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List of works by Dmitri A. Petrov

A Novel Method Distinguishes Between Mutation Rates and Fixation Biases in Patterns of Single-Nucleotide Substitution

article

A combined molecular and cytogenetic approach to genome evolution in Drosophila using large-fragment DNA cloning.

scientific article published on March 1993

A recent adaptive transposable element insertion near highly conserved developmental loci in Drosophila melanogaster

scientific article published on 20 May 2009

A spatio-temporal assessment of simian/human immunodeficiency virus (SHIV) evolution reveals a highly dynamic process within the host.

scientific article

Accurate Allele Frequencies from Ultra-low Coverage Pool-Seq Samples in Evolve-and-Resequence Experiments

scientific article published on 03 December 2019

An Intrinsically Disordered Region of the DNA Repair Protein Nbs1 Is a Species-Specific Barrier to Herpes Simplex Virus 1 in Primates

scientific article published on August 2016

Ancient RNA virus epidemics through the lens of recent adaptation in human genomes

scientific article published on 20 March 2020

Broad geographic sampling reveals the shared basis and environmental correlates of seasonal adaptation in Drosophila

scientific article published in 2021

Broker genes in human disease

scientific article

Codon bias and noncoding GC content correlate negatively with recombination rate on the Drosophila X chromosome

scientific article

Common variants spanning PLK4 are associated with mitotic-origin aneuploidy in human embryos

scientific article

Comparative population genomics of latitudinal variation in Drosophila simulans and Drosophila melanogaster

scientific article

Comparative population genomics: power and principles for the inference of functionality

scientific article published on 20 March 2014

Correction: Highly contiguous assemblies of 101 drosophilid genomes

scientific article published in 2022

Development of a Comprehensive Genotype-to-Fitness Map of Adaptation-Driving Mutations in Yeast

scientific article published on 27 August 2016

Diverse transposable elements are mobilized in hybrid dysgenesis in Drosophila virilis ⬇️

scientific article published on August 15, 1995

Do disparate mechanisms of duplication add similar genes to the genome?

scientific article published in October 2005

Drosophila melanogaster recombination rate calculator.

scientific article published on 7 May 2010

Effects of maternal age on euploidy rates in a large cohort of embryos analyzed with 24-chromosome single-nucleotide polymorphism-based preimplantation genetic screening

scientific article published on 8 February 2016

Elevated Linkage Disequilibrium and Signatures of Soft Sweeps Are Common in Drosophila melanogaster

scientific article published on 20 April 2016

Empirical validation of pooled whole genome population re-sequencing in Drosophila melanogaster

scientific article

Enhancer choice in cis and in trans in Drosophila melanogaster: role of the promoter

scientific article

Evidence for DNA Loss as a Determinant of Genome Size

scientific article published on 11 February 2000

Evidence of Selection against Complex Mitotic-Origin Aneuploidy during Preimplantation Development

scientific article published on 22 October 2015

Evidence that adaptation in Drosophila is not limited by mutation at single sites

scientific article published on 17 June 2010

Evidence that mutation is universally biased towards AT in bacteria

scientific article

Evolution of genome content: population dynamics of transposable elements in flies and humans.

scientific article published on January 2012

Evolution of genome size: new approaches to an old problem

scientific article published in January 2001

Evolutionary Dynamics in Structured Populations Under Strong Population Genetic Forces

scientific article published on 07 October 2019

Evolutionary biology for the 21st century

scientific article

Extremely Rare Polymorphisms in Saccharomyces cerevisiae Allow Inference of the Mutational Spectrum

scientific article

Faster than neutral evolution of constrained sequences: the complex interplay of mutational biases and weak selection. ⬇️

scientific article

Fitness variation across subtle environmental perturbations reveals local modularity and global pleiotropy of adaptation

scientific article published on 02 December 2020

Frequent adaptation and the McDonald-Kreitman test.

scientific article published on 6 May 2013

General rules for optimal codon choice

scientific article

Genome patterns of selection and introgression of haplotypes in natural populations of the house mouse (Mus musculus).

scientific article

Genome size as a mutation-selection-drift process

scientific article published in October 1999

Genome-wide patterns of adaptation to temperate environments associated with transposable elements in Drosophila

scientific article

Genome-wide signals of positive selection in human evolution

scientific article

Genomewide spatial correspondence between nonsynonymous divergence and neutral polymorphism reveals extensive adaptation in Drosophila

scientific article

Genomic evidence of rapid and stable adaptive oscillations over seasonal time scales in Drosophila

scientific article

Genomic gigantism: DNA loss is slow in mountain grasshoppers

scientific article published in February 2001

Genomic heterogeneity of background substitutional patterns in Drosophila melanogaster

scientific article

Genomic inference accurately predicts the timing and severity of a recent bottleneck in a nonmodel insect population

scientific article

Genomic regulation of transposable elements in Drosophila.

scientific article

Global Transcriptional Profiling of Diapause and Climatic Adaptation in Drosophila melanogaster

scientific article

Heterozygote Advantage Is a Common Outcome of Adaptation in Saccharomyces cerevisiae.

