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| Status |
Public on Jan 31, 2023 |
| Title |
Genome-wide assessment of population structure and genetic diversity of Eucalyptus urophylla based on a multi-species single nucleotide polymorphism chip analysis |
| Organism |
Eucalyptus urophylla |
| Experiment type |
Genome variation profiling by SNP array
SNP genotyping by SNP array
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| Summary |
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 moderate 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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| Overall design |
In total, 382 samples were analyzed without replicates or control or/and reference samples.
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| Contributor(s) |
Yang H, Yang X, Xu F, Liao H, Pan W, Zhang W, Xu B, Zhu B, Wang Y, Chen X |
| Citation missing |
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| |
| Submission date |
Feb 10, 2020 |
| Last update date |
Feb 02, 2023 |
| Contact name |
Huixiao Yang |
| E-mail(s) |
yanghx1111@163.com
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| Phone |
15989204715
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| Organization name |
Guangdong Academy of Forestry
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| Street address |
No 233 1st Guangshan Road
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510520 |
| Country |
China |
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| Platforms (1) |
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| Samples (382)
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| Relations |
| BioProject |
PRJNA607094 |
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