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The complete chloroplast genome of Populus rotundifolia (Salicaceae)

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Abstract

Populus rotundifolia, which is an endemic of the Himilayas and adjacent regions, is the species that occupy the highest habitat in the Populus genus. In this study, we assembled its complete chloroplast genome. The total genome size of P. rotundifolia is 155,373 bp in length, containing a large single-copy region of 84,603 bp, a small single-copy region of 16,806 bp and a pair of inverted repeat regions of 26,982 bp. We annotated 131 genes in the genome, including 86 protein-coding genes (78 PCG species), 8 rRNA genes (4 rRNA species), and 37 tRNA genes (30 tRNA species). Among these, 19 genes were duplicated in the inverted repeats. Phylogenetic analysis suggested that, among all reported poplar chloroplast genomes, P. rotundifolia is most closely related to the common aspen (P. tremula).

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References

  • Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19:11–15

    Google Scholar 

  • Huang DI, Cronk QCB (2015) Plann: a command-line application for annotating plastome sequences. Appl Plant Sci 3(8):1500026

    Article  Google Scholar 

  • Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772–780

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • 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

    Article  PubMed  PubMed Central  Google Scholar 

  • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R, 1000 Genome Project Data Processing Subgroup (2009) The sequence alignment/map format and SAMtools. Bioinformatics 25(16):2078–2079

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30(12):2725–2729

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Wu ZQ, Ge S (2012) Phylogeny of the BEP clade in grasses revisited: evidence from whole genome sequences of chloroplast. Mol Phylogenet Evol 62:573–578

    Article  PubMed  Google Scholar 

  • Zerbino DR, Birney E (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18(5):821–829

    Article  CAS  PubMed  PubMed Central  Google Scholar 

Download references

Acknowledgments

This work was supported by the National Natural Science Foundation of China (41571054, 31590821).

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Authors and Affiliations

  1. MOE Key Laboratory of Bio-Resources and Eco-Environment, College of Life Science, Sichuan University, Chengdu, China

    Honglei Zheng, Liqiang Fan, Tianjing Wang, Lei Zhang, Tao Ma & Kangshan Mao

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  1. Honglei Zheng
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  2. Liqiang Fan
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  3. Tianjing Wang
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  4. Lei Zhang
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  5. Tao Ma
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  6. Kangshan Mao
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Correspondence to Kangshan Mao.

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Zheng, H., Fan, L., Wang, T. et al. The complete chloroplast genome of Populus rotundifolia (Salicaceae). Conservation Genet Resour 8, 399–401 (2016). https://doi.org/10.1007/s12686-016-0568-1

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  • DOI: https://doi.org/10.1007/s12686-016-0568-1

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