Gene duplication and environmental adaptation within yeast populations.

abstract：:All living organisms require protein degradation to terminate biological processes and remove damaged proteins. One such machine is the 20S proteasome, a specialized barrel-shaped and compartmentalized multicatalytic protease. The activity of the 20S proteasome generally requires the binding of regulators/proteasome a...

journal_title：Genome biology and evolution

authors： Fort P,Kajava AV,Delsuc F,Coux O

更新日期：2015-05-04 00:00:00

abstract：:Although pooled-population sequencing has become a widely used approach for estimating allele frequencies, most work has proceeded in the absence of a proper statistical framework. We introduce a self-sufficient, closed-form, maximum-likelihood estimator for allele frequencies that accounts for errors associated with ...

journal_title：Genome biology and evolution

authors： Lynch M,Bost D,Wilson S,Maruki T,Harrison S

更新日期：2014-04-30 00:00:00

abstract：:Klebsiella pneumoniae clonal group (CG) 258, comprising sequence types (STs) 258, 11, and closely related variants, is associated with dissemination of the K. pneumoniae carbapenemase (KPC). Hospital outbreaks of KPC CG258 infections have been observed globally and are very difficult to treat. As a consequence, there ...

journal_title：Genome biology and evolution

authors： Wyres KL,Gorrie C,Edwards DJ,Wertheim HF,Hsu LY,Van Kinh N,Zadoks R,Baker S,Holt KE

更新日期：2015-04-10 00:00:00

abstract：:Animals interact with a diverse array of both beneficial and detrimental microorganisms. In insects, these symbioses in many cases allow feeding on nutritionally unbalanced diets. It is, however, still not clear how are obligate symbioses maintained at the cellular level for up to several hundred million years. Exact ...

journal_title：Genome biology and evolution

authors： Husnik F,Hypsa V,Darby A

更新日期：2020-04-01 00:00:00

abstract：:Dinoflagellates are a group of unicellular protists with immense ecological and evolutionary significance and cell biological diversity. Of the photosynthetic dinoflagellates, the majority possess a plastid containing the pigment peridinin, whereas some lineages have replaced this plastid by serial endosymbiosis with ...

journal_title：Genome biology and evolution

authors： Klinger CM,Paoli L,Newby RJ,Wang MY,Carroll HD,Leblond JD,Howe CJ,Dacks JB,Bowler C,Cahoon AB,Dorrell RG,Richardson E

更新日期：2018-04-01 00:00:00

abstract：:The question on the patterns and limits of reduction of plastid genomes in nonphotosynthetic plants and the reasons of their conservation is one of the intriguing topics in plant genome evolution. Here, we report sequencing and analysis of plastid genome in nonphotosynthetic orchids Epipogium aphyllum and Epipogium ro...

journal_title：Genome biology and evolution

authors： Schelkunov MI,Shtratnikova VY,Nuraliev MS,Selosse MA,Penin AA,Logacheva MD

更新日期：2015-01-28 00:00:00

abstract：:The genome sequences of the plastid and mitochondrion of white spruce (Picea glauca) were assembled from whole-genome shotgun sequencing data using ABySS. The sequencing data contained reads from both the nuclear and organellar genomes, and reads of the organellar genomes were abundant in the data as each cell harbors...

journal_title：Genome biology and evolution

authors： Jackman SD,Warren RL,Gibb EA,Vandervalk BP,Mohamadi H,Chu J,Raymond A,Pleasance S,Coope R,Wildung MR,Ritland CE,Bousquet J,Jones SJ,Bohlmann J,Birol I

更新日期：2015-12-08 00:00:00

abstract：:Plastid genomes are an invaluable resource for plant biological studies. However, the number of completely sequenced plant plastid genomes is still small compared with the vast number of species. To provide an alternative generalized approach, we designed a set of 138 pairs of universal primers for amplifying (termed ...

journal_title：Genome biology and evolution

authors： Dong W,Xu C,Cheng T,Lin K,Zhou S

更新日期：2013-01-01 00:00:00

abstract：:It has been estimated that the sister plant pathogenic fungal species Heterobasidion irregulare and Heterobasidion annosum may have been allopatrically isolated for 34-41 Myr. They are now sympatric due to the introduction of the first species from North America into Italy, where they freely hybridize. We used a compa...

journal_title：Genome biology and evolution

authors： Sillo F,Garbelotto M,Friedman M,Gonthier P

更新日期：2015-11-01 00:00:00

abstract：:The ability to obtain genome-wide sequences of very large numbers of individuals from natural populations raises questions about optimal sampling designs and the limits to extracting information on key population-genetic parameters from temporal-survey data. Methods are introduced for evaluating whether observed tempo...

