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Conservation Genetics Resources

, Volume 10, Issue 4, pp 713–715 | Cite as

Complete chloroplast genome of Firmiana major (Malvaceae), a critically endangered species endemic to southwest China

  • Ji-Dong Ya
  • Zhi-Xiang Yu
  • Yan-Qiong Yang
  • Shu-Dong Zhang
  • Zhi-Rong Zhang
  • Jie Cai
  • Jun-Bo Yang
  • Wen-Bin YuEmail author
Technical Note
  • 182 Downloads

Abstract

Firmiana major is an endangered species in southwest China, which had been considered as extinct in the wild on the IUCN Red List of Threatened Species in 1998. Fortunately, around 2000 wild individuals were rediscovered along the valley of Jinshajiang river in south Sichuan and north Yunnan. In this study, we reported a complete chloroplast genome of F. major, which was de novo assembled using the next-generation sequencing data. The plastome was 161,302 bp in length, consisting of a pair of inverted repeat (25,543 bp for each), one large single copy (90,178 bp) and one small single copy (20,038 bp) regions. The whole genome contained 132 genes, including 87 protein-coding, 37 tRNA and 8 rRNA genes. The overall GC content of the whole genome was 36.9%. Maximum likelihood analysis showed that F. major was sister to Tilia spp.

Keywords

Firmiana major Plastid genome Malvaceae IUCN Endangered species 

Notes

Acknowledgements

We are grateful to the Germplasm Bank of Wild Species in Southwest China for supporting NGS; to Jing Yang, and Ji-Xiong Yang, for their assistance in molecular experiments. This study is supported by Grants from the National Key Basic Research Program of China (2014CB954100), the Major International Joint Research Project of National Natural Science Foundation of China (31320103919), and the Visiting Scholar Fellowships of Chinese Academy of Sciences and China Council Scholarship.

References

  1. Fu L-K, Chin C-M (eds) (1992) China plant red data book. Rare and Endangered Plants Science Press, BeijingGoogle Scholar
  2. Hsue H-H (1984) Sterculiaceae. In: Feng K-M (ed) Flora reipublicae popularis sinacae, vol 49. Science Press, Beijing, pp 112–189. http://www.efloras.org/florataxon.aspx?flora_id=2&taxon_id=10850
  3. Jiang N, Zhou Z, Yang J-B, Yu W-B (2017) Complete chloroplast genome of Anemoclema glaucifolium (Ranunculaceae), a vulnerable and threatened species endemic to the Hengduan Mountains. Conserv Genet Resour. doi :  10.1007/s12686-12017-10874-12682 CrossRefGoogle Scholar
  4. Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772–780. doi: 10.1093/molbev/mst010 CrossRefPubMedPubMedCentralGoogle Scholar
  5. Kearse M et al (2012) Geneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28:1647–1649. doi: 10.1093/bioinformatics/bts199 CrossRefPubMedPubMedCentralGoogle Scholar
  6. Liu C, Shi L, Zhu Y, Chen H, Zhang J, Lin X, Guan X (2012) CpGAVAS, an integrated web server for the annotation, visualization, analysis, and GenBank submission of completely sequenced chloroplast genome sequences. BMC Genom 13:715. doi: 10.1186/1471-2164-13-715 CrossRefGoogle Scholar
  7. 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. Nucleic Acids Res 41:W575–W581. doi: 10.1093/nar/gkt289 CrossRefGoogle Scholar
  8. Song Y et al (2017) Evolutionary comparisons of the chloroplast genome in Lauraceae and insights into loss events in the Magnoliids. Genom Biol Evol 9:2354–2364. doi: 10.1093/gbe/evx180 CrossRefGoogle Scholar
  9. Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web servers. Syst Biol 57:758–771. doi: 10.1080/10635150802429642 CrossRefGoogle Scholar
  10. State Environmental Protection Administration, Institute of Botany (1987) List of the protected rare and endangered plants in China. Bull Biol 7:23–28Google Scholar
  11. Sun W (1998) Firmiana major. IUCN Red List Threat Species 1998:e.T32349A9700122. doi: 10.2305/IUCN.UK.1998.RLTS.T32349A9700122.en CrossRefGoogle Scholar
  12. Tang Y, Gilbert MG, Dorr LJ (2007) Sterculiaceae. In: Wu Z-Y, Raven PH, Hong D-Y (eds) Flora of China, vol 12, Missouri Botanical Garden & Science Press, St. Louis & Beijing, pp 302–330Google Scholar
  13. Wang D-S (2001) Discovering wild population of Firmiana major in Panzhihua. Sichuan Plants 2001:4–5Google Scholar

Copyright information

© Springer Science+Business Media B.V. 2017

Authors and Affiliations

  1. 1.Germplasm Bank of Wild Species, Kunming Institute of BotanyChinese Academy of SciencesKunmingChina
  2. 2.National Nature Reserve of Panzhihua Cycad in Sichuan ProvincePanzhihuaChina
  3. 3.Center for Integrative ConservationXishuangbanna Tropical Botanical GardenMenglaChina
  4. 4.Southeast Asia Biodiversity Research InstituteChinese Academy of ScienceNay Pyi TawMyanmar

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