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Acta Horticulturae Sinica ›› 2025, Vol. 52 ›› Issue (12): 3202-3218.doi: 10.16420/j.issn.0513-353x.2024-0881

• Genetic & Breeding·Germplasm Resources·Molecular Biology • Previous Articles     Next Articles

Development of HRM Molecular Markers for Important Traits in Tomato and Assessment of Analytical Effects Across Various Reaction Systems

LIU Chang1, WEI Kai1,2, ZHANG Li1,2, LU Feifei1, YU Qingtong1,3, WANG Mengya1,4, WANG Xiaoxuan1, DU Yongchen1, GUO Yanmei1, LI Junming1, LIU Lei1, LI Xin1, ZHU Can1, HUANG Zejun1,*()   

  1. 1 State Key Laboratory of Vegetable Biobreeding,Institute of Vegetables and Flowers,Chinese Academy of Agricultural Sciences,Beijing 100081,China
    2 College of Horticulture,China Agricultural University,Beijing 100193,China
    3 Institute of Plant Science and Technology,Beijing Agricultural University,Beijing102206,China
    4 College of Horticulture Science,Zhejiang A & F University,Hangzhou 311300,China
  • Received:2025-08-06 Revised:2025-10-17 Online:2025-12-25 Published:2025-12-20
  • Contact: HUANG Zejun

Abstract:

High resolution melting(HRM)genotyping technology can identify the genotypes of different samples by forming different melting curves,be characterized by its simplicity,rapid processing,high throughput,and superior resolution. This study aims to develop HRM molecular markers for identifying superior alleles associated with important traits in tomato and to assess the impact of various factors on HRM analysis outcomes. A total of 23 HRM molecular markers were successfully developed based on the sequence characteristics of 23 superior alleles of specific genes or their adjacent regions. These genes include those associated with disease resistance,such as Bwr-12FrlI-7PtoRx4SmTy-1;genes conferring abiotic stress tolerance,including SlACR11ASlBBX31SlHAK20SlSOS2;genes related to fruit traits,such as AftLCGFOVATEPTRSlALMT9STP1Y;and genes associated with plant type,including SD1SPSP5G. Furthermore,an assessment of the impact of varying reaction volumes,template DNA concentrations,and DNA extraction methods on HRM analysis revealed that reaction volumes of 5,7.5,10,12.5 and 15 µL demonstrated comparable analytical performance to the recommended reaction volume of 20 µL specified in the kit. Notably,within the 5 µL reaction volume,DNA concentrations ranging from 12.5 ng · µL-1 to 1 600 ng · µL-1 exhibited robust analytical performance. Additionally,DNA extracted using the NaOH method was found to be suitable for HRM analysis. The findings of this study will facilitate the identification of superior alleles and marker-assisted breeding in tomato.

Key words: tomato, important trait, superior allele, HRM, molecular marker