scientific article published on 18 May 2016

Heterozygote advantage as a natural consequence of adaptation in diploids

scientific article published on 5 December 2011

High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography

scientific article

High intrinsic rate of DNA loss in Drosophila

scientific article published in November 1996

High rate of DNA loss in the Drosophila melanogaster and Drosophila virilis species groups ⬇️

scientific article published on March 1, 1998

High rate of recent transposable element-induced adaptation in Drosophila melanogaster

scientific article

Host species and environmental effects on bacterial communities associated with Drosophila in the laboratory and in the natural environment

scientific article

Illumina TruSeq synthetic long-reads empower de novo assembly and resolve complex, highly-repetitive transposable elements

scientific article

Imperfect drug penetration leads to spatial monotherapy and rapid evolution of multidrug resistance

scientific article published on 18 May 2015

Inferring the strength of selection in Drosophila under complex demographic models.

scientific article

LDx: estimation of linkage disequilibrium from high-throughput pooled resequencing data

scientific article

Mapping the in vivo fitness landscape of lung adenocarcinoma tumor suppression in mice.

scientific article published on 2 April 2018

Minor shift in background substitutional patterns in the Drosophila saltans and willistoni lineages is insufficient to explain GC content of coding sequences

scientific article published on 18 October 2006

Molecular evolution of the testis TAFs of Drosophila

scientific article published on 25 February 2009

More effective drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1

scientific article published on 15 February 2016

Multiplexed in vivo homology-directed repair and tumor barcoding enables parallel quantification of Kras variant oncogenicity. ⬇️

scientific article published on 12 December 2017

Mutational equilibrium model of genome size evolution

scientific article

Nonadaptive explanations for signatures of partial selective sweeps in Drosophila

scientific article published on 16 January 2008

Obstruction of adaptation in diploids by recessive, strongly deleterious alleles

scientific article published on 4 May 2015

On the limitations of using ribosomal genes as references for the study of codon usage: a rebuttal

scientific article

Parameterizing Pantherinae: de novo mutation rate estimates from Panthera and Neofelis pedigrees

Patterns of nucleotide substitution in Drosophila and mammalian genomes

scientific article

Paucity of chimeric gene-transposable element transcripts in the Drosophila melanogaster genome

scientific article

Pervasive Strong Selection at the Level of Codon Usage Bias in Drosophila melanogaster

scientific article published on 23 December 2019

Pervasive and persistent redundancy among duplicated genes in yeast

scientific article

Pervasive hitchhiking at coding and regulatory sites in humans

scientific article

Pervasive natural selection in the Drosophila genome?

scientific article

Population genomics of rapid adaptation by soft selective sweeps.

scientific article published on 25 September 2013

Population genomics of transposable elements in Drosophila melanogaster.

scientific article

Precise estimates of mutation rate and spectrum in yeast

scientific article

Preferential duplication of conserved proteins in eukaryotic genomes

scientific article

Protein evolution in the context of Drosophila development

scientific article published on 16 May 2005

Quantitative evolutionary dynamics using high-resolution lineage tracking

scientific article

RNA viruses drove adaptive introgressions between Neanderthals and modern humans

Rapid seasonal evolution in innate immunity of wild Drosophila melanogaster.

scientific article published in January 2018

Rapid sequence turnover at an intergenic locus in Drosophila

scientific article published on 22 January 2004

Rates of DNA Duplication and Mitochondrial DNA Insertion in the Human Genome

scientific article (publication date: September 2003)

Recent selective sweeps in North American Drosophila melanogaster show signatures of soft sweeps

scientific article

Reduced selection leads to accelerated gene loss in Shigella

scientific article published on January 2007

Relaxed purifying selection and possibly high rate of adaptation in primate lineage-specific genes

scientific article

Reply to Chen and Zhang: On interpreting genome-wide trends from yeast mutation accumulation data

scientific article published on 12 September 2014

SEGE: A database on 'intron less/single exonic' genes from eukaryotes

scientific article published in September 2002

Seeking Goldilocks During Evolution of Drug Resistance

scientific article

Similar levels of X-linked and autosomal nucleotide variation in African and non-African populations of Drosophila melanogaster

scientific article

Similarly strong purifying selection acts on human disease genes of all evolutionary ages

scientific article

Size matters: non-LTR retrotransposable elements and ectopic recombination in Drosophila

scientific article published on 25 April 2003

Soft Selective Sweeps in Evolutionary Rescue

scientific article published on 17 February 2017

Soft selective sweeps in complex demographic scenarios.

scientific article

Strong purifying selection at synonymous sites in D. melanogaster

scientific article

T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data

scientific article

T-lex: a program for fast and accurate assessment of transposable element presence using next-generation sequencing data

scientific article (publication date: March 2011)

The adaptive role of transposable elements in the Drosophila genome

scientific article published on 23 June 2009

The cis-regulatory effects of modern human-specific variants

scientific article published on 20 April 2021

The large genome constraint hypothesis: evolution, ecology and phenotype

scientific article

Tissue-specific cis-regulatory divergence implicates a fatty acid elongase necessary for inhibiting interspecies mating in Drosophila

Trash DNA is what gets thrown away: high rate of DNA loss in Drosophila ⬇️

scientific article published on December 31, 1997

Viruses are a dominant driver of protein adaptation in mammals.

scientific article

Whole Genome Analysis of 132 Clinical Saccharomyces cerevisiae Strains Reveals Extensive Ploidy Variation

scientific article published on 17 June 2016

X-linked genes evolve higher codon bias in Drosophila and Caenorhabditis

scientific article

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