The complete chloroplast genome sequence of the Manglietia longirostrata Sima, a rare and endemic species to china

Abstract Manglietia longirostrata Sima is a rare and endemic species in China. The complete chloroplast genome (cpDNA) of M. longirostrata was sequenced and assembled in this study. The cpDNA is 160,049 bps in length, contains a large single-copy region (LSC) of 88,098 bp and a small single-copy region (SSC) of 18,861 bp, separated by a pair of identical inverted repeat (IR) regions of 26,571 bp, each. The genome contains 123 genes, including 73 protein-coding genes, 8 ribosomal RNA genes, and 37 transfer RNA genes. Phylogenetic analysis of cp genome of M. longirostrata with 11 chloroplast genomes previously reported in the Magnoliaceae shows that M. longirostrata is close to Manglietia megaphylla with high bootstrap value.

. After a careful field study, Sima Yongkang et al. found this species is scattered rarely in southeastern of Yunnan province in China, including Malipo, Yuanyang, and Jingpin county, the altitude range is 900 1300 m, and the species was combined and stated in the genus Manglietia in the Magnoliaceae (Sima et al. 2016). Here, the annotated chloroplast (cp) genome sequence of M. longirostrata has been assembled and submitted to the GenBank with the accession number MT584886 and we performed a phylogenetic analysis which would benefit the genetic and phylogenetic research within this genus species.
The fresh leaves of M. longirostrata were collected from a tree cultivated in Kunming Arboretum, Yunnan Academy of Forestry & Grassland Science, Yunnan Province of China (25 9 0 5 00 N, 102 44 0 45 00 E). The sheets of the vouchered specimen (Sima and Lu 2012) are stored at the herbaria of YAF and YCP.
Total genomic DNA was extracted from the fresh leaves using Rapid Plant Genomic DNA Isolation Kit. The extracted DNA was sequenced using the Illumina Miseq platform (Illumina, San Diego, CA). In total, 85.1 M of 150-bp raw reads were retrieved. In order to ensure the quality of information analysis, the original reads must be filtered to get lean reads using Trimmomatic (Bolger et al. 2014). Sequencing data were assembled with SPAdes and GapFille (Boetzer and Pirovano 2012) was used to supplement the GAP of the contig obtained by stitching. The genome was automatically annotated using Prokka (Seemann 2014). OGDRAW v1.3.1 (Greiner et al. 2019) was used to generate a physical map of the cp genome.
The complete cp genome of 9 reported Magnoliaceae species and one Liriodendron species as an outgroup were downloaded from NCBI GenBank and Lirianthe delavayi's cp genome sequence from our work before (Liang et al. 2020) for the phylogenetic analysis. The combined datasets of 12 species were aligned by Kalign (Madeira et al. 2019). A maximum-likelihood (ML) tree was constructed in MEGA X with 1000 bootstrap replications (Kumar et al. 2018). The phylogenetic tree reveals that M. longirostrata is most closely related to M. megaphylla with strong bootstrap support ( Figure 1) and the genera phylogenetic relationship is almost accord with the phylogenetic tree of Lirianthe coco ) and all genera mentioned in this study are monophyletic under the taxonomical system of Magnoliaceae by Sima and Lu (2012). We think that the cp genome resource of M. longirostrata will be valuable for future studies in conservation genetics, taxonomy, phylogeny, and breeding in the Manglietia species.

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

Funding
This study was financially supported by National Natural Science