Candidate targets of balancing selection in the genome of Staphylococcus aureus.

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：:CpG and TpA dinucleotides are underrepresented in the human genome. The CpG deficiency is due to the high mutation rate from C to T in methylated CpG's. The TpA suppression was thought to reflect a counterselection against TpA's destabilizing effect in RNA. Unexpectedly, the TpA and CpG deficiencies vary according to ...

journal_title：Molecular biology and evolution

authors： Duret L,Galtier N

更新日期：2000-11-01 00:00:00

abstract：:Over time, natural selection molds every gene into a unique mosaic of sites evolving rapidly or resisting change-an "evolutionary fingerprint" of the gene. Aspects of this evolutionary fingerprint, such as the site-specific ratio of nonsynonymous to synonymous substitution rates (dN/dS), are commonly used to identify ...

journal_title：Molecular biology and evolution

authors： Pond SL,Scheffler K,Gravenor MB,Poon AF,Frost SD

更新日期：2010-03-01 00:00:00

abstract：:Mitochondrial ribosomes (mitoribosomes) are essential components of all mitochondria that synthesize proteins encoded by the mitochondrial genome. Unlike other ribosomes, mitoribosomes are highly variable across species. The basis for this diversity is not known. Here, we examine the composition and evolutionary histo...

journal_title：Molecular biology and evolution

authors： Petrov AS,Wood EC,Bernier CR,Norris AM,Brown A,Amunts A

更新日期：2019-02-01 00:00:00

abstract：:A phylogenetic analysis of sex-chromosomal zinc-finger genes (Zfx and Zfy) indicates that the genes have not evolved completely independently since their initial separation. The sequence similarities suggest gene conversion in the last exon between the duplicated Y-chromosomal genes Zfy-1 and Zfy-2 in the mouse. There...

journal_title：Molecular biology and evolution

authors： Pamilo P,Bianchi NO

更新日期：1993-03-01 00:00:00

abstract：:In primates, the craniofacial skeleton and the dentition are marked by high levels of interspecific variation. Despite this, there are few comparative species studies conducted at the molecular level to investigate this functional diversity. We have determined nucleotide sequences of MSX1 and PAX9, two developmental g...

journal_title：Molecular biology and evolution

authors： Perry GH,Verrelli BC,Stone AC

更新日期：2006-03-01 00:00:00

abstract：:Hybridization and polyploidization are important evolutionary processes whose impacts range from the alteration of gene expression and phenotypic variation to the triggering of asexual reproduction. We investigated fishes of the Cobitis taenia-elongatoides hybrid complex, which allowed us to disentangle the direct eff...

journal_title：Molecular biology and evolution

authors： Bartoš O,Röslein J,Kotusz J,Paces J,Pekárik L,Petrtýl M,Halačka K,Štefková Kašparová E,Mendel J,Boroń A,Juchno D,Leska A,Jablonska O,Benes V,Šídová M,Janko K

更新日期：2019-09-01 00:00:00

abstract：:Molecular evolutionary rates within two protistan and three metazoan taxa were estimated using divergence times derived from fossil records. The results indicate that the small-subunit rRNA sequences within Dasycladales (Chlorophyta) and Bacillariophyceae evolved at a rate approximately two to three times faster than ...

journal_title：Molecular biology and evolution

authors： Sorhannus U

更新日期：1996-09-01 00:00:00

abstract：:Cytochrome c oxidase (COX) consists of 13 subunits, 3 encoded in the mitochondrial genome and 10 in the nucleus. Little is known of the role of the nuclear-encoded subunits, some of which exhibit tissue-specific isoforms. Subunit VIa is unique in having tissue-specific isoforms in all mammalian species examined. We ex...

journal_title：Molecular biology and evolution

authors： Schmidt TR,Jaradat SA,Goodman M,Lomax MI,Grossman LI

更新日期：1997-06-01 00:00:00

abstract：:The SLiM forward genetic simulation framework has proved to be a powerful and flexible tool for population genetic modeling. However, as a complex piece of software with many features that allow simulating a diverse assortment of evolutionary models, its initial learning curve can be difficult. Here we provide a step-...

