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Appl Plant Sci. 2013 May 16;1(6). pii: apps.1200450. doi: 10.3732/apps.1200450. eCollection 2013 Jun.

Primers for low-copy nuclear genes in the Hawaiian endemic Clermontia (Campanulaceae) and cross-amplification in Lobelioideae.

Author information

1
Tropical Conservation Biology and Environmental Science Program, University of Hawai'i at Hilo, 200 West Kawili Street, Hilo, Hawaii 96720 USA.
2
Department of Biology, University of Florida, Gainesville, Florida 32611 USA ; Genetics Institute, University of Florida, Gainesville, Florida 32610 USA.

Abstract

PREMISE OF THE STUDY:

Primers were developed to amplify 12 intron-less, low-copy nuclear genes in the Hawaiian genus Clermontia (Campanulaceae), a suspected tetraploid. •

METHODS AND RESULTS:

Data from a pooled 454 titanium run of the partial transcriptomes of seven Clermontia species were used to identify the loci of interest. Most loci were amplified and sequenced directly with success in a representative selection of lobeliads even though several of these loci turned out to be duplicated. Levels of variation were comparable to those observed in commonly used plastid and ribosomal markers. •

CONCLUSIONS:

We found evidence of a genome duplication that likely predates the diversification of the Hawaiian lobeliads. Some genes nevertheless appear to be single-copy and should be useful for phylogenetic studies of Clermontia or the entire Lobelioideae subfamily.

KEYWORDS:

Clermontia; Hawai‘i; Lobelioideae; low-copy nuclear genes; next-generation sequencing; polyploidy

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