Reappraising plastid markers of the red algae for phylogenetic community ecology in the genomic era.

ABSTRACT: Selection of appropriate genetic markers to quantify phylogenetic diversity is crucial for community ecology studies. Yet, systematic evaluation of marker genes for this purpose is scarcely done. Recently, the combined effort of phycologists has produced a rich plastid genome resource with taxonomic representation spanning all of the major lineages of the red algae (Rhodophyta). In this proof-of-concept study, we leveraged this resource by developing and applying a phylogenomic strategy to seek candidate plastid markers suitable for phylogenetic community analysis. We ranked the core genes of 107 published plastid genomes based on various sequence-derived properties and their tree distance to plastid genome phylogenies. The resulting ranking revealed that the most widely used marker, rb

SUBMITTER: Zhan SH 

PROVIDER: S-EPMC7029088 | biostudies-literature | 2020 Feb

REPOSITORIES: biostudies-literature