Hostname: page-component-78c5997874-g7gxr Total loading time: 0 Render date: 2024-11-15T11:17:52.044Z Has data issue: false hasContentIssue false
  • English
  • Français

Characterization and cross-species transferability of a novel set of microsatellites derived from root transcriptomes of Camellia oleifera

Published online by Cambridge University Press:  21 February 2019

Shuangcheng Wu ,
Hang Ye ,
Yuansong Chen ,
Jiemei Deng ,
Jiexia Su ,
Yayu Xie ,
Qinru Xie ,
Zhaoyuan Zhang ,
Zihai Qin  and
Yufei Xiao
...Show all authors
Shuangcheng Wu
Affiliation:
Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Qinzhou University, Qinzhou Guangxi, China
Hang Ye
Affiliation:
Guangxi Key Laboratory of Special Non-wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, Nanning Guangxi, China
Yuansong Chen
Affiliation:
Guangxi State-owned Sanmenjiang Forestry Farm, Liuzhou Guangxi, China
Jiemei Deng
Affiliation:
Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Qinzhou University, Qinzhou Guangxi, China
Jiexia Su
Affiliation:
Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Qinzhou University, Qinzhou Guangxi, China
Yayu Xie
Affiliation:
Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Qinzhou University, Qinzhou Guangxi, China
Qinru Xie
Affiliation:
Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Qinzhou University, Qinzhou Guangxi, China
Zhaoyuan Zhang
Affiliation:
Guangxi Key Laboratory of Special Non-wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, Nanning Guangxi, China
Zihai Qin
Affiliation:
Guangxi Key Laboratory of Special Non-wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, Nanning Guangxi, China
Yufei Xiao
Affiliation:
Guangxi Key Laboratory of Special Non-wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, Nanning Guangxi, China
Xiaoyun Wang*
Affiliation:
Collaborative Innovation Center for the Modern Technology and Industrial Development of Jiangxi Minority Traditional Medicine, Jiangxi University of Traditional Chinese Medicine, Nanchang Jiangxi, China
Pengliang Wang*
Affiliation:
Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Qinzhou University, Qinzhou Guangxi, China Guangxi Key Laboratory of Special Non-wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, Nanning Guangxi, China
*
*Corresponding author. E-mail: [email protected]; [email protected]
*Corresponding author. E-mail: [email protected]; [email protected]
Get access Rights & Permissions [Opens in a new window]

Abstract

Camellia oleifera is an important woody plant producing healthy edible oils. People need a large number of molecular markers, especially microsatellite, in breeding of C. oleifera. In this study, we sequenced the root transcriptomes of C. oleifera, and then designed a novel set of microsatellite markers based on the root-expressed genes. We assembled a total of 57,121 unigenes with a length of 42.63 Mb, which harboured 15,902 microsatellites. Among these microsatellites, di-nucleotide repeat motifs were the most abundant group (56.45%), then followed by tri- (25.20%), mono- (12.12%), hexa- (3.21%), penta- (2.18%) and quad-nucleotide ones (0.84%). In total, 6738 primer pairs were designed successfully to amplify the microsatellite loci. To test these microsatellite markers, 48 primer pairs were randomly selected and synthesized and validated in C. oleifera and its eight relatives. Up to 75% of the primer pairs amplified in C. oleifera and its relatives, and 62.5% displayed polymorphism. The transferability and diverse alleles across its eight relatives were detected for each polymorphic primer pair. The novel set of microsatellites derived from the root transcriptomes here provided a useful resource for future molecular genetics improvement of C. oleifera and its relatives.