journal_title：Molecular biology and evolution

authors： Haller BC,Messer PW

更新日期：2019-05-01 00:00:00

abstract：:Evolutionary parsimony is an easy-to-use method of phylogenetic inference that is based on nucleic acid sequences and that does not require the assumption that evolutionary processes in the various sites on the molecule are identical. It does, however, require a parameter constraint, known as the "balanced transversio...

journal_title：Molecular biology and evolution

authors： Navidi WC,Beckett-Lemus L

更新日期：1992-11-01 00:00:00

abstract：:Bacterial populations have been shown to accumulate deleterious mutations during spatial expansions that overall decrease their fitness and ability to grow. However, it is unclear if and how they can respond to selection in face of this mutation load. We examine here if artificial selection can counteract the negative...

journal_title：Molecular biology and evolution

authors： Bosshard L,Peischl S,Ackermann M,Excoffier L

更新日期：2019-10-01 00:00:00

abstract：:High-affinity antibodies arise within weeks of infection from the evolution of B-cell receptors under selection to improve antigen recognition. This rapid adaptation is enabled by the distribution of highly mutable "hotspot" motifs in B-cell receptor genes. High mutability in antigen-binding regions (complementarity d...

journal_title：Molecular biology and evolution

authors： Vieira MC,Zinder D,Cobey S

更新日期：2018-05-01 00:00:00

abstract：:Multipartite genomes, containing at least two large replicons, are found in diverse bacteria; however, the advantage of this genome structure remains incompletely understood. Here, we perform comparative genomics of hundreds of finished β-proteobacterial genomes to gain insights into the role and emergence of multipar...

journal_title：Molecular biology and evolution

authors： diCenzo GC,Mengoni A,Perrin E

更新日期：2019-03-01 00:00:00

abstract：:This paper discusses the optimization principle in phylogenetic analysis, in the case of distance data. We argue that the use of this principle cannot be called into question, except for computing time reasons. We show that the minimum-evolution criterion is not perfectly suited for distance data estimated from sequen...

journal_title：Molecular biology and evolution

authors： Gascuel O

更新日期：2000-03-01 00:00:00

abstract：:Models of codon evolution have attracted particular interest because of their unique capabilities to detect selection forces and their high fit when applied to sequence evolution. We described here a novel approach for modeling codon evolution, which is based on Kronecker product of matrices. The 61 × 61 codon substit...

journal_title：Molecular biology and evolution

authors： Zaheri M,Dib L,Salamin N

更新日期：2014-09-01 00:00:00

abstract：:We tested the idea that ancestral class I and II aminoacyl-tRNA synthetases arose on opposite strands of the same gene. We assembled excerpted 94-residue Urgenes for class I tryptophanyl-tRNA synthetase (TrpRS) and class II Histidyl-tRNA synthetase (HisRS) from a diverse group of species, by identifying and catenating...

journal_title：Molecular biology and evolution

authors： Chandrasekaran SN,Yardimci GG,Erdogan O,Roach J,Carter CW Jr

更新日期：2013-07-01 00:00:00

abstract：:Diverging from the classic paradigm of random gene order in eukaryotes, gene proximity can be leveraged to systematically identify functionally related gene neighborhoods in eukaryotes, utilizing techniques pioneered in bacteria. Current methods of identifying gene neighborhoods typically rely on sequence similarity t...

journal_title：Molecular biology and evolution

authors： Foflonker F,Blaby-Haas CE

更新日期：2021-01-23 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 complete nucleotide sequence of the mt (mitochondrial) and cp (chloroplast) genomes of the unicellular green alga Ostreococcus tauri has been determined. The mt genome assembles as a circle of 44,237 bp and contains 65 genes. With an overall average length of only 42 bp for the intergenic regions, this is the most...

