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Characterization and Phylogenetic Analysis of the Complete Chloroplast Genome of Orinus kokonoricus (Poaceae), an Endemic Species from the Qinghai-Tibet Plateau

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Abstract

Orinus kokonoricus is an alpine perennial grass (Poaceae) endemic to the Qinghai-Tibet Plateau (QTP) in China, which has extremely important ecological and genetic values. To explore characterization and phylogenetic analysis of the complete chloroplast (cp) genome of O. kokonoricus, we first sequenced and assembled its cp genome with Illumina HiSeq4000 platform in the present study. The results showed that the complete cp genome of O. kokonoricus is 134,466 bp in length with a high AT content of 61.6% and displays a standard quadripartite structure including one large single copy region (LSC, 79,932 bp), one small single copy region (SSC, 12,490 bp) and two inverted repeat regions (IRA and IRB, 21,022 bp each). It totally encodes 137 genes containing 81 protein-coding genes, 45 tRNAs genes and eight rRNAs genes. Moreover, most of these genes occur in the single copy regions. Among all annotated genes of the cp genome of O. kokonoricus, none of them harbors introns. In addition, phylogenetic analysis based on 40 complete cp genome sequences of Poaceae revealed that O. kokonoricus is sister clade to the clade of Eragrostis species in Chloridoideae.

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ACKNOWLEDGMENTS

The authors thank anonymous reviewers for their comments on the manuscript.

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Authors and Affiliations

  1. Key Laboratory of Medicinal Plant and Animal Resources in the Qinghai-Tibet Plateau, School of Life Science, Qinghai Normal University, 810008, Xining, China

    Yuping Liu, Ting Lv, Tao Liu & Xu Su

  2. Key Laboratory of Education Ministry of Environments and Resources in the Qinghai-Tibet Plateau, School of Life Science, Qinghai Normal University, 810008, Xining, China

    Yuping Liu, Ting Lv, Tao Liu & Xu Su

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  1. Yuping Liu
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  2. Ting Lv
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  3. Tao Liu
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  4. Xu Su
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Correspondence to Xu Su.

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FUNDING

This work was financially supported by the National Natural Science Foundation of China (41761009, 31260052), the Natural Science Foundation of Qinghai Province (2017-ZJ-904), the State Scholarship Fund of China Scholarship Council (201508635003) and the Young and Middle-Aged Research Foundation of Qinghai Normal University (2017-33).

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The authors declare that they have no conflict of interest. This article does not contain any studies involving animals or human participants performed by any of the authors.

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Yuping Liu, Lv, T., Liu, T. et al. Characterization and Phylogenetic Analysis of the Complete Chloroplast Genome of Orinus kokonoricus (Poaceae), an Endemic Species from the Qinghai-Tibet Plateau. Cytol. Genet. 53, 510–514 (2019). https://doi.org/10.3103/S0095452719060045

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