Deciphering the Wisent Demographic and Adaptive Histories from Individual Whole-Genome Sequences.

abstract：:The emergence of islands has been linked to spectacular radiations of diverse organisms. Although penguins spend much of their lives at sea, they rely on land for nesting, and a high proportion of extant species are endemic to geologically young islands. Islands may thus have been crucial to the evolutionary diversifi...

journal_title：Molecular biology and evolution

authors： Cole TL,Ksepka DT,Mitchell KJ,Tennyson AJD,Thomas DB,Pan H,Zhang G,Rawlence NJ,Wood JR,Bover P,Bouzat JL,Cooper A,Fiddaman SR,Hart T,Miller G,Ryan PG,Shepherd LD,Wilmshurst JM,Waters JM

更新日期：2019-04-01 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：:Forty-six strains derived from American and French natural populations of Drosophila melanogaster were tested for the presence and activity of hobo elements by using Southern blotting and a gonadal dysgenesis assay. The oldest available strains exhibited weak detectable hybridization to the hobo-element probe and reve...

journal_title：Molecular biology and evolution

authors： Pascual L,Periquet G

更新日期：1991-05-01 00:00:00

abstract：:Partial and complete genome duplications occurred during evolution and resulted in the creation of new genes and gene families. We identified a novel and intricate human gene family located primarily in regions of segmental duplications on human chromosome 1. We named it NBPF, for neuroblastoma breakpoint family, beca...

journal_title：Molecular biology and evolution

authors： Vandepoele K,Van Roy N,Staes K,Speleman F,van Roy F

更新日期：2005-11-01 00:00:00

abstract：:Parentally biased expression of transcripts (genomic imprinting) in adult tissues, including the brain, can influence and possibly drive the evolution of behavioral traits. We have previously found that paternally determined cues are involved in population-specific mate choice decisions between two populations of the ...

journal_title：Molecular biology and evolution

authors： Lorenc A,Linnenbrink M,Montero I,Schilhabel MB,Tautz D

更新日期：2014-12-01 00:00:00

abstract：:A more than 10-fold difference in the specificity and catalytic efficiency for 1-naphthyl esters was measured between two allozymes of esterase-4 from Drosophila mojavensis. This difference is mainly caused by a difference in the affinity for the 1-naphthyl esters. The amino acid compositions of the allozymes are not ...

journal_title：Molecular biology and evolution

authors： Pen J,Schipper A,Rongen HA,Beintema JJ

更新日期：1986-07-01 00:00:00

abstract：:The protein tyrosine phosphatase (PTP) family plays a central role in signal transduction pathways by controlling the phosphorylation state of serine, threonine, and tyrosine residues. PTPs can be divided into dual specificity phosphatases and the classical PTPs, which can comprise of one or two phosphatase domains. W...

journal_title：Molecular biology and evolution

authors： Pils B,Schultz J

更新日期：2004-04-01 00:00:00

abstract：:An attempt to use phylogenetic invariants for tree reconstruction was made at the end of the 80s and the beginning of the 90s by several researchers (the initial idea due to Lake [1987] and Cavender and Felsenstein [1987]). However, the efficiency of methods based on invariants is still in doubt (Huelsenbeck 1995; Jin...

journal_title：Molecular biology and evolution

authors： Casanellas M,Fernández-Sánchez J

更新日期：2007-01-01 00:00:00

abstract：:Database searches of the Caenorhabditis elegans and human genomic DNA sequences revealed genes encoding ribonuclease H1 (RNase H1) and RNase H2 in each genome. The human genome contains a single copy of each gene, whereas C. elegans has four genes encoding RNase H1-related proteins and one gene for RNase H2. By analyz...

journal_title：Molecular biology and evolution

authors： Arudchandran A,Cerritelli SM,Bowen NJ,Chen X,Krause MW,Crouch RJ

更新日期：2002-11-01 00:00:00

abstract：:Here, a model allowing covarion-like evolution of DNA sequences is introduced. In contrast to standard representation of the distribution of evolutionary rates, this model allows the site-specific rate to vary between lineages. This is achieved by adding as few as two parameters to the widely used among-site rate vari...

journal_title：Molecular biology and evolution

authors： Galtier N

更新日期：2001-05-01 00:00:00

abstract：:The capacity to biomineralize is closely linked to the rapid expansion of animal life during the early Cambrian, with many skeletonized phyla first appearing in the fossil record at this time. The appearance of disparate molluscan forms during this period leaves open the possibility that shells evolved independently a...

journal_title：Molecular biology and evolution

authors： Jackson DJ,McDougall C,Woodcroft B,Moase P,Rose RA,Kube M,Reinhardt R,Rokhsar DS,Montagnani C,Joubert C,Piquemal D,Degnan BM

更新日期：2010-03-01 00:00:00

abstract：:The level of DNA polymorphism in the ancestral species at the time of speciation can be estimated using DNA sequences from many loci sampled from 2 or more extant species. The comparison between ancestral and extant polymorphism can be informative about the population genetics of speciation. In this study, we collecte...

