Non-African populations of Drosophila melanogaster have a unique origin.

abstract：:Employing comparative analysis of the cDNA-coding sequences of the unique preprorelaxin of the Afro-lorisiform Galago crassicaudatus and the Malagasy lemur Varecia variegata and the relaxin-like factor (RLF) of G. crassicaudatus, we demonstrated distinct differences in the dynamics of molecular remodeling of both horm...

journal_title：Molecular biology and evolution

authors： Klonisch T,Froehlich C,Tetens F,Fischer B,Hombach-Klonisch S

更新日期：2001-03-01 00:00:00

abstract：:Horizontal gene transfer threatens the therapeutic success of antibiotics by facilitating the rapid dissemination of resistance alleles among bacterial species. The conjugative mobile element Tn916 provides an excellent context for examining the role of adaptive parasexuality as it carries the tetracycline-resistance ...

journal_title：Molecular biology and evolution

authors： Beabout K,Hammerstrom TG,Wang TT,Bhatty M,Christie PJ,Saxer G,Shamoo Y

更新日期：2015-10-01 00:00:00

abstract：:The guppy sex chromosomes show an extraordinary diversity in divergence across populations and closely related species. In order to understand the dynamics of the guppy Y chromosome, we used linked-read sequencing to assess Y chromosome evolution and diversity across upstream and downstream population pairs that vary ...

journal_title：Molecular biology and evolution

authors： Almeida P,Sandkam BA,Morris J,Darolti I,Breden F,Mank JE

更新日期：2021-01-23 00:00:00

abstract：:We determine the phylogenetic backbone of the East Asian mtDNA tree by using published complete mtDNA sequences and assessing both coding and control region variation in 69 Han individuals from southern China. This approach assists in the interpretation of published mtDNA data on East Asians based on either control re...

journal_title：Molecular biology and evolution

authors： Kivisild T,Tolk HV,Parik J,Wang Y,Papiha SS,Bandelt HJ,Villems R

更新日期：2002-10-01 00:00:00

abstract：:Reticulate species evolution, such as hybridization or introgression, is relatively common in nature. In the presence of reticulation, species relationships can be captured by a rooted phylogenetic network, and orthologous gene evolution can be modeled as bifurcating gene trees embedded in the species network. We pres...

journal_title：Molecular biology and evolution

authors： Zhang C,Ogilvie HA,Drummond AJ,Stadler T

更新日期：2018-02-01 00:00:00

abstract：:Full-length mariner-like elements (MLEs) were identified from both a parasitoid wasp, Ascogaster reticulatus, and its moth host, Adoxophyes honmai. MLEs were detected in two related Tortricid moths, but not in another Ascogaster species. The MLEs of A. reticulatus and A. honmai were 97.6% identical in DNA sequence. Th...

journal_title：Molecular biology and evolution

authors： Yoshiyama M,Tu Z,Kainoh Y,Honda H,Shono T,Kimura K

更新日期：2001-10-01 00:00:00

abstract：:Gene unscrambling in spirotrichous ciliates involves massive genome-wide DNA deletion and rearrangement events during development. During each sexual cycle, the somatic nucleus (macronucleus) regenerates from the germ line nucleus (micronucleus). Development of the polyploid somatic genome requires programmed DNA dele...

journal_title：Molecular biology and evolution

authors： Wong LC,Landweber LF

更新日期：2006-04-01 00:00:00

abstract：:Short interspersed repetitive elements (SINEs) have been shown to be excellent markers of molecular phylogeny, since the integration of a SINE at a particular position in a genome can be considered an unambiguous derived homologous character. In the present study, we isolated a new family of SINEs from cichlids in Lak...

journal_title：Molecular biology and evolution

authors： Takahashi K,Terai Y,Nishida M,Okada N

更新日期：1998-04-01 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：: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 acquisition of photosynthesis by eukaryotic cells through enslavement of a cyanobacterium represents one of the most remarkable turning points in the history of life on Earth. In addition to endosymbiotic gene transfer, the acquisition of a protein import apparatus and the coordination of gene expression between h...

journal_title：Molecular biology and evolution

authors： Colleoni C,Linka M,Deschamps P,Handford MG,Dupree P,Weber AP,Ball SG

更新日期：2010-12-01 00:00:00

abstract：:The Environment for Tree Exploration (ETE) is a computational framework that simplifies the reconstruction, analysis, and visualization of phylogenetic trees and multiple sequence alignments. Here, we present ETE v3, featuring numerous improvements in the underlying library of methods, and providing a novel set of sta...

journal_title：Molecular biology and evolution

authors： Huerta-Cepas J,Serra F,Bork P

更新日期：2016-06-01 00:00:00

abstract：:Studies of cichlid evolution have highlighted the importance of visual pigment genes in the spectacular radiation of the African rift lake cichlids. Recent work, however, has also provided strong evidence for adaptive diversification of riverine cichlids in the Neotropics, which inhabit environments of markedly differ...

journal_title：Molecular biology and evolution

authors： Schott RK,Refvik SP,Hauser FE,López-Fernández H,Chang BS

更新日期：2014-05-01 00:00:00

abstract：:We describe a stochastic birth-and-death model of evolution of horizontally transferred genes in microbial populations. The model is a generalization of the stochastic model described by Berg and Kurland and includes five parameters: the rate of mutational inactivation, selection coefficient, invasion rate (i.e., rate...

journal_title：Molecular biology and evolution

authors： Novozhilov AS,Karev GP,Koonin EV

更新日期：2005-08-01 00:00:00

abstract：:Whole genome duplications (WGDs) have been hypothesized to be responsible for major transitions in evolution. However, the effects of WGD and subsequent gene loss on cellular behavior and metabolism are still poorly understood. Here we develop a genome scale evolutionary model to study the dynamics of gene loss and me...

