The complete chloroplast genome of Chenopodium ficifolium Sm. (Amaranthaceae)

Abstract

Chenopodium ficifolium Sm. is an invasive weedy species, one of the main targets for weed control in Korea. In this study, we presented the first complete chloroplast genome of C. ficifolium which is 151,823 bp long and has four subregions: 83,668 bp of large single copy (LSC) and 17,937 bp of small single copy (SSC) regions are separated by 25,109 bp of inverted repeat (IR) regions including 129 genes (84 protein-coding genes, eight rRNAs, and 37 tRNAs). The overall GC content of the chloroplast genome is 37.3% and those in the LSC, SSC, and IR regions are 35.3%, 31.0%, and 42.7%, respectively. Phylogenetic tree shows that C. ficifolium is clustered with C. album forming a monophyletic clade with other Chenopodium species.

The Comparative Analyses of Six Complete Chloroplast Genomes of Morphologically Diverse Chenopodium album L. (Amaranthaceae) Collected in Korea

“…After obtaining the first draft of the chloroplast genome sequences, gaps were filled with GapCloser v1.12 [ 42 ], and all bases from the assembled sequences were confirmed by checking each base in the alignment (tview mode in SAMtools v1.9 [ 43 ]) against the assembled chloroplast genome generated with BWA v0.7.17 [ 44 ]. All these processes were conducted under the environment of the Genome Information System (GeIS; http://geis.infoboss.co.kr/ ; Park et al, in preparation) like other Amaranthaceae chloroplast genomes assembled [ 38 , 39 , 45 – 49 ].…”

The second complete chloroplast genome of Dysphania pumilio (R.Br.) mosyakin & clemants (Amranthaceae): intraspecies variation of invasive weeds

“…Two complete Dysphania (Kim et al 2019b), six Cheopodium (Devi and Thongam 2017;Hong et al 2017;Wang et al 2017;Kim et al 2019a), and five Amranthaceae chloroplast genomes were used for constructing bootstrapped neighborjoining, maximum likelihood, and minimum evolution phylogenetic trees using MEGA X (Kumar et al 2018) based on whole chloroplast genome alignment calculated by MAFFT 7.388 (Katoh and Standley 2013). Phylogenetic trees show the phylogenetic position of Dysphania genus is the same as previous phylogenetic study (Figure 1; Fuentes-Bazan et al 2012).…”

The complete chloroplast genome of Atriplex gmelinii C. A. Mey. ex Bong. (Amaranthaceae)

“…Geneious Prime ® v2020.2.4 (Biomatters Ltd., Auckland, New Zealand) was used for chloroplast genome annotation based on Chenopodium ficifolium SM_1800 chloroplast genome (NC_041200) (Kim et al. 2019a ).…”