Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans

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Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans is …
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scholarly articleQ13442814

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P356DOI10.1371/JOURNAL.PBIO.0050310
P3181OpenCitations bibliographic resource ID1950260
P932PMC publication ID2062478
P698PubMed publication ID17988176
P5875ResearchGate publication ID5859020

P50authorLadeana HillierQ6469365
Eugene MyersQ92757
Lior PachterQ21823349
Matthew W HahnQ64856494
Colin N DeweyQ99593383
P2093author name stringAlisha K Holloway
Andrew D Kern
Yu-Ping Poh
Corbin D Jones
Charles H Langley
Kristian Stevens
David J Begun
Phillip M Nista
P2860cites workA test of neutral molecular evolution based on nucleotide dataQ24532207
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GENETIC BASIS OF DIFFERENCES IN GENITAL MORPHOLOGY AMONG THREE SIBLING SPECIES OF DROSOPHILA.Q45063087
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Patterns of microsatellite variability among X chromosomes and autosomes indicate a high frequency of beneficial mutations in non-African D. simulansQ46629504
Codon bias and noncoding GC content correlate negatively with recombination rate on the Drosophila X chromosomeQ46773743
PKD2 cation channel is required for directional sperm movement and male fertilityQ47071557
A flagellar polycystin-2 homolog required for male fertility in DrosophilaQ47072210
Inference of positive and negative selection on the 5' regulatory regions of Drosophila genesQ47336207
Intraspecific nuclear DNA variation in DrosophilaQ48067874
Pervasive adaptive evolution among interactors of the Drosophila hybrid inviability gene, Nup96.Q48083942
Multiple apoptotic caspase cascades are required in nonapoptotic roles for Drosophila spermatid individualizationQ24800775
A survey of ovary-, testis-, and soma-biased gene expression in Drosophila melanogaster adultsQ24804840
Patterns of intron sequence evolution in Drosophila are dependent upon length and GC contentQ24811259
Positive selection drives the evolution of rhino, a member of the heterochromatin protein 1 family in DrosophilaQ24811626
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutionsQ27860462
Dating of the human-ape splitting by a molecular clock of mitochondrial DNAQ27860908
PAML: a program package for phylogenetic analysis by maximum likelihoodQ27861096
A protein interaction map of Drosophila melanogasterQ28131783
The hitch-hiking effect of a favourable geneQ28241578
Adaptive protein evolution at the Adh locus in DrosophilaQ28302478
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Molecular signatures of natural selectionQ29614731
The "hitchhiking effect" revisitedQ30004196
Strong selective sweep associated with a transposon insertion in Drosophila simulans.Q30336352
A new family of adenylyl cyclase genes in the male germline of Drosophila melanogaster.Q30628274
Evolutionary expressed sequence tag analysis of Drosophila female reproductive tracts identifies genes subjected to positive selectionQ31134127
Inferring the fitness effects of DNA mutations from polymorphism and divergence data: statistical power to detect directional selection under stationarity and free recombination.Q31942611
Protein interaction mapping: a Drosophila case studyQ33211911
Effects of linkage on rates of molecular evolutionQ33644420
Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis.Q33858553
Dosage compensation rox!Q33912877
The correlation between intron length and recombination in drosophila. Dynamic equilibrium between mutational and selective forces.Q33924285
Association between divergence and interspersed repeats in mammalian noncoding genomic DNA.Q33951990
The rosy region of Drosophila melanogaster and Drosophila simulans. I. Contrasting levels of naturally occurring DNA restriction map variation and divergenceQ33954419
Reduced variation in the yellow-achaete-scute region in natural populations of Drosophila melanogaster.Q33955488
The selection-mutation-drift theory of synonymous codon usageQ33958751
Lack of polymorphism on the Drosophila fourth chromosome resulting from selectionQ33958827