journal_title：Molecular biology and evolution

authors： van Hoek MJ,Hogeweg P

更新日期：2009-11-01 00:00:00

abstract：:Endogenous retroviruses provide molecular fossils for studying the ancient evolutionary history of retroviruses. Here, we report our independent discovery and analysis of endogenous lentiviral insertions (Mustelidae endogenous lentivirus [MELV]) within the genomes of weasel family (Mustelidae). Genome-scale screening ...

journal_title：Molecular biology and evolution

authors： Han GZ,Worobey M

更新日期：2012-10-01 00:00:00

abstract：:The Sm family of proteins is closely associated with RNA metabolism throughout all life. These proteins form homomorphic and heteromorphic rings consisting of six or seven subunits with a characteristic central pore, the presence of which is critical for binding U-rich regions of single-stranded RNA. Eubacteria and Ar...

journal_title：Molecular biology and evolution

authors： Scofield DG,Lynch M

更新日期：2008-11-01 00:00:00

abstract：:Recent studies of mitochondrial DNA (mtDNA) variation in mammals and Drosophila have shown an excess of amino acid variation within species (replacement polymorphism) relative to the number of silent and replacement differences fixed between species. To examine further this pattern of nonneutral mtDNA evolution, we pr...

journal_title：Molecular biology and evolution

authors： Rand DM,Kann LM

更新日期：1996-07-01 00:00:00

abstract：:We present Neighbor-Net, a distance based method for constructing phylogenetic networks that is based on the Neighbor-Joining (NJ) algorithm of Saitou and Nei. Neighbor-Net provides a snapshot of the data that can guide more detailed analysis. Unlike split decomposition, Neighbor-Net scales well and can quickly produc...

journal_title：Molecular biology and evolution

authors： Bryant D,Moulton V

更新日期：2004-02-01 00:00:00

abstract：:Hantaviruses are considered one of the best examples of a long-term association between RNA viruses and their hosts. Based on the appearance of strong host specificity, it has been suggested that hantaviruses cospeciated with the rodents and insectivores they infect since these mammals last shared a common ancestor, a...

journal_title：Molecular biology and evolution

authors： Ramsden C,Holmes EC,Charleston MA

更新日期：2009-01-01 00:00:00

abstract：:Nonsense-mediated decay (NMD) pathways for detection and degradation of transcripts containing premature termination (stop) codons (PTCs) are ubiquitous among the eukaryotes. NMD uses the presence of a second signal downstream of a termination codon to distinguish a PTC from a true stop codon. In mammals and perhaps o...

journal_title：Molecular biology and evolution

authors： Scofield DG,Hong X,Lynch M

更新日期：2007-04-01 00:00:00

abstract：:Heterotachy is a general term to describe positions that evolve at different rates in different lineages. Heterotachy also can generally be viewed as multivariate rates-across-sites variation, which can be described as randomly drawing rates (or branch lengths) from a multivariate distribution for each branch at each ...

journal_title：Molecular biology and evolution

authors： Wu J,Susko E

更新日期：2011-05-01 00:00:00

abstract：:The robustness (sensitivity to violation of assumptions) of the maximum-likelihood and neighbor-joining methods was examined using simulation. Maximum likelihood and neighbor joining were implemented with Jukes-Cantor, Kimura, and gamma models of DNA substitution. Simulations were performed in which the assumptions of...

journal_title：Molecular biology and evolution

authors： Huelsenbeck JP

更新日期：1995-09-01 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：:Phylogenetic analyses of closely related species should use information from multiple, independent genes with relatively high rates of sequence evolution. To investigate species for which there are few prior sequence data for single-copy nuclear (scnDNA) genes, primers for gene amplification can be designed to highly ...

journal_title：Molecular biology and evolution

authors： Slade RW,Moritz C,Heideman A

更新日期：1994-05-01 00:00:00

abstract：:We present the first molecular phylogenetic examination of the evolutionary position of retortamonads, a group of mitochondrion-lacking flagellates usually found as commensals of the intestinal tracts of vertebrates. Our phylogenies include small subunit ribosomal gene sequences from six retortamonad isolates-four fro...

journal_title：Molecular biology and evolution

authors： Silberman JD,Simpson AG,Kulda J,Cepicka I,Hampl V,Johnson PJ,Roger AJ

更新日期：2002-05-01 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

abstract：:With the desire to model population genetic processes under increasingly realistic scenarios, forward genetic simulations have become a critical part of the toolbox of modern evolutionary biology. The SLiM forward genetic simulation framework is one of the most powerful and widely used tools in this area. However, its...

journal_title：Molecular biology and evolution

authors： Haller BC,Messer PW

更新日期：2019-03-01 00:00:00

abstract：:During the last 60 years, the inversion polymorphism on the third chromosome of Drosophila pseudoobscura has become a case study of the evolution of linked blocks of genes, isolated from each other by the suppression of recombination in heterozygotes for different inversions. Due to its location within inverted region...

journal_title：Molecular biology and evolution

authors： Popadić A,Popadić D,Anderson WW

更新日期：1995-09-01 00:00:00

abstract：:Disturbances in the schedules of gene expression in developing interspecific fish hybrids have been used to draw inferences about the extent of gene regulatory divergence between species and about the degree to which this gene regulatory divergence is correlated with structural gene divergence, as estimated by genetic...

journal_title：Molecular biology and evolution

authors： Parker HR,Philipp DP,Whitt GS

更新日期：1985-05-01 00:00:00