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Genetic Diversity Studies on Aquilaria sinensis Based on Genome Resequencing
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Zhihui GOU1, 2, Guode CHEN1, 2, Yunnan ZHEN3, Xin WANG1, 2, Yu CHEN1, 2, Mi TIAN1, 2, *
Chinese Journal of Tropical Crops | 2025, 46(1) : 51 - 58
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Chinese Journal of Tropical Crops | 2025, 46(1): 51-58
• Germplasm Resources, Genetics & Breeding •
Genetic Diversity Studies on Aquilaria sinensis Based on Genome Resequencing
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Zhihui GOU1, 2, Guode CHEN1, 2, Yunnan ZHEN3, Xin WANG1, 2, Yu CHEN1, 2, Mi TIAN1, 2, *
Affiliations
  • 1.Hainan Academy of Forestry (Hainan Academy of Mangrove), Haikou, Hainan 571100, China
  • 2.Key Laboratory of Tropical Forestry Resources Monitoring and Application of Hainan Province, Haikou, Hainan 571100, China
  • 3.Haikou City Wetland Protection and Management Center, Haikou, Hainan 571100, China
Published: 2025-01-25 doi: 10.3969/j.issn.1000-2561.2025.01.006
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Knowledge on germplasm resource information is the foundation for the genetic improvement of Aquilaria sinensis, and genome resequencing is a powerful tool for analyzing the genetic diversity of germplasm resources. However, there is no research on the genetic diversity of A. sinensis using genome resequencing. Based on the collection of A. sinensis germplasm resources in the early stages, this study utilized genome resequencing to obtain 1284 Gb of resequencing data from 60 samples of A. sinensis. Using the agarwood genome, 6 716 166 high-quality variation sites were detected, including 6 284 344 SNP sites and 428 658 Indel sites. Principal component analysis, phylogenetic analysis, and genetic structure analysis all indicated that A. sinensis could be divided into three distinct groups (Pop1, Pop2 and Pop3), with two of the groups further subdivided into multiple subgroups. Population selection signals were detected in all the groups, with Pop3 showing the highest frequency of selection signals. However, nucleotide polymorphism calculations indicated that Pop3 had the lowest nucleotide polymorphism. This study would provide valuable information for exploring the genetic resource diversity of A. sinensis and lay a theoretical foundation for genome-based genetic breeding of A. sinensis.

Aquilaria sinensis  /  genome resequencing  /  variant site  /  genetic diversity
Zhihui GOU, Guode CHEN, Yunnan ZHEN, Xin WANG, Yu CHEN, Mi TIAN. Genetic Diversity Studies on Aquilaria sinensis Based on Genome Resequencing[J]. Chinese Journal of Tropical Crops, 2025 , 46 (1) : 51 -58 . DOI: 10.3969/j.issn.1000-2561.2025.01.006
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Article Info
doi: 10.3969/j.issn.1000-2561.2025.01.006
  • Receive Date：2024-08-09
  • Online Date：2026-06-24
  • Published：2025-01-25
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History
  • Received：2024-08-09
  • Revised：2024-09-03
Funding
Affiliations
    1.Hainan Academy of Forestry (Hainan Academy of Mangrove), Haikou, Hainan 571100, China
    2.Key Laboratory of Tropical Forestry Resources Monitoring and Application of Hainan Province, Haikou, Hainan 571100, China
    3.Haikou City Wetland Protection and Management Center, Haikou, Hainan 571100, China
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表12种不同金属材料的力学参数
科
Family		 属数
Number of
genus		 种数
Number of
species		 占总种数比例
Percentage of
total species (%)		 属
Genus		 种数
Number of
species		 占总种数比例
Percentage of total
species (%)
鹅膏菌科Amanitaceae 2 11 5.26 鹅膏菌属 Amanita 10 4.78
小菇科 Mycenaceae 2 12 5.74 丝盖伞属 Inocybe 5 2.39
多孔菌科 Polyporaceae 8 14 6.70 蜡蘑属 Laccaria 5 2.39
红菇科 Russulaceae 3 23 11.00 小皮伞属 Marasmius 6 2.87
小菇属 Mycena 11 5.26
光柄菇属 Pluteus 5 2.39
红菇属 Russula 17 8.13
栓菌属 Trametes 5 2.39
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