Comparison of taxon-specific versus general locus sets for targeted sequence capture in plant phylogenomics.

ABSTRACT:

Premise of the study

Targeted sequence capture can be used to efficiently gather sequence data for large numbers of loci, such as single-copy nuclear loci. Most published studies in plants have used taxon-specific locus sets developed individually for a clade using multiple genomic and transcriptomic resources. General locus sets can also be developed from loci that have been identified as single-copy and have orthologs in large clades of plants.

Methods

We identify and compare a taxon-specific locus set and three general locus sets (conserved ortholog set [COSII], shared single-copy nuclear [APVO SSC] genes, and pentatricopeptide repeat [PPR] genes) for targeted sequence capture in Buddleja (Scrophulariaceae) and outgroups. We evaluate their performance in terms of a

SUBMITTER: Chau JH 

PROVIDER: S-EPMC5895190 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature