molecular biology and evolution

authors： Konno A,Ogawa T,Shirai T,Muramoto K

更新日期：2007-11-01 00:00:00

abstract：:Multiple kelch13 alleles conferring artemisinin resistance (ART-R) are currently spreading through Southeast Asian malaria parasite populations, providing a unique opportunity to observe an ongoing soft selective sweep, investigate why resistance alleles have evolved multiple times and determine fundamental population...

journal_title：Molecular biology and evolution

authors： Anderson TJ,Nair S,McDew-White M,Cheeseman IH,Nkhoma S,Bilgic F,McGready R,Ashley E,Pyae Phyo A,White NJ,Nosten F

更新日期：2017-01-01 00:00:00

abstract：:Based on previous observations that newly inserted LINEs and SINEs have particularly long 3' A-tails, which shorten rapidly during evolutionary time, we have analyzed the rat and mouse genomes for evidence of recently inserted SINEs and LINEs. We find that the youngest predicted subfamilies of rodent identifier (ID) e...

journal_title：Molecular biology and evolution

authors： Odom GL,Robichaux JL,Deininger PL

更新日期：2004-11-01 00:00:00

abstract：:In chickens, there is a single functional gene (VH1) coding for the heavy chain variable region of immunoglobulins, and immunoglobulin diversity is generated by gene conversion of the VH1 gene by many variable region pseudogenes (psi VH's) that exist on the 5' side of the VH1 gene. To understand the evolution of this ...

journal_title：Molecular biology and evolution

authors： Ota T,Nei M

更新日期：1995-01-01 00:00:00

abstract：:Males and females often have marked phenotypic differences, and the expression of these dissimilarities invariably involves sex differences in gene expression. Sex-biased gene expression has been well characterized in animal species, where a high proportion of the genome may be differentially regulated in males and fe...

journal_title：Molecular biology and evolution

authors： Lipinska A,Cormier A,Luthringer R,Peters AF,Corre E,Gachon CM,Cock JM,Coelho SM

更新日期：2015-06-01 00:00:00

abstract：:Methods such as maximum parsimony (MP) are frequently criticized as being statistically unsound and not being based on any "model." On the other hand, advocates of MP claim that maximum likelihood (ML) has some fundamental problems. Here, we explore the connection between the different versions of MP and ML methods, p...

journal_title：Molecular biology and evolution

authors： Steel M,Penny D

更新日期：2000-06-01 00:00:00

abstract：:Hitchhiking effects of advantageous mutations have been invoked to explain reduced polymorphism in regions of low crossing-over in Drosophila. Besides reducing DNA heterozygosity, hitchhiking effects should produce strong linkage disequilibrium and a frequency spectrum skewed toward an excess of rare polymorphisms (co...

journal_title：Molecular biology and evolution

authors： Begun DJ,Aquadro CF

更新日期：1995-05-01 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：: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：:Direct sequencing of polymerase chain reaction products is now an expanding area of plant systematics and evolution. Within angiosperms the rbcL gene has been widely sequenced and used for inferring plant phylogenies at higher taxonomic levels. Unfortunately rbcL does not usually contain enough information to resolve ...

journal_title：Molecular biology and evolution

authors： Gielly L,Taberlet P

更新日期：1994-09-01 00:00:00

abstract：:Cyanobacteria are among the most ancient organisms known to have circadian rhythms. The cpmA gene is involved in controlling the circadian output signal. We studied polymorphism and divergence of this gene in six populations of a stress-tolerant cyanobacterium, Chroococcidiopsis sp., sampled in extreme habitats across...

journal_title：Molecular biology and evolution

authors： Dvornyk V,Jahan AS

更新日期：2012-12-01 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：:Human histatins are a family of low-M(r), neutral to very basic, histidine-rich salivary polypeptides. They probably function as part of the nonimmune host defense system in the oral cavity. A 39-kb region of DNA containing the HIS1 and HIS2 genes was isolated from two human genomic phage libraries as a series of over...

journal_title：Molecular biology and evolution

authors： Sabatini LM,Ota T,Azen EA

更新日期：1993-05-01 00:00:00

abstract：:Polygalacturonase inhibitor proteins (PGIPs) protect plants against invasion by diverse microbial and invertebrate enemies that use polygalacturonase (PG) to breach the plant cell wall. Directed mutagenesis has identified specific natural mutations conferring novel defensive capability in green bean PGIP against a spe...

journal_title：Molecular biology and evolution

authors： Bishop JG

更新日期：2005-07-01 00:00:00

abstract：:In this article, we address the issue of estimating the phylogenetic tree based on sequence data across a set of genes. Recognizing that the individual gene trees may not all share the same evolutionary history due to lateral gene transfer or differences in rates of evolution for instance, we develop a robust algorith...

journal_title：Molecular biology and evolution

authors： Xu X,Dunn KA,Field C

更新日期：2015-08-01 00:00:00

abstract：:This study aims to unravel the biogeography of a model symbiont/host system by exploiting the prediction that a symbiont will leave a signature of infection on the host. Specifically, a global sample of 1,442 Drosophila simulans from 33 countries and 64 sampling localities was employed to infer the phylogeography of t...

journal_title：Molecular biology and evolution

authors： Ballard JW

更新日期：2004-03-01 00:00:00

abstract：:The transposable element hobo has been introduced into the previously empty Drosophila melanogaster strain Hikone so that its dynamics can be followed and it can be compared with the P element. Five transformed lines were followed over 58 generations. The results were highly dependent on the culture temperature, the s...

journal_title：Molecular biology and evolution

authors： Galindo MI,Ladevèze V,Lemeunier F,Kalmes R,Periquet G,Pascual L

更新日期：1995-09-01 00:00:00