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Data from: Markov-modulated continuous-time Markov chains to identify site- and branch-specific evolutionary variation in BEAST
负责人:
关键词:
Markov-modulated models;heterotachy;BEAGLE;phylogenetics;Bayesian inference;covarion;BEAST
DOI:
doi:10.5061/dryad.230s5h0
摘要:
extensions that accommodate heterogeneity of substitution rates across sites, heterogeneity in the process over time in a site-specific manner remains
Data from: Transcriptome sequencing reveals genome-wide variation in molecular evolutionary rate among ferns
负责人:
关键词:
vittarioid ferns;Pityrogramma;Parahemionitis;Adiantum;Vittaria;molecular evolution;Pteris;Notholaena;Argyrochosma;Gaga;nucleotide substitution rate;Cryptogramma;Myriopteris
DOI:
doi:10.5061/dryad.rg22j
摘要:
er previously documented heterogeneity in plastid substitution rates is reflected in their nuclear genomes. We then inquire whether variati
Data from: Inferring heterogeneous evolutionary processes through time: from sequence substitution to phylogeography
负责人:
关键词:
phylogeography;phylogenetics;Epoch Model;BEAGLE;Bayesian inference;BEAST
DOI:
doi:10.5061/dryad.qp747
摘要:
Molecular phylogenetic and phylogeographic reconstructions generally assume time-homogeneous substitution processes. Motivated by computati
Data from: Genomic Signature of an Avian Lilliput Effect across the K-PG Extinction
负责人:
关键词:
divergence time;Paleogene;extinction;molecular clocks;divergence times;life-history evolution;Body Size;Metabolic Rate;mass extinction;K-Pg;Birds;Cretaceous
DOI:
doi:10.5061/dryad.nr654
摘要:
pronounced heterogeneity in rates of molecular evolution (varying up to ~20-fold) across a large-scale avian phylogenomic dataset, and show tha
Data from: Phylogenetic informativeness reconciles ray-finned fish molecular divergence times
负责人:
关键词:
Actinopterygii;Cichlidae;Eocene;Cretaceous;Homoplasy;Jurassic;Devonian;Triassic;Acanthomorpha;Nucleotide Saturation;Cenozoic;Tetraodontiformes;Teleostei;molecular clock
DOI:
doi:10.5061/dryad.3rq51
摘要:
ss the Tree of Life. This discordance is attributed to a variety of variables including calibration age uncertainty, calibration placement, nucleotide substitution rate heterogeneity
Data from: Genetic distance for a general non-stationary Markov substitution process
负责人:
关键词:
Markov process;non-stationary;molecular clock;maximum likelihood;Genetic distance
DOI:
doi:10.5061/dryad.g7g0n
摘要:
sible model, with and without rate heterogeneity across sites, and the paralinear distance, an empirical pairwise method explicitly designed to address
Data from: Evolution and Phylogeny of the Diptera: A Molecular Phylogenetic Analysis Using 28S rDNA Sequences
负责人:
关键词:
maximum likelihood ratio test;Drosophila;ribosomal DNA;molecular phylogeny;Evolution;systematics;character state polarity;Diptera
DOI:
doi:10.5061/dryad.788
摘要:
sequence comparisons, (3) significant substitution rate heterogeneity exists across sites, and (4) significant substitution rate heterogeneity exists among lineage
Data from: The fitness effect of mutations across environments: Fisher’s geometrical model with multiple optima
负责人:
关键词:
Mutations;pleiotropy;life-history evolution;Models\/Simulations;Adaptation;Fitness
DOI:
doi:10.5061/dryad.8dg19
摘要:
ss heterogeneous conditions. As an example, we derive the genomic rate of substitution and of adaptation in a metapopulation divided into two distinct habitats in a high
Data from: Dissecting molecular evolution in the highly diverse plant clade Caryophyllales using transcriptome sequencing
负责人:
关键词:
substitution rate heterogeneity;RNA-seq;Caryophyllales;150 mya to Holocene;paleopolyploidy
DOI:
doi:10.5061/dryad.33m48
摘要:
ng a 1,122-gene data set with a gene occupancy of 92.1%. From the homolog trees, we found that both synonymous and nonsynonymous substitution rate

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