Open AccessLow‐copy nuclear markers in Isoëtes (Isoëtaceae) identified with transcriptomes
Author(s) -
Schafran Peter W.,
Johnson Gabriel,
Taylor W. Carl,
Zimmer Elizabeth A.,
Musselman Lytton J.
Publication year - 2018
Publication title -
applications in plant sciences
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.64
H-Index - 23
ISSN - 2168-0450
DOI - 10.1002/aps3.1142
Subject(s) - biology , clade , phylogenetic tree , nuclear gene , transcriptome , evolutionary biology , phylogenetics , primer (cosmetics) , taxon , gene , genetics , mitochondrial dna , gene expression , botany , chemistry , organic chemistry
Premise of the Study Few genetic markers provide phylogenetic information in closely related species of Isoëtes (Isoëtaceae). We describe the development of primers for several putative low‐copy nuclear markers to resolve the phylogeny of Isoëtes , particularly in the southeastern United States. Methods and Results We identified regions of interest in Isoëtes transcriptomes based on low‐copy genes in other plants. Primers were designed for these regions and tested with 16 taxa of Isoëtes and one species of Lycopodium . Parts of the pgiC , gapC , and IBR 3 gene regions show phylogenetic signal within the North American and Mediterranean clades of Isoëtes . Conclusions Transcriptome data prove useful for identification and primer design of low‐copy genes. Three new markers show potential for inferring phylogenies in regional clades of Isoëtes , and possibly across the entire genus.