Identification of Genic SSRs Provide a Perspective for Studying Environmental Adaptation in the Endemic Shrub <i>Tetraena mongolica</i>

• Main Authors: Zhenhua Dang, Lei Huang, Yuanyuan Jia, Peter J. Lockhart, Yang Fong, Yunyun Tian
• Format: Article
• Language: English
• Published: MDPI AG 2020-03-01
• Series: Genes
• Subjects: genic ssr; polymorphic; environmental adaptation; transcriptome; <i>tetraena mongolica</i>
• Online Access: https://www.mdpi.com/2073-4425/11/3/322

<i>Tetraena mongolica</i> is a xerophytic shrub endemic to desert regions in Inner Mongolia. This species has evolved distinct survival strategies that allow it to adapt to hyper-drought and heterogeneous habitats. Simple sequence repeats (SSRs) may provide a molecular basis in plants for fast adaptation to environmental change. Thus, identifying SSRs and their possible effects on gene behavior has the potential to provide valuable information for studies of adaptation. In this study, we sequenced six individual transcriptomes of <i>T. mongolica</i> from heterogeneous habitats, focused on SSRs located in genes, and identified 811 polymorphic SSRs. Of the identified SSRs, 172, 470, and 76 were located in 5&#8242; UTRs, CDSs, and 3&#8242; UTRs in 591 transcripts; and AG/CT, AAC/GTT, and AT/AT were the most abundant repeats in each gene region. Functional annotation showed that many of the identified polymorphic SSRs were in genes that were enriched in several GO terms and KEGG pathways, suggesting the functional significance of these genes in the environmental adaptation process. The identification of polymorphic genic SSRs in our study lays a foundation for future studies investigating the contribution of SSRs to regulation of genes in natural populations of <i>T. mongolica</i> and their importance for adaptive evolution of this species.