Abstract
Bretschneideraceae is a specific single species family, and Bretschneidera sinensis is listed as ‘Endangered’ on the IUCN Red List of Threatened Species. As a relict plant of the Tertiary, B. sinensis is significant for the study of ancient geography and climate change. B. sinensis is endemic to China and is sporadically distributed in Thailand and Vietnam. In this study, the complete plastid genome sequence of B. sinensis was characterized from Illumina paired-end sequencing data. The whole plastome is 154,279 bp in length, consisting of a pair of inverted repeat (IR) regions of 26,432 bp, one large single copy (LSC) region of 83,688 bp and one small single copy (SSC) region of 17,727 bp. The genome contains 112 genes, including 78 protein-coding genes, 4 ribosomal RNA genes and 30 transfer RNA genes. Among these 112 genes, 14 contain one intron, while only two genes harbor two introns. The overall GC content of the whole plastome is 37.4%, and the corresponding values of the IR, LSC and SSC regions are 42.7, 35.3 and 31.5%, respectively.
References
Doyle JJ (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19:11–15
Huang H, Shi C, Liu Y, Mao SY, Gao LZ (2014) Thirteen Camellia chloroplast genome sequences determined by high-throughput sequencing: genome structure and phylogenetic relationships. BMC Evol Biol 14:151–167
IUCN (2013) IUCN red list of threatened species. http://www.iucnredlist.org
Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772–780
Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C, Thierer T, Ashton B, Meintjes P, Drummond A (2012) Geneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28(12):1647–1649
Lohse M, Drechsel O, Bock R (2007) OrganellarGenomeDRAW (OGDRAW): a tool for the easy generation of high-quality custom graphical maps of plastid and mitochondrial genomes. Curr Genet 52:267–274
Lu LL, David EB (2005) Bretschneidera. In: Flora of China, vol 8. Science Press, Beijing, p. 197
Montaut S, Zhang WD, Nuzillard JM, De Nicola GR, Rollin P (2015) Glucosinolate diversity in Bretschneidera sinensis of Chinese origin. J Nat Prod 78(8):2001–2006
Schattner P, Brooks AN, Lowe TM (2005) The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs. Nucleic Acids Res 33:W686–W689
Wyman SK, Jansen RK, Boore JL (2004) Automatic annotation of organellar genomes with DOGMA. Bioinformatics 20:3252–3255
Yang M, Zhang XW, Liu GM, Yin YX, Chen KF, Yun QZ, Zhao DJ, Al-Mssallem IS, Yu J (2010) The complete chloroplast genome sequence of date palm (Phoenix dactylifera L.). PLoS ONE 5:e12762
Acknowledgements
This work was supported by the Special Fund for Forestry Development and Resources Protection (No. 201711) of Forestry Department of Zhejiang Province, China.
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Dong, F., Liu, X., Zhang, Y. et al. Characterization of the complete plastid genome sequence of the endangered species Bretschneidera sinensis. Conservation Genet Resour 11, 287–290 (2019). https://doi.org/10.1007/s12686-018-1010-7
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DOI: https://doi.org/10.1007/s12686-018-1010-7