Keywords

Camellia oleiferamicrosatelliteroot transcriptometransferability
Type
Short Communication
Information
Plant Genetic Resources , Volume 17 , Issue 4 , August 2019 , pp. 371 - 374
Copyright
Copyright © NIAB 2019 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Chen, Y, Yang, X, Peng, S, Li, D, Wang, X and Duan, W (2005) Research status and developmental strategy of selection and breeding of elitle in Camellia in China. Forestry Science and Technology 19: 1–4.Google Scholar
Chen, Y, Dai, X, Hou, J, Guan, H, Wang, Y, Li, Y and Yin, T (2016) DNA fingerprinting of oil camellia cultivars with SSR markers. Tree Genetics & Genomes 12: 1–8.Google Scholar
Chen, J, Yang, X, Huang, X, Duan, S, Long, C and Rong, J (2017) Leaf transcriptome analysis of a subtropical evergreen broadleaf plant, wild oil-tea camellia (Camellia oleifera), revealing candidate genes for cold acclimation. BMC Genomics 18: 211.Google Scholar
Drapek, C, Sparks, EE and Benfey, PN (2017) Uncovering gene regulatory networks controlling plant cell differentiation. Trends in Genetics 33: 529–539.Google Scholar
Grabherr, MG, Haas, BJ, Yassour, M, Levin, JZ, Thompson, DA, Amit, I, Adiconis, X, Fan, L, Raychowdhury, R, Zeng, Q, Chen, Z, Mauceli, E, Hacohen, N, Gnirke, A, Rhind, N, di Palma, F, Birren, BW, Nusbaum, C, Lindblad-Toh, K, Friedman, N and Regev, A (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nature Biotechnology 29: 644–652.Google Scholar
Jia, B, Lin, Q, Zhang, L, Tan, X, Lei, X, Hu, X and Shao, F (2014) Development of 15 Genic-SSR markers in oil-tea tree (Camellia oleifera) based on transcriptome sequencing. Genetika 46: 789–797.Google Scholar
Jia, BG, Lin, Q, Feng, YZ, Hu, XY, Tan, XF, Shao, FG and Zhang, L (2015) Development and cross-species transferability of unigene-derived microsatellite markers in an edible oil woody plant, Camellia oleifera (Theaceae). Genetics and Molecular Research 14: 6906–6916.Google Scholar
Li, H, Wang, S, Ding, H, Chen, Y, Hu, C, Li, N and Wei, H (2017) Development of EST-SSR molecular markers based on transcriptome sequencing of Camellia oleifera. Plant Physiology Journal 53: 1267–1278.Google Scholar
Peakall, R and Smouse, PE (2012) Genalex 6.5: genetic analysis in Excel. Population genetic software for teaching and research – an update. Bioinformatics 28: 2537–2539.Google Scholar
Philips, RL (2006) Genetic tools from nature and the nature of genetic tools. Crop Science 46: 2245–2252.Google Scholar
Powell, W, Machray, GC and Provan, J (1996) Polymorphism revealed by simple sequence repeats. Trends Plant Science 1: 215–222.Google Scholar
Shi, J, Yin, T and Shi, J (2011) Review on development of Camellia spp. Related industry in China. Journal of Southwest Forestry University 31: 82–87.Google Scholar
Slovak, R, Ogura, T, Satbhai, SB, Ristova, D and Busch, W (2016) Genetic control of root growth: from genes to networks. Annals of Botany 117: 9–24.Google Scholar
Tan, X, Ma, L, Li, F, Yao, X, Dong, P, Su, S, Mao, Y, Li, J and Yuan, D (2012) Industrialization development strategy of woody grain and oil in China. Nonwood Forest Research 30: 1–5.Google Scholar
Thiel, T, Michalek, W, Varshney, RK and Graner, A (2003) Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theoretical and Applied Genetics 106: 411–422.Google Scholar
Varshney, RK, Graner, A and Sorrells, ME (2005a) Genic microsatellite markers in plants: features and applications. Trends in Biotechnology 23: 48–55.Google Scholar
Varshney, RK, Sigmund, R, Börner, A, Korzun, V, Stein, N, Sorrells, ME, Langridge, P and Graner, A (2005b) Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice. Plant Sci 168: 195–202.Google Scholar
Wang, P, Wang, H, Zheng, Y, Lv, Z, Liu, J and Wang, X (2014) Genetic mapping and QTL analysis for seed yield, vegetative characters and cold tolerance in centipedegrass. Scientia Horticulturae 176: 97–104.Google Scholar
Wang, P, Yang, L, Zhang, E, Qin, Z, Wang, H, Liao, Y, Wang, X and Gao, L (2017) Characterization and development of EST-SSR markers from a cold-stressed transcriptome of centipedegrass by Illumina paired-end sequencing. Plant Molecular Biology Reporter 35: 215–223.Google Scholar
Xia, EH, Jiang, JJ, Huang, H, Zhang, LP, Zhang, HB and Gao, LZ (2014) Transcriptome analysis of the oil-rich tea plant, Camellia oleifera, reveals candidate genes related to lipid metabolism. PLoS ONE 9: e104150.Google Scholar
Xu, Y (2010) Molecular Plant Breeding. Wallingford: CAB International.Google Scholar
Zhuang, R (2008) Oil-Tea Camellia in China, 2nd edn. Beijing: China Forestry Publishing House.Google Scholar
Zhuang, R (2010) Historical perspective and prospect of selection and breeding of elitle in Camellia in China. Forestry ScIence and Technology 24: 1–5.Google Scholar
Supplementary material: File

Wu et al. supplementary material

Table S1

Download Wu et al. supplementary material(File)
File 28.3 KB