journal_title：Molecular biology and evolution

authors： Robbens S,Derelle E,Ferraz C,Wuyts J,Moreau H,Van de Peer Y

更新日期：2007-04-01 00:00:00

abstract：:The complete mitochondrial DNA (mtDNA) control region was sequenced for 71 individuals from five species of the rodent genus Clethrionomys both to understand patterns of variation and to explore the existence of previously described domains and other elements. Among species, the control region ranged from 942 to 971 b...

journal_title：Molecular biology and evolution

authors： Matson CW,Baker RJ

更新日期：2001-08-01 00:00:00

abstract：:Insertions and deletions (indels) in protein-coding genes are important sources of genetic variation. Their role in creating new proteins may be especially important after gene duplication. However, little is known about how indels affect the divergence of duplicate genes. We here study thousands of duplicate genes in...

journal_title：Molecular biology and evolution

authors： Guo B,Zou M,Wagner A

更新日期：2012-10-01 00:00:00

abstract：:Porcine reproductive and respiratory syndrome virus (PRRSV) recently emerged in domestic pigs of Western Europe and North America. Although time of emergence was identical on the two continents, genetic composition was markedly different with a clear geographical subtype structure, indicating that subtypes diverged in...

journal_title：Molecular biology and evolution

authors： Forsberg R

更新日期：2005-11-01 00:00:00

abstract：:The relative efficiencies of the maximum parsimony (MP) and distance-matrix methods in obtaining the correct tree (topology) were studied by using computer simulation. The distance-matrix methods examined are the neighbor-joining, distance-Wagner, Tateno et al. modified Farris, Faith, and Li methods. In the computer s...

journal_title：Molecular biology and evolution

authors： Sourdis J,Nei M

更新日期：1988-05-01 00:00:00

abstract：:We report the genomic organization and deduced protein sequence of a cephalochordate member of the Otx homeobox gene family (AmphiOtx) and show its probable single-copy state in the genome. We also present molecular phylogenetic analysis indicating that there was single ancestral Otx gene in the first chordates which ...

journal_title：Molecular biology and evolution

authors： Williams NA,Holland PW

更新日期：1998-05-01 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：:Deciphering invasion routes from molecular data is crucial to understanding biological invasions, including identifying bottlenecks in population size and admixture among distinct populations. Here, we unravel the invasion routes of the invasive pest Drosophila suzukii using a multi-locus microsatellite dataset (25 lo...

journal_title：Molecular biology and evolution

authors： Fraimout A,Debat V,Fellous S,Hufbauer RA,Foucaud J,Pudlo P,Marin JM,Price DK,Cattel J,Chen X,Deprá M,François Duyck P,Guedot C,Kenis M,Kimura MT,Loeb G,Loiseau A,Martinez-Sañudo I,Pascual M,Polihronakis Richmond M,

更新日期：2017-04-01 00:00:00

abstract：:Taxonomic congruence and total evidence are competing paradigms in phylogenetic inference. Taxonomic congruence focuses on deriving a consensus from the results obtained from separately analyzed data sets, whereas total evidence uses character congruence in the search for the best-fitting hypothesis for all of the ava...

journal_title：Molecular biology and evolution

authors： Eernisse DJ,Kluge AG

更新日期：1993-11-01 00:00:00

abstract：:MicroRNA (miRNA) sponges are vital components of posttranscriptional gene regulation. Yet, only a limited number of miRNA sponges have been identified. Here, we show that the recently evolved noncoding tumor suppressor transcript, antisense RNA to TP73 gene (TP73-AS1), functions as a natural sponge of human-specific m...

journal_title：Molecular biology and evolution

authors： Hu H,Liu JM,Hu Z,Jiang X,Yang X,Li J,Zhang Y,Yu H,Khaitovich P

更新日期：2018-05-01 00:00:00

abstract：:Phenotypic plasticity results in a diversity of phenotypes from a single genotype in response to environmental cues. To understand the molecular basis of phenotypic plasticity, studies have focused on differential gene expression levels between environmentally determined phenotypes. The extent of alternative splicing ...

journal_title：Molecular biology and evolution

authors： Grantham ME,Brisson JA

更新日期：2018-08-01 00:00:00