The complete chloroplast genome of Diarthron linifolium (Thymelaeaceae), a species found on a limestone outcrop in eastern Asia

Abstract

Diarthron linifolium Turcz. is an annual herb usually found in sandy soil or limestone areas. Plants in the genus Diarthron are known to have toxic chemicals that may, however, be potentially useful as an anticancer treatment. Diarthron linifolium is a unique species among the species of the genus distributed in Korea. Here, we determine the genetic variation of D. linifolium collected in Korea with a full chloroplast genome and investigate its evolutionary status by means of a phylogenetic analysis. The chloroplast genome of Korean D. linifolium has a total length of 172,644 bp with four subregions; 86,158 bp of large single copy and 2,858 bp of small single copy (SSC) regions are separated by 41,814 bp of inverted repeat (IR) regions. We found that the SSC region of D. linifolium is considerably short but that IRs are relatively long in comparison with other chloroplast genomes. Various simple sequence repeats were identified, and our nucleotide diversity analysis suggested potential marker regions near ndhF. The phylogenetic analysis indicated that D. linifolium from Korea is a sister to the group of Daphne species.

The complete chloroplast genome of Campsis grandiflora (Bignoniaceae)

“…The criteria applied are (1) 'normal SSR' as a conventional definition from monoSSR to hexaSSR, (2) 'extented SSR' referring from heptaSSR (repeats of 7 bp unit) to decaSSR (repeats of 10 bp unit), and (3) 'potential SSR' referring specific cases with only 2 units in pentaSSR and hexaSSR. These criteria have been applied and provided better understanding of SSR patterns in previous analyses in chloroplast genomes of Dysphania species (Kim et al, 2019f), Arabidopsis thaliana (Park et al, 2020c), Chenopodium album (Park et al, 2021b), Diarthron linifolium (Kim et al, 2021b), and mitochondrial genome of Rosa rugosa (Park et al, 2020d).…”

The complete mitochondrial genome of Aclees taiwanensis Kôno, 1933 (Coleoptera: Curculionidae)

“… 2021 ; Kim et al. 2021 ). In total, 17 normal SSRs (18.89%), 65 potential SSRs (72.22%), and eight extended SSRs (8.89%) were identified, which represent a similar distribution to that of Figulus binodulus Waterhouse, 1872 (Coleoptera: Lucanidae) (Lee et al.…”

“…Four monoSSRs and six diSSRs were identified as suitable first targets to develop molecular markers for distinguishing between A. taiwanensis populations because monoSSRs and diSSRs usually displayed the variations in the number of repeats within species, such as various insect species including Sogatella furcifera (Horva'th) (Hemiptera: Delphacidae)(Park, Min, Kim, et al. 2021 ), and Stegobium paniceum (Linnaeus, 1761) (Coleoptera: Ptinidae; Anobiinae) (Park et al. 2022 ).…”

Comprehensive analysis of the complete mitochondrial genome ofMelanoplus differentialis(Acrididae: Melanoplinae) captured in Korea

“…Lee et al 2020b;Park et al, 2021e). The criteria were: monoSSR (unit sequence length = 1 bp) to hexaSSR (unit sequence length = 6 bp) were defined as normal SSRs while heptaSSR (unit sequence length = 7 bp) to decaSSR (unit sequence length = 10 bp) were defined as extended SSRs.…”

“…), Aphis gossypii (Aphididae)(Bae et al 2020;Kim et al 2021d;Park et al 2019d), Myzus persicae (Aphididae)(Jung et al 2021), Nilaparvata lugens (Delphacidae)(Choi et al 2019;Choi et al 2020;Lv et al 2015;Park et al 2019b), Sogatella furcifera (Delphacidae)(Park et al, 2021e), Alphitobius diaperinus (Tenebrionidae)(Hong et al 2020a),…”