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Nuclear genetic variation of Rosa odorata var. gigantea (Rosaceae): population structure and conservation implications

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Abstract

Rosa odorata var. gigantea is one of the most important ancestors of modern roses, which owns many merit traits including large flower, early flowering, and tea scent. Due to habitat loss and fragmentation, it has been listed as a rare and endangered species in China. In this study, a total of 424 accessions from 27 locations across its major distribution range were sampled. Its genetic diversity and population structure were assessed using a combination of seven nuclear microsatellite markers and one single-copy nuclear gene. Moderate to high within-population genetic diversity and moderate differentiation among populations were revealed despite its narrow distribution. The sampled 27 populations were resolved into two genetic clusters with limited contemporary and historical gene flows. The Red River Fault Zone was inferred to be a physical or geographical barrier to gene flow between these two genetic clusters. Genetic distances were significantly associated with geographic distances, indicating the isolation-by-distance model. Our ecological niche modeling indicated that R. odorata var. gigantea had high current potential areas in the central Yunnan province and substantial losses of high potential distribution areas in the western Yunnan in the future. Two detected clusters showed significant genetic differentiation and represented two separate evolutionary lineages, which should be recognized as two evolutionary significant units (ESUs) for conservation concerns. These results could be applied for the decision-making and conservation planning for this important species.

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Acknowledgments

We thank Jiang Wei and Yang Yang for sample collection and field assistance, and Yang Junbo, Wang Qun, and Zhao Xingfeng for their assistance on laboratory works, and Poudel C. Ram and Jiang Wei for revising our manuscript. This study was supported by grants from the National Key Basic Research Program of China (grant no. 2014CB954100), the Applied Fundamental Research Foundation of Yunnan Province (grant no. 2014GA003), the Talent Project of Yunnan Province (project no. 2011CI042), and the Scientific Research Fund Project of Yunnan Provincial Department of Education (project no. 2013Y465). This study was conducted in the Key Laboratory of the Southwest China Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences.

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Authors and Affiliations

  1. Plant Germplasm and Genomics Center, Germplasm Bank of Wild species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, 650204, China

    Jing Meng, De-Zhu Li & Ting-Shuang Yi

  2. College of Horticulture and Landscape, Yunnan Agricultural University, Yunnan, 650201, China

    Jing Meng & Shui-Lian He

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  1. Jing Meng
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  2. Shui-Lian He
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  3. De-Zhu Li
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  4. Ting-Shuang Yi
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Correspondence to Ting-Shuang Yi.

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The authors declare that they have no commercial or financial relationships that could be construed as a potential conflict of interest.

Data Archiving Statement

The sequences of 14 GAPDH haplotypes have been deposited in GenBank (accession numbers from KF562844 to KF562857). All of the GAPDH aligned sequence set will be submitted to PopSet. Our microsatellite raw data for 424 Rosa odorata var. gigantea genotypes will be deposited in the Genome Database of Rosaceae (GDR) Database, and accession number will be provided once available.

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Communicated by V. Decroocq

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Meng, J., He, SL., Li, DZ. et al. Nuclear genetic variation of Rosa odorata var. gigantea (Rosaceae): population structure and conservation implications. Tree Genetics & Genomes 12, 65 (2016). https://doi.org/10.1007/s11295-016-1024-9

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  • DOI: https://doi.org/10.1007/s11295-016-1024-9

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