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Novel SSR marker development and genetic diversity analysis of Cinnamomum camphora based on transcriptome sequencing

Published online by Cambridge University Press:  31 May 2018

Zhiting Li ,
Yongda Zhong ,
Faxin Yu  and
Meng Xu
Zhiting Li
Affiliation:
Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
Yongda Zhong*
Affiliation:
Institute of Biological Resources, Jiangxi Academy of Sciences, Nanchang 33069, China
Faxin Yu
Affiliation:
Institute of Biological Resources, Jiangxi Academy of Sciences, Nanchang 33069, China
Meng Xu*
Affiliation:
Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
*
*Corresponding author. E-mail: xum@njfu.edu.cn; zhongyongda@jxas.ac.cn
*Corresponding author. E-mail: xum@njfu.edu.cn; zhongyongda@jxas.ac.cn
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Abstract

Cinnamomum camphora (Lauraceae) is a well-known multipurpose tree with aromatic oils, insect-repellent effects and ornamental value. In this study, a total of 74,289 simple sequence repeats (SSRs) were found in 56,124 unigenes, of which 14,225 unigenes contained more than one SSR locus. Among these SSR loci, the mono-nucleotide repeats were the most frequent, with a frequency of 61.14%, followed by 24.87% di-nucleotide repeats and 12.87% tri-nucleotide repeats. Twenty-one polymorphic SSR markers were developed and validated in 45 camphor trees. The 21 loci were further examined for cross-species transferability in other six related species. The novel genic-SSR markers will not only benefit genetic diversity analysis and wild resources conservation of C. camphora, but also contribute to exploring the further evolutionary history and genetic differentiation pattern of Cinnamomum.

Keywords

Cinnamomum camphoratranscriptome dataSSR characteristicspolymorphismcross-species transferability
Type
Short Communication
Information
Plant Genetic Resources , Volume 16 , Issue 6 , December 2018 , pp. 568 - 571
Copyright
Copyright © NIAB 2018 

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References

Chen, CH, Zheng, YJ, Liu, SA, Zhong, YD, Wu, YF, Xu, LA and Xu, M (2017) The complete chloroplast genome of Cinnamomum camphora and its comparison with related Lauraceae species. Peer-Reviewed Journal 5: e3820.Google Scholar
Kameyama, Y (2012) Development of microsatellite markers for Cinnamomum camphora (Lauraceae). American Journal of Botany 99: e1–e3.Google Scholar
Kameyama, Y, Furumichi, J, Li, J and Tseng, Y-H (2017) Natural genetic differentiation and human-mediated gene flow: the spatiotemporal tendency observed in a long-lived Cinnamomum camphora (Lauraceae) tree. Tree Genetics & Genomics 13: 38.Google Scholar
Xu, M, Liu, X, Wang, JW, Teng, SY, Shi, JQ, Li, YY and Huang, MR (2017) Transcriptome sequencing and development of novel genic SSR markers for Dendrobium officinale. Molecular Breeding 37: 18.Google Scholar
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