Abstract
Eucalyptus urophylla is a commercially important wood crop plantation species due to its rapid growth, biomass yield, and use as bioenergy feedstock. We characterized the genetic diversity and population structure of 332 E. urophylla individuals from 19 geographically defined E. urophylla populations with a reliability of 14,468 single-nucleotide polymorphisms (SNPs). We compared the patterns of genetic variation among these 19 populations. High levels of genetic diversity were observed throughout the 19 E. urophylla populations based on genome-wide SNP data (HE = 0.2677 to 0.3487). Analysis with STRUCTURE software, principal component analysis (PCA), and a neighbor-joining (NJ) tree indicated that E. urophylla populations could be divided into three groups, and weak population structure was observed with pairwise genetic differentiation (FST) values ranging from − 0.09 to 0.074. The low genetic diversity and shallow genetic differentiation found within the 19 populations may be a consequence of their pollination system and seed dispersal mechanism. In addition, 55 core germplasms of E. urophylla were constructed according to the genetic marker data. The genome-wide SNPs we identified will provide a valuable resource for further genetic improvement and effective use of the germplasm resources.
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Change history
03 June 2020
A Correction to this paper has been published: https://doi.org/10.1007/s11295-020-01441-3
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Acknowledgments
This work was supported by Open fund of Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, South China Agriculture University. We acknowledge funding for the work through the National Key Research and Development Program of China (Project No. 2016YFD0600501), the Planning projects for Science and Technology in Guangdong (Project No. 2015B070701009, 2016B070701008), the Innovation Project for Forestry Science and Technology in Guangdong (Project No. 2016KJCX002, 2019KJCX003). The authors would also like to thank all those who helped us find sampling sites in Indiana, Thailand, and Philippines, and all those who mailed us E. urophylla samples from Australia. We also thank the reviewers of this work for insightful and constructive feedback.
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Huixiao Yang, Weihua Zhang, and Wen Pan conceived and designed the experiments and drafted the manuscript; Huanqin Liao, Fang Xu, Xiaohui Yang and Bin Xu carried out the data analysis and the revised paper. All authors read and approved the manuscript
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The part of genotypes for Eucalyptus urophylla were loaded as supplementary material. Microarray raw datasets were uploaded to Gene Expression mnibus (http://www.ncbi.nlm.nih.ov/geo/) with accession number GSE145072.
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Communicated by D. B. Neale
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Yang, H., Liao, H., Zhang, W. et al. Genome-wide assessment of population structure and genetic diversity of Eucalyptus urophylla based on a multi-species single-nucleotide polymorphism chip analysis. Tree Genetics & Genomes 16, 39 (2020). https://doi.org/10.1007/s11295-020-1422-x
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DOI: https://doi.org/10.1007/s11295-020-1422-x