Molecular population genetics of the distal portion of the X chromosome in Drosophila: evidence for genetic hitchhiking of the yellow-achaete regionQ33958843
Intraspecific and interspecific variation at the y-ac-sc region of Drosophila simulans and Drosophila melanogasterQ33959263
Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy.Q33962672
Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA.Q33964399
Molecular variation at the vermilion locus in geographically diverse populations of Drosophila melanogaster and D. simulansQ33965409
The sex-ratio trait in Drosophila simulans: genetic analysis of distortion and suppressionQ33970907
Patterns of polymorphism and divergence from noncoding sequences of Drosophila melanogaster and D. simulans: evidence for nonequilibrium processesQ35905058
SAGA unveiled.Q36011032
Lack of correlation between interspecific divergence and intraspecific polymorphism at the suppressor of forked region in Drosophila melanogaster and Drosophila simulans.Q36132448
Regulation of gene expression by alternative untranslated regionsQ36375512
Evolution on the X chromosome: unusual patterns and processesQ36539019
The reproductive incompatibility system in Drosophila simulans: DAPI-staining analysis of the Wolbachia symbionts in sperm cysts.Q36696694
High rate of DNA loss in the Drosophila melanogaster and Drosophila virilis species groupsQ38553095
Excess amino acid polymorphism in mitochondrial DNA: contrasts among genes from Drosophila, mice, and humansQ38562605
Relationships within the melanogaster species subgroup of the genus Drosophila ( Sophophora ) - II. Phylogenetic relationships between six species based upon polytene chromosome banding sequencesQ39100542
Contrasting patterns of geographic variation in the cosmopolitan sibling species Drosophila melanogaster and Drosophila simulansQ39467506
Nuclear pore components are involved in the transcriptional regulation of dosage compensation in DrosophilaQ40303626
A superfamily of Drosophila satellite related (SR) DNA repeats restricted to the X chromosome euchromatinQ40420708
PCAP: a whole-genome assembly programQ40830110
The JIL-1 kinase regulates the structure of Drosophila polytene chromosomes.Q50763353
Gene expression during the life cycle of Drosophila melanogaster.Q52031678
PVF1/PVR signaling and apoptosis promotes the rotation and dorsal closure of the Drosophila male terminalia.Q52062432
A test for adaptive change in DNA sequences controlling transcription.Q52206608
ReAligner: a program for refining DNA sequence multi-alignments.Q52256022
Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogasterQ52443577
A test for faster X evolution in Drosophila.Q52599287
The genomic rate of adaptive amino acid substitution in Drosophila.Q52646887
Intron length evolution in Drosophila.Q52671626
Models of nearly neutral mutations with particular implications for nonrandom usage of synonymous codons.Q52869275
A New Species Closely Resembling Drosophila MelanogasterQ54642511
Synthesis of ribonucleic acid by the X-chromosomes of Drosophila melanogaster and the problem of dosage compensation.Q55062107
The Relative Rates of Evolution of Sex Chromosomes and AutosomesQ56385768
Cloning of DNA sequences from the white locus of D. melanogaster by a novel and general methodQ57205021
THE SIGNATURE OF POSITIVE SELECTION ON STANDING GENETIC VARIATIONQ59686545
Estimating the recombination parameter of a finite population model without selectionQ68687847
Reduced variation at concertina, a heterochromatic locus in DrosophilaQ71827676
The effect of linkage on limits to artificial selectionQ72951099
The signature of positive selection on standing genetic variationQ82187447
Evolution of Protein MoleculesQ104527665
Chromosomal sites necessary for normal levels of meiotic recombination in Drosophila melanogaster. I. Evidence for and mapping of the sitesQ33994137
Multilocus Structure of Natural Populations of HORDEUM SPONTANEUM.Q33994741
Adaptive protein evolution in DrosophilaQ34116884
Sperm-female coevolution in DrosophilaQ34158370
MAVID: constrained ancestral alignment of multiple sequencesQ34310489
Sexually antagonistic male adaptation triggered by experimental arrest of female evolutionQ34378310
