Abstract
Elaeagnus mollis is a rare and endangered oil tree species endemic to China. Here we assembled and characterized its whole chloroplast (cp) genome using Illumina pair-end sequencing data. The E. mollis cp genome was 151,428 bp in length, containing a large single copy region (LSC) of 81,003 bp and a small single copy region (SSC) of 18,561 bp separated by a pair of inverted repeats (IRs) of 25,932 bp. The genome possessed 131 genes, including 85 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. Most of genes occurred as single-copy, while 18 gene species had two copies. The overall GC content of the E. mollis cp genome was 37.0%, and the corresponding values of LSC, SSC and IR regions were 35.0, 30.3 and 42.2%, respectively. The phylogenomic analysis revealed that E. mollis clustered with E. macrophylla in Elaeagnaceae, which was closely related to Moraceae and Cannabaceae belonging to Rosales.
References
Choi KS, Son OG, Park SJ (2015) The chloroplast genome of Elaeagnus macrophylla and trnH duplication event in Elaeagnaceae. PLoS ONE 10:e0138727
Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19:11–15
Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772–780
Liang S, Yang R, Dong C, Yang Q (2015) Physicochemical properties and fatty acid profiles of Elaeagnus mollis Diels nut oils. J Oleo Sci 64:1267–1272
Lohse M, Drechsel O, Kahlau S, Bock R (2013) OrganellarGenomeDRAW-a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets. Nucl Acids Res 41(Web Server issue):W575-W581
Miller MA, Pfeiffer W, Schwartz T (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Gatew Comput Environ Workshop (GCE). doi:10.1109/GCE.2010.5676129
Qin H, Gilbert MG (2007) Flora of China, Alangiaceae through Violaceae. In Wu ZY, Raven PH, Hong DY (eds) Flora of China, Vol.13, Science Press, Missouri Botanical Garden Press, Beijing, St. Louis, pp 251–273
Stamatakis A (2014) RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30:1312–1313
Wang WC, Chen SY, Zhang XZ (2016) Chloroplast genome evolution in Actinidiaceae: clpP loss, heterogenous divergence and phylogenomic practice. PLoS ONE 11:e0162324
Wyman SK, Jansen RK, Boore JL (2004) Automatic annotation of organellar genomes with DOGMA. Bioinformatics 20:3252–3255
Xie SL, Ling YJ (1997) The biology features and conservation of Elaeagnus mollis, a rare and endangered plant species. Bull Bot Res 17:153–157
Zhang JM, Zhang F (2015) Population structure and genetic variation of the endangered species Elaeagnus mollis Diels (Elaeagnaceae). Genet Mol Res 14:5950–5957
Zhang SD, Soltis DE, Yang Y, Li DZ, Yi TS (2011) Multi-gene analysis provides a well-supported phylogeny of Rosales. Mol Phylogenet Evol 60:21–28
Acknowledgements
This work is supported by the National Natural Science Foundation of China (31600173) and the Basic Science Fund of Northwest A&F University (2452016052).
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Wang, WC., Chen, SY. & Zhang, XZ. Characterization of the complete chloroplast genome of Elaeagnus mollis, a rare and endangered oil plant. Conservation Genet Resour 9, 439–442 (2017). https://doi.org/10.1007/s12686-017-0706-4
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s12686-017-0706-4