journal_title：Genome biology and evolution

authors： Lynch M,Ho WC

更新日期：2020-04-01 00:00:00

abstract：:Evolutionary retention of duplicated genes encoding transcription-associated proteins (TAPs, comprising transcription factors and other transcriptional regulators) has been hypothesized to be positively correlated with increasing morphological complexity and paleopolyploidizations, especially within the plant kingdom....

journal_title：Genome biology and evolution

authors： Lang D,Weiche B,Timmerhaus G,Richardt S,Riaño-Pachón DM,Corrêa LG,Reski R,Mueller-Roeber B,Rensing SA

更新日期：2010-07-19 00:00:00

abstract：:The mechanistic basis of regulatory variation and the prevailing evolutionary forces shaping that variation are known to differ between sexes and between chromosomes. Regulatory variation of gene expression can be due to functional changes within a gene itself (cis) or in other genes elsewhere in the genome (trans). T...

journal_title：Genome biology and evolution

authors： Graze RM,McIntyre LM,Morse AM,Boyd BM,Nuzhdin SV,Wayne ML

更新日期：2014-04-01 00:00:00

abstract：:Pathogens and hosts are in an ongoing arms race and genes involved in host-pathogen interactions are likely to undergo diversifying selection. Fusarium plant pathogens have evolved diverse infection strategies, but how they interact with their hosts in the biotrophic infection stage remains puzzling. To address this, ...

journal_title：Genome biology and evolution

authors： Sperschneider J,Gardiner DM,Thatcher LF,Lyons R,Singh KB,Manners JM,Taylor JM

更新日期：2015-05-19 00:00:00

abstract：:Prokaryote genomes are the result of a dynamic flux of genes, with increases achieved via horizontal gene transfer and reductions occurring through gene loss. The ecological and selective forces that drive this genomic flexibility vary across species. Bacillus subtilis is a naturally competent bacterium that occupies ...

journal_title：Genome biology and evolution

authors： Brito PH,Chevreux B,Serra CR,Schyns G,Henriques AO,Pereira-Leal JB

更新日期：2018-01-01 00:00:00

abstract：:The selective pressures acting on viruses that replicate under enhanced mutation rates are largely unknown. Here, we describe resistance of foot-and-mouth disease virus to the mutagen 5-fluorouracil (FU) through a single polymerase substitution that prevents an excess of A to G and U to C transitions evoked by FU on t...

journal_title：Genome biology and evolution

authors： de la Higuera I,Ferrer-Orta C,de Ávila AI,Perales C,Sierra M,Singh K,Sarafianos SG,Dehouck Y,Bastolla U,Verdaguer N,Domingo E

更新日期：2017-05-01 00:00:00

abstract：:Aphids are a diverse group of taxa that contain agronomically important species, which vary in their host range and ability to infest crop plants. The genome evolution underlying agriculturally important aphid traits is not well understood. We generated draft genome assemblies for two aphid species: Myzus cerasi (blac...

journal_title：Genome biology and evolution

authors： Thorpe P,Escudero-Martinez CM,Cock PJA,Eves-van den Akker S,Bos JIB

更新日期：2018-10-01 00:00:00

abstract：:Influenza virus inflicts a heavy death toll annually and resistance to existing antiviral drugs has generated interest in the development of agents with novel mechanisms of action. Favipiravir is an antiviral drug that acts by increasing the genome-wide mutation rate of influenza A virus (IAV). Potential synergistic b...

journal_title：Genome biology and evolution

authors： Ormond L,Liu P,Matuszewski S,Renzette N,Bank C,Zeldovich K,Bolon DN,Kowalik TF,Finberg RW,Jensen JD,Wang JP

更新日期：2017-07-01 00:00:00

abstract：:Great genetic variability among teleost immunomes, with gene losses and expansions of central adaptive and innate components, has been discovered through genome sequencing over the last few years. Here, we demonstrate that the innate Myxovirus resistance gene (Mx) is lost from the ancestor of Gadiformes and the closel...

journal_title：Genome biology and evolution

authors： Solbakken MH,Rise ML,Jakobsen KS,Jentoft S

更新日期：2016-12-31 00:00:00

abstract：:Rapid divergence of gene copies after duplication is thought to determine the fate of the copies and evolution of novel protein functions. However, data on how long the gene copies continue to experience an elevated rate of evolution remain scarce. Standard theory of gene duplications based on some level of genetic re...

journal_title：Genome biology and evolution

authors： Pich I Roselló O,Kondrashov FA

更新日期：2014-07-28 00:00:00

abstract：:The colonization of novel environments often involves changes in gene expression, protein coding sequence, or both. Studies of how populations adapt to novel conditions, however, often focus on only one of these two processes, potentially missing out on the relative importance of different parts of the evolutionary pr...