Global analysis of X-chromosome dosage compensationQ34480938
Linkage disequilibrium and recent selection at three immunity receptor loci in Drosophila simulansQ34572656
GC-biased segregation of noncoding polymorphisms in DrosophilaQ34587185
The hitchhiking effect on linkage disequilibrium between linked neutral lociQ34588489
X-linked genes evolve higher codon bias in Drosophila and CaenorhabditisQ34588961
X chromosomes and autosomes evolve at similar rates in Drosophila: no evidence for faster-X protein evolutionQ34591004
Direct estimation of per nucleotide and genomic deleterious mutation rates in DrosophilaQ34597710
The correlation between synonymous and nonsynonymous substitutions in Drosophila: mutation, selection or relaxed constraints?Q34605445
Offsetting effects of Wolbachia infection and heat shock on sperm production in Drosophila simulans: analyses of fecundity, fertility and accessory gland proteinsQ34609500
Substitution rates in Drosophila nuclear genes: implications for translational selectionQ34611624
Adaptive evolution of Cid, a centromere-specific histone in DrosophilaQ34612053
Identification of chromosome inheritance modifiers in Drosophila melanogasterQ34612248
Interactions between natural selection, recombination and gene density in the genes of Drosophila.Q34614331
Molecular population genetics of Xdh and the evolution of base composition in Drosophila.Q34616622
Genomic effects of nucleotide substitutions in Drosophila simulans.Q34616654
Natural selection drives Drosophila immune system evolution.Q34618227
A microsatellite variability screen for positive selection associated with the "out of Africa" habitat expansion of Drosophila melanogasterQ34618905
Recombination, dominance and selection on amino acid polymorphism in the Drosophila genome: contrasting patterns on the X and fourth chromosomesQ34619011
Linkage disequilibrium as a signature of selective sweepsQ34645314
High-resolution ChIP-chip analysis reveals that the Drosophila MSL complex selectively identifies active genes on the male X chromosomeQ34649143
X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in DrosophilaQ34649154
Chromosome-wide gene-specific targeting of the Drosophila dosage compensation complexQ34666656
Mating-responsive genes in reproductive tissues of female Drosophila melanogasterQ34772168
Contrasted polymorphism patterns in a large sample of populations from the evolutionary genetics model Drosophila simulansQ34895704
Natural variation in Drosophila melanogaster diapause due to the insulin-regulated PI3-kinaseQ35127543
The genetics and genomics of insecticide resistanceQ35704439
Reduced X-linked nucleotide polymorphism in Drosophila simulansQ35755769
Adaptive genic evolution in the Drosophila genomesQ35844622
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P4510describes a project that usesBayes' theoremQ182505
P433issue11
P407language of work or nameEnglishQ1860
P921main subjectDrosophila simulansQ310061
DrosophilaQ312154
whole genome sequencingQ2068526
genomicsQ222046
P304page(s)e310
P577publication date2007-11-06
P1433published inPLOS BiologyQ1771695
P1476titlePopulation genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans
P478volume5

Reverse relations

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Q37117004Molecular spectrum of spontaneous de novo mutations in male and female germline cells of Drosophila melanogaster
Q52734023Multilocus analysis of nucleotide variation in Drosophila madeirensis, an endemic species of the Laurisilva forest in Madeira.
Q37351815Multilocus patterns of nucleotide diversity and divergence reveal positive selection at candidate genes related to cold hardiness in coastal Douglas Fir (Pseudotsuga menziesii var. menziesii).
Q37306555Mutagenesis from meiotic recombination is not a primary driver of sequence divergence between Saccharomyces species
Q36875695Natural Selection and Genetic Diversity in the Butterfly Heliconius melpomene
Q36677103Natural Selection and Recombination Rate Variation Shape Nucleotide Polymorphism Across the Genomes of Three Related Populus Species.
Q34055381Natural selection affects multiple aspects of genetic variation at putatively neutral sites across the human genome.