journal_title：Molecular biology and evolution

authors： Zhou R,Zeng K,Wu W,Chen X,Yang Z,Shi S,Wu CI

更新日期：2007-12-01 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：: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：:Although many phylogenetic studies have focused on developing hypotheses about relationships, advances in data collection and computation have increased the feasibility of collecting large independent data sets to rigorously test controversial hypotheses or carefully assess artifacts that may be misleading. One such r...

journal_title：Molecular biology and evolution

authors： Wang N,Braun EL,Kimball RT

更新日期：2012-02-01 00:00:00

abstract：:That natural selection affects molecular evolution at synonymous sites in protein-coding sequences is well established and is thought to predominantly reflect selection for translational efficiency/accuracy mediated through codon bias. However, a recently developed maximum likelihood framework, when applied to 18 codi...

journal_title：Molecular biology and evolution

authors： Singh ND,Bauer DuMont VL,Hubisz MJ,Nielsen R,Aquadro CF

更新日期：2007-12-01 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：:The marine cyanobacterium Prochlorococcus MED4 has the smallest sequenced genome of any photosynthetic organism. Prochlorococcus MED4 shares many genomic characteristics with chloroplasts and bacterial endosymbionts, including a reduced coding capacity, missing DNA repair genes, a minimal transcriptional regulatory ne...

journal_title：Molecular biology and evolution

authors： Hu J,Blanchard JL

更新日期：2009-01-01 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：:Proof of authenticity is the greatest challenge in palaeogenetic research, and many safeguards have become standard routine in laboratories specialized on ancient DNA research. Here we describe an as-yet unknown source of artifacts that will require special attention in the future. We show that ancient DNA extracts on...

journal_title：Molecular biology and evolution

authors： Pusch CM,Bachmann L

更新日期：2004-05-01 00:00:00

abstract：:Standard methods of phylogenetic reconstruction are based on models that assume homogeneity of nucleotide composition among taxa. However, this assumption is often violated in biological data sets. In this study, we examine possible effects of nucleotide heterogeneity among lineages on the phylogenetic reconstruction ...

journal_title：Molecular biology and evolution

authors： Herbeck JT,Degnan PH,Wernegreen JJ

更新日期：2005-03-01 00:00:00

abstract：:The T1 family of retrotransposable elements is interspersed and moderately repeated in five member species of the Anopheles gambiae sibling-species complex and has diverged little since the radiation of the complex. T1 includes two closely related but independent subfamilies, defined by the presence or absence of link...

journal_title：Molecular biology and evolution

authors： Besansky NJ

更新日期：1990-05-01 00:00:00

abstract：:To explore the origin of the diversity observed in natural populations, many studies have investigated the relationship between genotype and phenotype. In yeast species, especially in Saccharomyces cerevisiae, these studies are mainly conducted using recombinant offspring derived from two genetically diverse isolates,...

journal_title：Molecular biology and evolution

authors： Brion C,Caradec C,Pflieger D,Friedrich A,Schacherer J

更新日期：2020-09-01 00:00:00

abstract：:The RIIIS/J inbred mouse strain is a model for type 1 von Willebrand disease (VWD), a common human bleeding disorder. Low von Willebrand factor (VWF) levels in RIIIS/J are due to a regulatory mutation, Mvwf1, which directs a tissue-specific switch in expression of a glycosyltransferase, B4GALNT2, from intestine to blo...

journal_title：Molecular biology and evolution

authors： Johnsen JM,Teschke M,Pavlidis P,McGee BM,Tautz D,Ginsburg D,Baines JF

更新日期：2009-03-01 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：:Hybrid males resulting from crosses between closely related species of Drosophila are sterile. The F1 hybrid sterility phenotype is mainly due to defects occurring during late stages of development that relate to sperm individualization, and so genes controlling sperm development may have been subjected to selective d...

journal_title：Molecular biology and evolution

authors： Civetta A,Rajakumar SA,Brouwers B,Bacik JP

更新日期：2006-03-01 00:00:00

abstract：:Most mitochondrial proteins are synthesized in the cytosol of eukaryotic cells as precursor proteins carrying N-terminal extensions called transit peptides or presequences, which mediate their specific transport into mitochondria. However, plant cells possess a second potential target organelle for such transit peptid...

journal_title：Molecular biology and evolution

authors： Staiger C,Hinneburg A,Klösgen RB

更新日期：2009-08-01 00:00:00

abstract：:Variation at the FADS1/FADS2 gene cluster is functionally associated with differences in lipid metabolism and is often hypothesized to reflect adaptation to an agricultural diet. Here, we test the evidence for this relationship using both modern and ancient DNA data. We show that almost all the inhabitants of Europe c...

journal_title：Molecular biology and evolution

authors： Mathieson S,Mathieson I

更新日期：2018-12-01 00:00:00

abstract：:In a series of highly influential publications, Cavalli-Sforza and colleagues used principal component (PC) analysis to produce maps depicting how human genetic diversity varies across geographic space. Within Europe, the first axis of variation (PC1) was interpreted as evidence for the demic diffusion model of agricu...

journal_title：Molecular biology and evolution

authors： François O,Currat M,Ray N,Han E,Excoffier L,Novembre J

更新日期：2010-06-01 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