==== Front Mitochondrial DNA B Resour Mitochondrial DNA B Resour Mitochondrial DNA. Part B, Resources 2380-2359 Taylor & Francis 10.1080/23802359.2019.1673228 1673228 Version of RecordResearch Article Mitogenome Announcement The complete chloroplast genome of Prunus verecunda, and phylogenetic analysis with amygdaleae species D. Jiang et al.The Complete Chloroplast GenomeJiang Dongyue Liu Xinhong Shen Xin Zhejiang Academy of Forestry, Hangzhou, PR China CONTACT Xin Shen shenxinjdy@126.comZhejiang Academy of Forestry, Hangzhou, 310023, Zhejiang, PR China 4 10 2019 2019 4 2 3338 3339 © 2019 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.2019The Author(s)This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.http://creativecommons.org/licenses/by/4.0/Abstract We assembled complete chloroplast (cp) genome of Prunus verecunda based on Illumina sequencing. The cp genome of P. verecunda is 157,917 bp in length with 129 genes comprising 84 protein-coding genes, 37 tRNA genes and 8 rRNA ribosomal genes. The overall GC content of cp genome is 36.7%. A maximum likelihood phylogenetic analysis revealed that P. verecunda is sister to P. serrulata var. spontanea and P. maximowiczii. Keywords Prunus verecundachloroplast genomepair-end sequencingphylogenetic analysis ==== Body Prunus verecunda Koehne (Rosaceae), also named P. leveilleana, is a deciduous tree native to Korea and Japan. This species is considered to be part of P. serrulata complex with P. jamasakura, which is surrounded taxonomic confusion because of the high degree of morphological intergradation (Chang et al. 2007). It generally has autumnal leaves of reddish-brown or crimson red color and flowers of pale pink to white colors (Iwatsuki et al. 2001). Here, we assembled the complete chloroplast (cp) genome of P. verecunda (MN242946) and analyzed its phylogenetic status in Amygdaleae which will be beneficial to future studies on the conservation, phylogeny and breeding of Cerasus. We collected fresh leaves of P. verecunda from Wuhan Faya Garden Group Co., Ltd., Hubei province, China (30°29′14.8″N 114°33′1.7″E). A voucher specimen (JDYY061) was deposited in the Herbarium of Zhejiang Academy of Forestry, Hangzhou, China. Total DNA was isolated using Hi-DNAsecure Plant Kit (Tiangen, Beijing, CN). The sequencing DNA from short-insert (<800 bp) paired-end library was performed on a HiSeq XTM Ten analyzer (Illumina, San Diego, California, USA) at Beijing Genomics Institute (BGI, Shenzhen, China). The chloroplast DNA sequences were manually mapped to the reference P. maximowiczii (KP760071) and assembled using Geneious (R10.2.3) and SPAdes software (Bankevich et al. 2012; Kearse et al. 2012). The cp genome annotation and correction were implemented using Plann and Sequin (Huang and Cronk 2015). The P. verecunda chloroplast genome is 157,917 bp in length and contains a pair of inverted repeat (IR, 26,437 bp) regions, separating a small single copy (SSC, 19,121 bp) region and a large single copy (LSC, 85,922 bp) region. The whole cp genome encodes 112 unique genes, of which 18 are duplicated in the IRs, giving a total of 129 genes, including 84 protein-coding genes (PCG), 37 tRNA genes, 8 rRNA ribosomal genes. Among these genes, most of genes occur in a single copy, while 6 PCGs, 7 tRNA genes, and 4 rRNA genes in IR regions are duplicated. The overall GC content of P. verecunda cp genome is 36.7% with 34.6, 30.2 and 42.5% GC in the LSC, SSC and IR regions, respectively. To clarify the phylogenetic position of P. verecunda, the complete cp genome sequence of P. verecunda was used to construct the phylogenetic tree with 18 Amygdaleae species of which cp genome sequences were downloaded from GenBank database. The maximum likelihood (ML) was performed using PhyloSuite (Zhang et al. 2018) with 1000 bootstrap replicates. The phylogenetic tree is comprised of three clades, subg. Prunus, subg. Padus and subg. Cerasus, and P. verecunda is sister to P. serrulata var. spontanea and P. maximowiczii (Figure 1). Figure 1. Maximum likelihood phylogenetic tree for Prunus verecunda based on 19 complete cp genomes with 1000 bootstrap replicates. Acknowledgments We would like to thank Wuhan Faya Garden Group Co., Ltd. for providing fresh leaves of P. verecunda. Disclosure statement No potential conflict of interest was reported by the authors. ==== Refs References Bankevich A , Nurk S , Antipov D , Gurevich AA , Dvorkin M , Kulikov AS , Lesin VM , Nikolenko SI , Pham S , Prjibelski AD , et al. 2012 SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing . J Comput Biol . 19 :455 –477 .22506599 Chang KS , Chang CS , Park TY , Roh MS 2007 Reconsideration of the Prunus serrulata complex (Rosaceae) and related taxa in eastern Asia . Bot J Linn Soc . 154 :35 –54 . Huang DI , Cronk QCB 2015 Plann: a command-line application for annotating plastome sequences . Appl Plant Sci . 3 :1500026 . 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