Briskie, J. V. | bioRxiv Science

bioRxiv2021

GLOBAL PATTERNS OF PLUMAGE COLOUR EVOLUTION IN ISLAND-LIVING PASSERIFORM BIRDS

Plumage coloration is an important trait involved communication and is shaped by a variety of ecological pressures. Island residency has the potential to change the evolutionary trajectory of plumage colour by differences in habitat and resources, or by altering predation pressure and social selection intensity. Latitude, island size, and isolation may further influence colour evolution by biasing colonization. Therefore, general patterns of plumage evolution are difficult to disentangle. We used phylogenetically controlled analyses to assess the influence of island residency on plumage colouration, by calculating chromaticity values from red, blue, green scores extracted from photos of Order Passeriformes birds. Importantly, we controlled for ecological factors hypothesized to influence colour evolution and assessed family-level effects. We found 1) colour varied between islands and mainlands in females, but not males, and both sexes were affected by several ecological factors; 2) patterns of colour evolution varied among families; 3) island size and distance to the mainland and other islands significantly influenced colour; and 4) interactions between ecological factors and latitude were consistently influenced colour, supporting a latitudinal gradient hypothesis. Our results indicate although island residency influences female colour evolution, a myriad of ecological factors drive plumage colour and the patterns vary among families.

ecology↗

bioRxiv2020

Unveiling Crucivirus Diversity by Mining Metagenomic Data

The discovery of cruciviruses revealed the most explicit example of a common protein homologue between DNA and RNA viruses to date. Cruciviruses are a novel group of circular Rep-encoding ssDNA (CRESS-DNA) viruses that encode capsid proteins (CPs) that are most closely related to those encoded by RNA viruses in the family Tombusviridae. The apparent chimeric nature of the two core proteins encoded by crucivirus genomes suggests horizontal gene transfer of CP genes between DNA and RNA viruses. Here, we identified and characterized 451 new crucivirus genomes and ten CP-encoding circular genetic elements through de novo assembly and mining of metagenomic data. These genomes are highly diverse, as demonstrated by sequence comparisons and phylogenetic analysis of subsets of the protein sequences they encode. Most of the variation is reflected in the replication associated protein (Rep) sequences, and much of the sequence diversity appears to be due to recombination. Our results suggest that recombination tends to occur more frequently among groups of cruciviruses with relatively similar capsid proteins, and that the exchange of Rep protein domains between cruciviruses is rarer than gene exchange. Altogether, we provide a comprehensive and descriptive characterization of cruciviruses. IMPORTANCEViruses are the most abundant biological entities on Earth. In addition to their impact on animal and plant health, viruses have important roles in ecosystem dynamics as well as in the evolution of the biosphere. Circular Rep-encoding single-stranded (CRESS) DNA viruses are ubiquitous in nature, many are agriculturally important, and are viruses that appear to have multiple origins from prokaryotic plasmids. CRESS-DNA viruses such as the cruciviruses, have homologues of capsid proteins (CPs) encoded by RNA viruses. The genetic structure of cruciviruses attests to the transfer of capsid genes between disparate groups of viruses. However, the evolutionary history of cruciviruses is still unclear. By collecting and analyzing cruciviral sequence data, we provide a deeper insight into the evolutionary intricacies of cruciviruses. Our results reveal an unexpected diversity of this virus group, with frequent recombination as an important determinant of variability.

evolutionary biology↗