Q27312430Natural selection constrains neutral diversity across a wide range of species
Q22065772Natural selection shapes nucleotide polymorphism across the genome of the nematode Caenorhabditis briggsae
Q33809168Natural variation in decision-making behavior in Drosophila melanogaster
Q28744151Natural variation of the amino-terminal glutamine-rich domain in Drosophila argonaute2 is not associated with developmental defects
Q37119623Network-level molecular evolutionary analysis of the insulin/TOR signal transduction pathway across 12 Drosophila genomes
Q46669644Neutralism and selectionism: a network-based reconciliation
Q34131465Ninety years of Drosophila melanogaster hybrids
Q37889135Non-coding RNAs in schistosomes: an unexplored world
Q37810545Nonadaptive processes in primate and human evolution
Q34407751Nonrecombining genes in a recombination environment: the Drosophila "dot" chromosome
Q34864363Normal segregation of a foreign-species chromosome during Drosophila female meiosis despite extensive heterochromatin divergence
Q33725384Odorant receptor (Or) genes: polymorphism and divergence in the D. melanogaster and D. pseudoobscura lineages
Q28741603Of mice and 'convicts': origin of the Australian house mouse, Mus musculus
Q37078978Optimization of gene expression by natural selection
Q28306501Origin and spread of de novo genes in Drosophila melanogaster populations
Q36724394Overdispersion of the molecular clock varies between yeast, Drosophila and mammals
Q37324297Overdispersion of the molecular clock: temporal variation of gene-specific substitution rates in Drosophila
Q41359165Parallel Evolution of Sperm Hyper-Activation Ca2+ Channels
Q42971142Parallel and costly changes to cellular immunity underlie the evolution of parasitoid resistance in three Drosophila species.
Q35195589Parallel faster-X evolution of gene expression and protein sequences in Drosophila: beyond differences in expression properties and protein interactions
Q35746809Partitioning transcript variation in Drosophila: abundance, isoforms, and alleles
Q34131510Patterns and processes of genome-wide divergence between North American and African Drosophila melanogaster.
Q36198234Patterns of neutral diversity under general models of selective sweeps
Q34545230Patterns of nucleotide diversity at the regions encompassing the Drosophila insulin-like peptide (dilp) genes: demography vs. positive selection in Drosophila melanogaster
Q21144298Patterns of polymorphism and demographic history in natural populations of Arabidopsis lyrata
Q33500324Patterns of polymorphism resulting from long-range colonization in the Mediterranean conifer Aleppo pine.
Q21145040Patterns of positive selection in six Mammalian genomes
Q33828421Pervasive adaptive protein evolution apparent in diversity patterns around amino acid substitutions in Drosophila simulans
Q36287878Pervasive and largely lineage-specific adaptive protein evolution in the dosage compensation complex of Drosophila melanogaster
Q33400330Pervasive hitchhiking at coding and regulatory sites in humans
Q33463271Pervasive natural selection in the Drosophila genome?
Q34318233Phylogenomic analysis reveals dynamic evolutionary history of the Drosophila heterochromatin protein 1 (HP1) gene family
Q39649075PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)
Q36778170Polytene chromosomal maps of 11 Drosophila species: the order of genomic scaffolds inferred from genetic and physical maps.
Q98735639Population Genomics Reveals Demographic History and Genomic Differentiation of Populus davidiana and Populus tremula
Q38756860Population Genomics of Paramecium Species.
Q34531227Population Genomics of sub-saharan Drosophila melanogaster: African diversity and non-African admixture
Q33618933Population dynamics of PIWI-interacting RNAs (piRNAs) and their targets in Drosophila
Q33736564Population genetic inference from genomic sequence variation
Q35026984Population genomic analyses of early-phase Atlantic Salmon (Salmo salar) domestication/captive breeding
Q36525049Population genomic analysis of base composition evolution in Drosophila melanogaster
Q28757646Population genomic analysis of strain variation in Leptospirillum group II bacteria involved in acid mine drainage formation
Q30436703Population genomic inferences from sparse high-throughput sequencing of two populations of Drosophila melanogaster
Q46985853Population genomics from pool sequencing
Q40676254Population genomics of eusocial insects: the costs of a vertebrate-like effective population size.
