The complete chloroplast genome of Lonicera fulvotomentosa Hsu et S. C. Cheng and its phylogenetic analysis

Abstract Lonicera fulvotomentosa Hsu et S. C. Cheng is widely used as an edible and medicinal food in China and also displays excellent pharmacological activities. The phylogenetic relationship between L. fulvotomentosa and other family members remains unclear. In this work, we assembled the cp genome of L. fulvotomentosa using the high-throughput Illumina pair-end sequencing data. The circular cp genome is 155,102 bp in size, including a large single-copy (LSC) region of 88,906 bp and a small single-copy (SSC) region of 18,628 bp, which were separated by two inverted repeat (IR) regions (23,784 bp each). A total of 129 genes were predicted, including eight ribosomal RNAs (rRNAs), 39 transfer RNAs (tRNAs), and 82 protein-coding genes (PCGs). Furthermore, phylogenetic analysis revealed that L. fulvotomentosa formed a different clade from other two congeneric species (Lonicera confuse and Lonicera japonica). This study provides useful information for future genetic study of L. fulvotomentosa.

Lonicera fulvotomentosa Hsu et S. C. Cheng belongs to the Caprifoliaceae family, is distributed in mountainous areas of southern China (northwest of Guangxi, southwest of Guizhou and Yunnan). It also has a commonly known Chinese name as 'Shan Yin Hua'. To date, many active ingredients, including caffeoylquinic acid, cerebrosides, nitrogen-containing iridoid glycosides, and triterpene glycosides, have been isolated and characterized from Lonicera species (Peng et al. 2000;Lin et al. 2008;Zheng et al. 2012;Yu et al. 2015;Kong et al. 2017). These active ingredients have shown anti-allergic, antiinflammatory, anti-bacterial, and anti-viral activities (Xu et al. 2007;Xiong et al. 2013). Although L. fulvotomentosa shows economic value, few genetic researches have been done on this plant. In this work, the complete chloroplast (cp) genome of L. fulvotomentosa has been reported, the assembled and determined cp genome sequence of L. fulvotomentosa will be a useful resource for future genetic and genomic research.
Young and healthy leaf samples were collected from Dashuijing Village, Dewo Town, Anlong County, Guizhou Province, China (25 0 0 53.57 00 N, 105 14 0 17.73 00 E, 1141 m above sea level). The leaf specimen (accession number: GZNUYZW202003001) was deposited in the herbarium of School of Life Sciences, Guizhou Normal University. The total genomic DNA (no. YZW202003002) was extracted using DNAsecure Plant Kit (TIANGEN, Beijing, China) and stored at À80 C in the laboratory (room number: 1403) of School of Life Science, Guizhou Normal University. A total amount of 700 ng DNA per sample was used as input material for the DNA sample preparations. Sequencing libraries were generated using NEB Next V R Ultra DNA Library Prep Kit for Illumina V R (NEB, Ipswich, MA). Total DNA was used to generate libraries with an average insert size of 350 bp. The library preparations were sequenced on an Illumina platform and 150 bp pairedend reads were generated. The filtered reads were assembled using the program GetOrganelle (Jin et al. 2019) with Lonicera japonica (GenBank accession number: MH028738) as the initial reference genome. The assembled cp genome was annotated using the online software GeSeq (Tillich et al. 2017). The accurate annotated complete cp genome was submitted to GenBank with accession number MW186760.
To further understand the cp genome of L. fulvotomentosa, 20 cp genome sequences of Caprifoliaceae family (12 Lonicera species, two species from genus Dipelta, one Heptacodium species, one specie from genus Triosteum, one Weigela species, and three species from genus Patrinia) were downloaded from GenBank to construct the phylogenetic trees through maximum-likelihood (ML) analysis. The ML tree was performed using RAxML (Version 8.0.19, GTRGAMMA) (Stamatakis 2014) with 1000 bootstrap replicates. The phylogenetic tree indicated that L. fulvotomentosa belongs to genus Lonicera (Figure 1) and formed a different clade from Lonicera confuse and Lonicera japonica (Figure 1).

Disclosure statement
No potential conflict of interest was reported by the author(s).

Data availability statement
The annotated chloroplast genome 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 number MW186760. The associated BioProject, SRA, and Bio-Sample numbers are PRJNA674956, SRX9460984, and SAMN16684233, respectively.