The first complete plastome sequence from family Flagellariaceae (Flagellaria indica L., Poales)

Abstract

As a part of phylogenomic study of graminids, we report the complete plastome sequence of Flagellaria indica L. (Flagellariaceae) (NCBI No. MZ504969). This is the first reported complete plastome sequence from the Flagellariaceae. This plastome shows typical quadripartite structure. The plastome size is 161,643 bp, which consists of 88,714 bp large single copy (LSC), 19,065 bp small single-copy (SSC), and 26,932 bp inverted repeat (IR) regions. However, we detected F. indica plastome has a 288 bp small inversion between ycf3 and trnS-GGA. The palindromic repeats of 10 bp (TTCCAATTTC/GAAATTGGAA) were located on the two break points of inversion. F. indica plastome contains 113 genes, including 79 protein-coding, 30 tRNA, and four rRNA genes. Unlike other families of graminids, the functional ycf1 and ycf2 genes exist. Sixteen genes contain one intron and two genes (clpP and ycf3) have two introns. Sixty-two simple sequence repeat (SSR) loci are scattered in the plastome, respectively. The phylogenetic tree shows that Flagellariaceae are the basal sister lineage of other graminid families.

Keywords:

• Plastome
• Flagellariaceae
• Flagellaria indica
• Graminid clade
• small inversion

Disclosure statement

The authors report no conflicts of interest for the content and writing of the paper.

Data availability statement

A specimen was deposited at the Korea University Herbarium (KUS, http://mpl.korea.ac.kr/herbarium.asp, Ki-Joong Kim, [email protected]) under the voucher number TCA2009-1388 and genomic DNA is deposited in the Plant DNA Bank in Korea (PDBK, http://pdbk.korea.ac.kr/index.asp, Ki-Joong Kim, [email protected] under the DNA no. PDBK 2009-1388. The genome sequence data that support the findings of this study are openly available in GenBank of NCBI at https://www.ncbi.nlm.nih.gov under the accession no. MZ504969 for Flagellaria indica. The associated BioProject, BioSample, and SRA numbers are PRJNA749810, SAMN20420846, and SRR15253612, respectively.

Additional information

Funding

This research was supported by the National Institute of Biological Resources (NIBR) under the International Cooperation Project for Biological Resources II-1 [Grant no. NIBR202106101].