Q21563319Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags
Q34401696Population genomics of the honey bee reveals strong signatures of positive selection on worker traits
Q52717533Population transcriptomics: insights from Drosophila simulans, Drosophila sechellia and their hybrids.
Q37324309Positive and negative selection on noncoding DNA in Drosophila simulans
Q30391325Positive selection differs between protein secondary structure elements in Drosophila
Q34005751Positive selection drives faster-Z evolution in silkmoths
Q47930345Positive selection has driven the evolution of the Drosophila insulin-like receptor (InR) at different timescales
Q35946609Powerful methods for detecting introgressed regions from population genomic data
Q51605838Predictable patterns of constraint among anthocyanin-regulating transcription factors in Ipomoea.
Q40577986Prevalence of multinucleotide replacements in evolution of primates and Drosophila.
Q41992340Processing and population genetic analysis of multigenic datasets with ProSeq3 software.
Q37378244Progress and prospects toward our understanding of the evolution of dosage compensation
Q33715611Pseudo-Sanger sequencing: massively parallel production of long and near error-free reads using NGS technology
Q44073360Pupariation site preference within and between Drosophila sibling species
Q37380422Quantifying adaptive evolution in the Drosophila immune system
Q33924548RNA-seq: technical variability and sampling.
Q33304453Rampant adaptive evolution in regions of proteins with unknown function in Drosophila simulans
Q36967838Random fluctuation of selection coefficients and the extent of nucleotide variation in human populations
Q34674999Rapid male-specific regulatory divergence and down regulation of spermatogenesis genes in Drosophila species hybrids
Q37398886Rapid sequence evolution of transcription factors controlling neuron differentiation in Caenorhabditis
Q34420759Reanalysis suggests that genomic islands of speciation are due to reduced diversity, not reduced gene flow
Q36077805Recent Evolution in Rattus norvegicus Is Shaped by Declining Effective Population Size
Q34495041Recent and recurrent selective sweeps of the antiviral RNAi gene Argonaute-2 in three species of Drosophila
Q35961123Reciprocal insights into adaptation from agricultural and evolutionary studies in tomato
Q21563525Recombination modulates how selection affects linked sites in Drosophila
Q37889637Recombination rate variation in closely related species.
Q37152778Recombination rates may affect the ratio of X to autosomal noncoding polymorphism in African populations of Drosophila melanogaster
Q40474449Recombining without Hotspots: A Comprehensive Evolutionary Portrait of Recombination in Two Closely Related Species of Drosophila.
Q91595880Recurrent Losses and Rapid Evolution of the Condensin II Complex in Insects
Q36724251Recurrent deletion and gene presence/absence polymorphism: telomere dynamics dominate evolution at the tip of 3L in Drosophila melanogaster and D. simulans
Q33628453Recurrent selection on the Winters sex-ratio genes in Drosophila simulans
Q33883132Recurrent tandem gene duplication gave rise to functionally divergent genes in Drosophila
Q33455484Reexamining microRNA site accessibility in Drosophila: a population genomics study
Q27323073Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap
Q37397459Regulatory divergence in Drosophila melanogaster and D. simulans, a genomewide analysis of allele-specific expression
Q89396746Relationship Among Intron Length, Gene Expression, and Nucleotide Diversity in the Pacific Oyster Crassostrea gigas
Q33909584Restriction Site Tiling Analysis: accurate discovery and quantitative genotyping of genome-wide polymorphisms using nucleotide arrays
Q37197112Reticulate Speciation and Barriers to Introgression in the Anopheles gambiae Species Complex
Q36820811RhesusBase PopGateway: Genome-Wide Population Genetics Atlas in Rhesus Macaque
Q46971220SNPMeta: SNP annotation and SNP metadata collection without a reference genome.
Q37385455Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation in Drosophila melanogaster.
Q46180627Selection and constraint on regulatory elements in Drosophila simulans
Q33883126Selection on amino acid substitutions in Arabidopsis
Q35746776Sequence Analysis of the Segmental Duplication Responsible for Paris Sex-Ratio Drive in Drosophila simulans.
