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Development of hAT-MITE Transposon Insertion Polymorphism Molecular Markers and Cultivars Identification in Pitaya
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Wenbin HU1, 3, 4, Hao WANG1, 3, 4, Xincheng ZHOU2, Wenhui PU1, 3, 4, Yanli FENG1, 3, 4, Hongli LI1, 3, 4, *, Qiong LI1, 3, 4, *
Chinese Journal of Tropical Crops | 2025, 46(9) : 2076 - 2085
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Chinese Journal of Tropical Crops | 2025, 46(9): 2076-2085
• Germplasm Resources, Genetics & Breeding •
Development of hAT-MITE Transposon Insertion Polymorphism Molecular Markers and Cultivars Identification in Pitaya
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Wenbin HU1, 3, 4, Hao WANG1, 3, 4, Xincheng ZHOU2, Wenhui PU1, 3, 4, Yanli FENG1, 3, 4, Hongli LI1, 3, 4, *, Qiong LI1, 3, 4, *
Affiliations
  • 1.Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan 571101, China
  • 2.Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan 571101, China
  • 3.Key Laboratory of Crop Gene Resources and Germplasm Innovation in South China, Ministry of Agriculture and Rural Affairs, Haikou, Hainan 571101, China
  • 4.Key Laboratory of Genetic Improvement and Innovation of Tropical Crops, Haikou, Hainan 571101, China
Published: 2025-09-25 doi: 10.3969/j.issn.1000-2561.2025.09.005
Outline
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Miniature inverted-repeat transposable elements (MITEs), as active mobile elements in eukaryotic genomes, provide novel molecular markers for germplasm genetic diversity analysis through the insertion polymorphisms. This study systematically identified hAT family MITE transposons in pitaya using bioinformatics approaches based on the whole-genome data of the Guanhua Bai cultivar. A total of 2350 candidate elements with complete terminal inverted repeats (TIRs) and target site duplications (TSDs) were screened, with an average of 213 elements per chromosome pair. Through sequence specificity and polymorphism analysis, 110 highly divergent loci (10 per chromosome pair) were selected for primer design, ultimately yielding 41 stable polymorphic hAT-MITE markers after PCR validation. Genome-wide scanning of 48 pitaya germplasms using the 41 primer pairs detected 81 polymorphic loci (polymorphism rate: 97.59%) via agarose gel electrophoresis. UPGMA cluster analysis revealed substantial genetic variation and diversity among the 48 accessions, with genetic similarity coefficients ranging from 0.57 to 0.91. At a genetic similarity threshold of 0.63, the germplasm resources were categorized into four genetically distinct groups. A digital fingerprinting system covering all germplasm resources was constructed using four core primer pairs (HU-MIT-02/06/26/75) based on the primer-band pattern combination method, achieving 100% cultivar identification accuracy. This study established the first hAT-MITE molecular marker system for pitaya, providing an efficient toolkit including a marker library and standardized identification protocols for precise germplasm classification, cultivar identification and varieties property protection of pitaya. The advancements is of significant application value for intellectual property protection in the pitaya seed industry.

pitaya  /  hAT-MITE transposon  /  fingerprint  /  variety identification  /  genetic diversity
Wenbin HU, Hao WANG, Xincheng ZHOU, Wenhui PU, Yanli FENG, Hongli LI, Qiong LI. Development of hAT-MITE Transposon Insertion Polymorphism Molecular Markers and Cultivars Identification in Pitaya[J]. Chinese Journal of Tropical Crops, 2025 , 46 (9) : 2076 -2085 . DOI: 10.3969/j.issn.1000-2561.2025.09.005
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Year 2025 volume 46 Issue 9
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Article Info
doi: 10.3969/j.issn.1000-2561.2025.09.005
  • Receive Date：2025-05-08
  • Online Date：2026-03-07
  • Published：2025-09-25
Article Data
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History
  • Received：2025-05-08
  • Accepted：2025-05-26
Funding
Affiliations
    1.Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan 571101, China
    2.Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan 571101, China
    3.Key Laboratory of Crop Gene Resources and Germplasm Innovation in South China, Ministry of Agriculture and Rural Affairs, Haikou, Hainan 571101, China
    4.Key Laboratory of Genetic Improvement and Innovation of Tropical Crops, Haikou, Hainan 571101, 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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