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Rasmus Nielsen
University of Southern Denmark
GenomePopulationGeneticsEvolutionary biologyBiology
429Publications
114H-index
57.7kCitations
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Publications 386
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#1Ming-Shan WangH-Index: 6
#2Sheng Wang (CAS: Chinese Academy of Sciences)
Last. Rasmus NielsenH-Index: 114
view all 12 authors...
Genetic introgression provides material for adaptive evolution, but also confounds our understanding of evolutionary history. This is particularly true for canids, a species complex including dogs, wolves, coyotes, jackals, and other wolf-like carnivores, in which genomic analyses have revealed a complex history of admixture and introgression. Among the most enigmatic canid lineages whose origin and evolutionary relationships remain unresolved are the high-altitude wolves of the Tibetan Plateau,...
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#1Aaron J. Stern (University of California, Berkeley)H-Index: 3
#2Leo Speidel (University of Oxford)H-Index: 3
Last. Rasmus Nielsen (University of California, Berkeley)H-Index: 114
view all 4 authors...
We present a full-likelihood method to estimate and quantify polygenic adaptation from contemporary DNA sequence data. The method combines population genetic DNA sequence data and GWAS summary statistics from up to thousands of nucleotide sites in a joint likelihood function to estimate the strength of transient directional selection acting on a polygenic trait. Through population genetic simulations of polygenic trait architectures and GWAS, we show that the method substantially improves power ...
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#1Max Nielsen (UCPH: University of Copenhagen)H-Index: 14
#2Jørgen DalskovH-Index: 5
Last. Per Bovbjerg PedersenH-Index: 18
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#1Guy Ling (TAU: Tel Aviv University)H-Index: 1
#2Danielle Miller (TAU: Tel Aviv University)H-Index: 1
Last. Adi Stern (TAU: Tel Aviv University)H-Index: 15
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The probability of point mutations is expected to be highly influenced by the flanking nucleotides that surround them, known as the sequence context. This phenomenon may be mainly attributed to the enzyme that modifies or mutates the genetic material, because most enzymes tend to have specific sequence contexts that dictate their activity. Here, we develop a statistical model that allows for the detection and evaluation of the effects of different sequence contexts on mutation rates from deep po...
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#1Roberto MárquezH-Index: 2
#2Tyler LinderothH-Index: 7
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The geographic distribution of phenotypic variation among closely related populations is a valuable source of information about the evolutionary processes that generate and maintain biodiversity. Leapfrog distributions, in which phenotypically similar populations are disjunctly distributed and separated by phenotypically distinct populations, represent geographic replicates for the existence of a phenotype, and are therefore especially informative. These geographic patterns have mostly been stud...
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#1Russell B. Corbett-Detig (University of California, Berkeley)H-Index: 16
#2Shelbi L Russell (UCSC: University of California, Santa Cruz)H-Index: 5
Last. Jonathan B. Losos (WashU: Washington University in St. Louis)H-Index: 77
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There are many compelling examples of molecular convergence at individual genes. However, the prevalence and the relative importance of adaptive genome-wide convergence remains largely unknown. Many recent works have reported striking examples of excess genome-wide convergence, but some of these studies have been called into question because of the use of inappropriate null models. Here, we sequenced and compared the genomes of twelve species of anole lizards that have independently converged on...
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#1Robert Maier (Broad Institute)H-Index: 9
#2Ali Akbari (Broad Institute)H-Index: 6
Last. David ReichH-Index: 109
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1 CitationsSource
#1Alison Barrett (PSU: Pennsylvania State University)H-Index: 1
#2Barbara Arbeithuber (PSU: Pennsylvania State University)H-Index: 4
Last. Kateryna D. MakovaH-Index: 42
view all 7 authors...
Heteroplasmy is the presence of variable mitochondrial DNA (mtDNA) within the same individual. The dynamics of heteroplasmy allele frequency among tissues of the human body is not well understood. ...
1 CitationsSource
#1Rute R. da Fonseca (UCPH: University of Copenhagen)H-Index: 19
#2Alvarina Couto (University of Vigo)
Last. M. Thomas P. Gilbert (UCPH: University of Copenhagen)H-Index: 80
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Background The giant squid (Architeuthis dux; Steenstrup, 1857) is an enigmatic giant mollusc with a circumglobal distribution in the deep ocean, except in the high Arctic and Antarctic waters. The elusiveness of the species makes it difficult to study. Thus, having a genome assembled for this deep-sea–dwelling species will allow several pending evolutionary questions to be unlocked.
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#1Arslan A Zaidi (PSU: Pennsylvania State University)H-Index: 6
#2Peter R. Wilton (University of California, Berkeley)H-Index: 6
Last. Kateryna D. Makova (PSU: Pennsylvania State University)H-Index: 42
view all 9 authors...
Heteroplasmy—the presence of multiple mitochondrial DNA (mtDNA) haplotypes in an individual—can lead to numerous mitochondrial diseases. The presentation of such diseases depends on the frequency of the heteroplasmic variant in tissues, which, in turn, depends on the dynamics of mtDNA transmissions during germline and somatic development. Thus, understanding and predicting these dynamics between generations and within individuals is medically relevant. Here, we study patterns of heteroplasmy in ...
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