Unioverse:  a phylogenomic resource for reconstructing the evolution of freshwater mussels (Bivalvia, Unionoida) 

Unioverse is a freshwater mussel-specific anchored hybrid enrichment probe set that successfully captures hundreds of nuclear markers from all major lineages of the Unionoida. This resource is aimed at facilitating more data-rich and taxonomically inclusive reconstructions of freshwater mussel evolution.

The paper describing this resource can be found here. All the data, including the new transcriptomes, genomic references, probes sequences, filtered sequences, analyzed matrices, and resultant phylogenies can be found on Dryad. The raw RNA-seq and Illumina reads can be found at NCBI BioProject 515912.

 The Unioverse probe is designed to capture 811 nuclear protein coding genes with a total length of over 170, 000 nt. 


This figure describes the number of loci captured per sample from taxa distributed across the entirety of freshwater mussel diversity (A) and percent gene occupancy per loci (B).

Figure_2.png

This figure describes the number of loci captured per individual as a function of phylogenetic distance to nearest reference in probe design (A) and the number of loci captured per individual as a function of the number of years of preservation (B). We are currently using the Unioverse probe set to reconstruct the evolution of extinct and exceedingly rare taxa by sequencing historical DNA preserved in the dried tissues and shells of museum specimens.

Figure_3.png

This figure demonstrates that the Unioverse probe set captures a large distribution of more or less conserved loci (measured as a function of the percent of variable site per locus - conserved loci on left, highly variable loci on right) (A). Dividing the entire dataset into ten 57-loci datasets of increasing variability (VS1-VS10) generated vary similar phylogenies to the concatenated dataset as a whole (as measured by Robinson-Foulds distances and % unique bipartitions - different markers, similar phylogenetic signal) (B).

Figure_7.png

Unioverse - more than just cute