AUTHOR=Wang Lei , Li Fuxing , Zhao Kexin , Yang Jie , Sun Haonan , Cui Xingyong , Dong Wenpan , Li Enze , Wang Ning 

TITLE=Comparative plastomes sheds light on phylogeny of Weigela

JOURNAL=Frontiers in Plant Science

VOLUME=15

YEAR=2024

URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2024.1487725

DOI=10.3389/fpls.2024.1487725

ISSN=1664-462X

ABSTRACT=<p><italic>Weigela</italic> Thunb. is a genus in the family Caprifoliaceae. All species in this genus have high ornamental and medicinal value. However, the genetic divergence between species and the phylogeny within <italic>Weigela</italic> is still unclear. Therefore, we sequenced and analyzed four plastomes from four different <italic>Weigela</italic> species to reveal the genetic divergence among species of this genus, and the phylogeny within <italic>Weigela</italic>. The four plastomes from <italic>Weigela</italic> ranged from 156,909 bp to 157,739 bp in size, and presented a typical circular quadripartite structure. Each complete plastome contained a pair of inverted repeat regions (23,592~24,957 bp), a larger single-copy (LSC) region (89,922~90,229 bp), and a small single-copy (SSC) region (17,668~20,429 bp). We identified three types of repeats, corresponding to 268 forward repeats, 128 palindromic repeats, and 867 tandem repeats, for a total of 1,263 long repeats. A total of 352 SSRs were identified from the four plastomes, and most of them were concentrated in the LSC region and the noncoding regions. Mononucleotide repeat units were the most frequently detected types of repeats, of which A/T repeat units were the most abundant. Three mutational hotspots (<italic>trnH-psbA</italic>, <italic>trnR-ndhF</italic>, and <italic>trnN-ndhF</italic>) were identified as candidate barcodes for <italic>Weigela</italic> species. <italic>Weigela</italic> belongs to Diervilloideae located at an early diverging position in the Caprifoliaceae. Within <italic>Weigela</italic>, <italic>W. japonica</italic> and <italic>W. floribunda</italic> were sister with <italic>W. subsessilis</italic> and <italic>W. florida</italic>. This study revealed the plastome structure and variation of four well-known <italic>Weigela</italic> species, and found three candidate barcodes for further study of four well-known <italic>Weigela</italic> species. In addition, the phylogenetic location of <italic>Weigela</italic> within the Caprifoliaceae was identified.</p>