Q33641365Sex chromosomes and speciation in Drosophila
Q33872919Sex- and species-biased gene flow in a spotted eagle hybrid zone
Q46766328Sexual dimorphism and the evolution of sex-biased gene expression in the brown alga ectocarpus.
Q45084294Signals of selection in outlier loci in a widely dispersing species across an environmental mosaic
Q33688912Signatures of recent directional selection under different models of population expansion during colonization of new selective environments
Q39365428Silencing of Transposable Elements by piRNAs in Drosophila: An Evolutionary Perspective
Q33452924Similar patterns of linkage disequilibrium and nucleotide diversity in native and introduced populations of the pea aphid, Acyrthosiphon pisum
Q33394067Similar rates of protein adaptation in Drosophila miranda and D. melanogaster, two species with different current effective population sizes
Q37089714Simulation of DNA sequence evolution under models of recent directional selection
Q47560472Slow evolution of sex-biased genes in the reproductive tissue of the dioecious plant Salix viminalis.
Q34510133SnIPRE: selection inference using a Poisson random effects model
Q45947473Soft Sweeps Are the Dominant Mode of Adaptation in the Human Genome.
Q35579812Soft shoulders ahead: spurious signatures of soft and partial selective sweeps result from linked hard sweeps
Q46323522Speciation as a sieve for ancestral polymorphism.
Q33856870Speciation genetics: current status and evolving approaches.
Q37264249Speciation through evolution of sex-linked genes
Q21145809Species-specific heterochromatin prevents mitotic chromosome segregation to cause hybrid lethality in Drosophila
Q45962806Sperm competition shapes gene expression and sequence evolution in the ocellated wrasse.
Q34235196Statistical inference of selection and divergence from a time-dependent Poisson random field model
Q37324360Strong evidence for lineage and sequence specificity of substitution rates and patterns in Drosophila
Q39740957Strong mutational bias toward deletions in the Drosophila melanogaster genome is compensated by selection
Q35084731Structural genomics: correlation blocks, population structure, and genome architecture
Q51246584Studying the genetic basis of speciation in high gene flow marine invertebrates.
Q52570069Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia.
Q58724608Support for the Dominance Theory in Transcriptomes
Q36295354Synonymous Genetic Variation in Natural Isolates of Escherichia coli Does Not Predict Where Synonymous Substitutions Occur in a Long-Term Experiment
Q35692242Tandem Duplications and the Limits of Natural Selection in Drosophila yakuba and Drosophila simulans
Q90557927Target enrichment sequencing of 307 germplasm accessions identified ancestry of ancient and modern hybrids and signatures of adaptation and selection in sugarcane (Saccharum spp.), a 'sweet' crop with 'bitter' genomes
Q36771745Targeted capture in evolutionary and ecological genomics.
Q35694649Tempo and Mode of Transposable Element Activity in Drosophila
Q35768042Temporally variable selection on proteolysis-related reproductive tract proteins in Drosophila
Q35751020The Drosophila bag of marbles Gene Interacts Genetically with Wolbachia and Shows Female-Specific Effects of Divergence
Q90316318The Linked Selection Signature of Rapid Adaptation in Temporal Genomic Data
Q88555310The Neutral Theory in Light of Natural Selection
Q35652808The Role of piRNA-Mediated Epigenetic Silencing in the Population Dynamics of Transposable Elements in Drosophila melanogaster
Q90280655The Unreasonable Effectiveness of Convolutional Neural Networks in Population Genetic Inference
Q35763294The Wright stuff: reimagining path analysis reveals novel components of the sex determination hierarchy in Drosophila melanogaster
Q42563009The allele-frequency spectrum in a decoupled Moran model with mutation, drift, and directional selection, assuming small mutation rates
Q22122101The complete sequence of the smallest known nuclear genome from the microsporidian Encephalitozoon intestinalis
Q92353003The determinants of genetic diversity in butterflies
Q35644757The effects of deleterious mutations on evolution at linked sites
Q46738351The effects of recombination, mutation and selection on the evolution of the Rp1 resistance genes in grasses
Q47330128The effects of sex-biased gene expression and X-linkage on rates of sequence evolution in Drosophila
Q24651901The evolution of RNAi as a defence against viruses and transposable elements
Q34382762The evolution of tRNA genes in Drosophila
Q33485535The evolutionary dynamics of the Helena retrotransposon revealed by sequenced Drosophila genomes
Q28661554The evolutionary genetics of the genes underlying phenotypic associations for loblolly pine (Pinus taeda, Pinaceae)
Q30650832The faster-X effect: integrating theory and data
Q33478384The genomics of speciation in Drosophila: diversity, divergence, and introgression estimated using low-coverage genome sequencing.
