Potential use of low-copy nuclear gene <i>Xdh</i> at lower taxonomic levels based on phylogenetic analysis of the nominal section of <i>Dendrobium</i>

Abstract

&lt;i&gt;Dendrobium&lt;/i&gt; is a large group of Orchidaceae, counting more than 1,100 species, whose classification, both within the genus and individual sections, is not straightforward. Therefore, the aim of our study was to perform phylogenetic analyses for representatives of a nominal section of &lt;i&gt;Dendrobium&lt;/i&gt; and to test the usefulness of a low-copy nuclear gene encoding a xanthine dehydrogenase protein for reconstructing phylogeny. We also wish to compare the utility of two nuclear markers, &lt;i&gt;Xdh&lt;/i&gt; and ITS. To realize this, we analyzed the diversity of the two markers and the reliability of the resulting trees. Our results indicate that the nuclear ITS region shows higher variability and clade credibility in trees, in closely related species, and between sections than the low-copy nuclear gene. &lt;i&gt;Xdh&lt;/i&gt; may be more reliable at higher taxonomic levels, but confirmation of this requires further research.

BBS Gene Expression and Its Diversity in the Genus Dendrobium

“…In this study, we selected 12 important medicinal plants or representative horticultural species based on phylogenetic analysis [30][31][32], morphological classification of the genus Dendrobium [18,33], and the availability of plant specimens. Genomic DNA was extracted from 0.1 g of fresh leaves using a DNeasy Plant Mini Kit (Qiagen) according to the manufacturer's instructions, using a template for PCR amplification.…”