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Evolutionary Relationships of Wild Hominids Recapitulated by Gut Microbial Communities
Although bacteria are continually acquired over the lifetime of an individual, the phylogenetic relationships of great ape species is mirrored in the compositions of their gut microbial communities.
bottlesim: a bottleneck simulation program for long-lived species with overlapping generations
bottlesim is a program for simulating bottlenecks to estimate the impact on genetic diversity; the novelties include an overlapping-generation model, a wide range of reproductive systems, and flexible population size settings. Expand
VgrG C terminus confers the type VI effector transport specificity and is required for binding with PAAR and adaptor–effector complex
Two T6SS encoded valine-glycine repeat protein G (VgrG) paralogs in Agrobacterium tumefaciens C58 specifically control the secretion and interbacterial competition activity of the type VI DNase toxins Tde1 and Tde2. Expand
The consequences of genetic drift for bacterial genome complexity.
This ratio, which reflects the action of purifying selection across the entire genome, shows a strong inverse relationship with genome size, indicating that drift promotes genome reduction in bacteria. Expand
Genetic Effects of a Persistent Bottleneck on a Natural Population of Ornate Box Turtles (Terrapene ornata)
To investigate the genetic effects of persistent population bottlenecks on long-lived species, microsatellite markers are used to assess the level of genetic diversity of a small ornate box turtle population that has experienced a persistent bottleneck in the past century, and a large relatively undisturbed population is compared. Expand
The Apicomplexan Whole-Genome Phylogeny: An Analysis of Incongruence among Gene Trees
Based upon the genome sequences from seven apicomplexan species and a ciliate outgroup, 268 single-copy genes suitable for phylogenetic inference were identified and both concatenation and consensus approaches inferred the same species tree topology. Expand
The Extinction Dynamics of Bacterial Pseudogenes
It is found that after their initial formation, the youngest pseudogenes in Salmonella genomes have a very high likelihood of being removed by deleting processes and are eliminated too rapidly to be governed by a strictly neutral model of stochastic loss. Expand
The Alveolate Perkinsus marinus: Biological Insights from EST Gene Discovery
The authors' transcriptome analysis of P. marinus contributes new insight into its biology and taxonomic position and provides a very informative glimpse into the expression of genes encoding functionally relevant proteins as potential targets for chemotherapy, and evidence for the presence of a relict plastid. Expand
Inferring clocks when lacking rocks: the variable rates of molecular evolution in bacteria
Examination of the evolution of 16S rRNA gene in obligate endosymbionts found that the rates are consistent within a clade but varied widely across different bacterial lineages, cautioning against the assumption of a universal molecular clock for inferring divergence times in bacteria. Expand
Deletional Bias across the Three Domains of Life
The degree of bias toward deletions provides an explanation to the differential responses of eukaryotes and prokaryotes to elevated levels of drift and is the primary mechanism by which the compact gene packing within most proKaryotic genomes is maintained. Expand