Q37324304The impact of founder events on chromosomal variability in multiply mating species
Q38206695The impact of linked selection on plant genomic variation
Q37357996The influence of genomic context on mutation patterns in the human genome inferred from rare variants.
Q43558515The influence of recombination on SNP diversity in chickens
Q36312128The many landscapes of recombination in Drosophila melanogaster
Q40149073The molecular evolution of cytochrome P450 genes within and between drosophila species.
Q24653879The mosaic genome structure of the Wolbachia wRi strain infecting Drosophila simulans
Q34320884The population genomics of a fast evolver: high levels of diversity, functional constraint, and molecular adaptation in the tunicate Ciona intestinalis
Q42117347The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing.
Q36920917The potential for adaptive maintenance of diversity in insect antimicrobial peptides
Q35669200The recent invasion of natural Drosophila simulans populations by the P-element
Q33480285The role of genome and gene regulatory network canalization in the evolution of multi-trait polymorphisms and sympatric speciation
Q21145001The role of geography in human adaptation
Q35119867The role of the effective population size in compensatory evolution
Q33413753The significance of genetic polymorphisms within and between founder populations of Ceratitis capitata (Wied.) from Argentina
Q30493305The strength of transcription-factor binding modulates co-variation in transcriptional networks
Q28270306Toward a selection theory of molecular evolution
Q37779819Towards population genomics of effector-effector target interactions
Q30558142Unconstrained evolution in short introns? - an analysis of genome-wide polymorphism and divergence data from Drosophila
Q28584522Variable Autosomal and X Divergence Near and Far from Genes Affects Estimates of Male Mutation Bias in Great Apes
Q45378676Variable post-zygotic isolation in Drosophila melanogaster/D. simulans hybrids
Q28601504Variation in promiscuity and sexual selection drives avian rate of Faster-Z evolution
Q37738603Variation in the Intensity of Selection on Codon Bias over Time Causes Contrasting Patterns of Base Composition Evolution in Drosophila
Q22305972Weak selection and protein evolution
Q35257048Weighing the evidence for adaptation at the molecular level
Q33556621What the X has to do with it: differences in regulatory variability between the sexes in Drosophila simulans
Q34286390Whole-Genome Positive Selection and Habitat-Driven Evolution in a Shallow and a Deep-Sea Urchin
Q40517001Whole-Genome Resequencing Reveals Extensive Natural Variation in the Model Green Alga Chlamydomonas reinhardtii.
Q35408770Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula
Q37238238Whole-genome sequencing of two North American Drosophila melanogaster populations reveals genetic differentiation and positive selection
Q28662073Why to account for finite sites in population genetic studies and how to do this with Jaatha 2.0
Q37207183Widespread evidence for horizontal transfer of transposable elements across Drosophila genomes
Q28754708Widespread genomic signatures of natural selection in hominid evolution
Q33717060Widespread over-expression of the X chromosome in sterile F₁hybrid mice
Q35930250Widespread polymorphism in the positions of stop codons in Drosophila melanogaster
Q36947289Widespread selection across coding and noncoding DNA in the pea aphid genome
Q36641888Witnessing Phenotypic and Molecular Evolution in the Fruit Fly
Q38655217metaSNV: A tool for metagenomic strain level analysis
Q36909077mlRho - a program for estimating the population mutation and recombination rates from shotgun-sequenced diploid genomes

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