journal_title：Genome biology and evolution

authors： Brown AP,Arias-Rodriguez L,Yee MC,Tobler M,Kelley JL

更新日期：2018-11-01 00:00:00

abstract：:One of the striking features of many eukaryotes is the apparent amount of redundancy in coding and non-coding elements of their genomes. Despite the possible evolutionary advantages, there are fewer examples of redundant sequences in viral genomes, particularly those with RNA genomes. The factors constraining the main...

journal_title：Genome biology and evolution

authors： Willemsen A,Zwart MP,Higueras P,Sardanyés J,Elena SF

更新日期：2016-10-12 00:00:00

abstract：:Gene duplications and novel genes have been shown to play a major role in helminth adaptation to a parasitic lifestyle because they provide the novelty necessary for adaptation to a changing environment, such as living in multiple hosts. Here we present the de novo sequenced and annotated genome of the parasitic trema...

journal_title：Genome biology and evolution

authors： Zajac N,Zoller S,Seppälä K,Moi D,Dessimoz C,Jokela J,Hartikainen H,Glover N

更新日期：2021-01-23 00:00:00

abstract：:Polyadenylation is a step of mRNA processing which is crucial for its expression and stability. The major polyadenylation signal (PAS) represents a nucleotide hexamer that adheres to the AATAAA consensus sequence. Over a half of human genes have multiple cleavage and polyadenylation sites, resulting in a great diversi...

journal_title：Genome biology and evolution

authors： Kainov YA,Aushev VN,Naumenko SA,Tchevkina EM,Bazykin GA

更新日期：2016-07-02 00:00:00

abstract：:All vertically transmitted bacterial symbionts undergo a process of genome reduction over time, resulting in tiny, gene-dense genomes. Comparison of genomes of ancient bacterial symbionts gives only limited information about the early stages in the transition from a free-living to symbiotic lifestyle because many chan...

journal_title：Genome biology and evolution

authors： Burke GR,Moran NA

更新日期：2011-01-01 00:00:00

abstract：:The genus Campylobacter includes some of the most relevant pathogens for human and animal health; the continuous effort in their characterization has also revealed new species putatively involved in different kind of infections. Nowadays, the available genomic data for the genus comprise a wide variety of species with...

journal_title：Genome biology and evolution

authors： Iraola G,Pérez R,Naya H,Paolicchi F,Pastor E,Valenzuela S,Calleros L,Velilla A,Hernández M,Morsella C

更新日期：2014-09-04 00:00:00

abstract：:Amoebiasis is the third-most common cause of mortality worldwide from a parasitic disease. Although the primary etiological agent of amoebiasis is the obligate human parasite Entamoeba histolytica, other members of the genus Entamoeba can infect humans and may be pathogenic. Here, we present the first annotated refere...

journal_title：Genome biology and evolution

authors： Wilson IW,Weedall GD,Lorenzi H,Howcroft T,Hon CC,Deloger M,Guillén N,Paterson S,Clark CG,Hall N

更新日期：2019-03-01 00:00:00

abstract：:Retrotransposons, DNA sequences capable of creating copies of themselves, compose about half of the human genome and played a central role in the evolution of mammals. Their current position in the host genome is the result of the retrotranscription process and of the following host genome evolution. We apply a model ...

journal_title：Genome biology and evolution

authors： Riba A,Fumagalli MR,Caselle M,Osella M

更新日期：2020-11-03 00:00:00

abstract：:Vomeronasal sensitivity is important for detecting intraspecific pheromonal cues as well as environmental odorants and is involved in mating, social interaction, and other daily activities of many vertebrates. Two large families of seven-transmembrane G-protein-coupled receptors, V1rs and V2rs, bind to various ligands...

journal_title：Genome biology and evolution

authors： Park SH,Podlaha O,Grus WE,Zhang J

更新日期：2011-01-01 00:00:00

abstract：:Rhizobia are soil bacteria capable of forming symbiotic nitrogen-fixing nodules associated with leguminous plants. In fast-growing legume-nodulating rhizobia, such as the species in the family Rhizobiaceae, the symbiotic plasmid is the main genetic basis for nitrogen-fixing symbiosis, and is susceptible to horizontal ...

journal_title：Genome biology and evolution

authors： Yang LL,Jiang Z,Li Y,Wang ET,Zhi XY

更新日期：2020-11-03 00:00:00

abstract：:Lycopodiophyta-consisting of three orders, Lycopodiales, Isoetales and Selaginellales, with different types of shoot apical meristems (SAMs)-form the earliest branch among the extant vascular plants. They represent a sister group to all other vascular plants, from which they differ in that their leaves are microphylls...

journal_title：Genome biology and evolution

authors： Evkaikina AI,Berke L,Romanova MA,Proux-Wéra E,Ivanova AN,Rydin C,Pawlowski K,Voitsekhovskaja OV

更新日期：2017-09-01 00:00:00