Abstract
Alseodaphne is a genus of timber trees (ca. 40 spp.) belonging to the Persea group of the Lauraceae. It is widely distributed in tropical Asia, but is often confused with Dehaasia and Nothaphoebe, and the systematics of the genus is unclear. Here, the complete chloroplast genome sequences of A. semecarpifolia will be reported, the type species of Alseodaphne, and two China-endemic species, A. gracilis and A. huanglianshanensis. The three plastomes were 153 051 bp, 153 099 bp and 153 070 bp, respectively. Comparative genomic analyses indicate that the three Alseodaphne plastomes have similar genome size and those are very different with previously published plastomes of Lauraceae in length. The length difference is directly caused by inverted repeats expansion/contraction. Four highly variable loci including psbD-trnM, ndhF-rpl32, rpl32-trnL and ycf1 among the three Alseodaphne species were identified as useful plastid candidate barcodes for Alseodaphne and Lauraceae species. Phylogenetic analyses based on 12 complete plastomes of Lauraceae species confirm a monophyletic Persea group comprising species of Alseodaphne, Phoebe, Persea and Machilus.
Acknowledgments
The authors would like to thank Prof. Jie Li and Dr. Lang Li from the Plant Phylogenetics & Conservation Group of Xishuangbanna Tropical Botanical Garden, Chinese Academy Sciences, for plant tissue exchange of Alseodaphne gracilis, and acknowledge Jun-bo Yang, Jing Yang, Juan-hong Zhang, Chun-yan Lin and Ji-xiong Yang at the Germplasm Bank of Wild Species in Southwest China, Kunming Institute of Botany, Chinese Academy Sciences, for sequencing technology. This work was supported by the project of the Southeast Asia Biodiversity Research Institute, Chinese Academy of Sciences (Y4ZK111B01), the National Natural Science Foundation of China (No. 31600531), the CAS “Light of West China” Program, and the 1000 Talents Program (WQ20110491035). We sincerely thank the anonymous referees and Dr. Oskar Faix for their critical and invaluable comments that greatly improved our manuscript.
Data Archiving Statement: The complete chloroplast genome sequence data of the three Alseodaphne species will be submitted to Genebank of NCBI through the revision process. All of the accession numbers from NCBI must be supplied prior to final acceptance of the manuscript.
Declaration of interest: The authors report no conflicts of interest. The authors alone are responsible for the content and writing of this article.
Author contributions: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.
Research funding: None declared.
Employment or leadership: None declared.
Honorarium: None declared.
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