Functional Genomics of Cucurbit Species

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Genetics, Genomics and Biotechnology".

Deadline for manuscript submissions: 28 February 2026 | Viewed by 432

Special Issue Editors


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Guest Editor
Department of Horticulture, and Graduate Program in Plant Breeding, Genetics and Biotechnology, Michigan State University, East Lansing, MI 48824, USA
Interests: cucurbit genetics and genomics; disease resistance; fruit development; plant transformation; biotechnology; biosafety
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Guest Editor
Key Laboratory of Biology and Genetic Improvement of Horticulture Crops (Northeast Region), Ministry of Agriculture and Rural Affairs, Northeast Agricultural University, Harbin, China
Interests: watermelon; melon; fruit quality; fruit development

Special Issue Information

Dear Colleagues,

The Cucurbitaceae family contains highly nutritious and morphologically diverse crops such as watermelon, melons, cucumber, squashes, pumpkins, and gourds, which are used for fruits, seeds, medicinal, and ornamental purposes.  Recent years have seen dramatic advances in the development and application of genomic tools for cucurbit species, including genome assemblies and annotations; the construction of pan-genomes; the development of high-throughput genotyping tools such as SNP, tilling, and mutant platforms; the genomic analyses of germplasm collections; the identification of SNPs and structural variants; the use of bioinformatic tools such as genome-wide association studies (GWAS) and genomic prediction; fine genetic mapping, and molecular marker-assisted selection (MAS); and the development of new transformation and gene editing methods. These tools provide us with the opportunity to determine the genetics behind important production, quality, and developmental traits; facilitate more efficient plant breeding; explore fundamental biological questions; and functionally validate candidate genes. This Special Issue seeks to highlight the progress being made in cucurbit genomics. We invite the submission of original research and review articles dealing with any aspect of the development and/or application of functional genomic tools for cucurbit species.

Prof. Dr. Rebecca Grumet
Prof. Dr. Feishi Luan
Guest Editors

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Keywords

  • genome assembly
  • pan-genomes
  • SNPs
  • INDELs
  • genome-assisted breeding
  • MAGIC populations
  • GWAS
  • MAS
  • genomic prediction
  • transformation
  • gene editing
  • cucumber
  • cucurbitaceae
  • melon
  • watermelon
  • cucurbita

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Published Papers (1 paper)

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Research

14 pages, 5710 KiB  
Article
Genetic Mapping of a QTL Controlling Fruit Size in Melon (Cucumis melo L.)
by Fazle Amin, Nasar Ali Khan, Sikandar Amanullah, Shusen Liu, Zhao Liu, Zhengfeng Song, Shi Liu, Xuezheng Wang, Xufeng Fang and Feishi Luan
Plants 2025, 14(15), 2254; https://doi.org/10.3390/plants14152254 - 22 Jul 2025
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Abstract
Fruit size is an important agronomic trait affecting the yield and commercial value of melon and a key trait selected for during domestication. In this study, two respective melon accessions (large-fruited M202008 and small-fruited M202009) were crossed, and developed biparental mapping populations of [...] Read more.
Fruit size is an important agronomic trait affecting the yield and commercial value of melon and a key trait selected for during domestication. In this study, two respective melon accessions (large-fruited M202008 and small-fruited M202009) were crossed, and developed biparental mapping populations of the F2 generation (160 and 382 plants) were checked across two subsequent experimental years (2023 and 2024). The phenotypic characterization and genetic inheritance analysis showed that melon fruit size is modulated by quantitative genetics. Bulked segregant sequencing analysis (BSA-seq) identified a stable and effective quantitative trait locus (QTL, named Cmfs) controlling fruit size, localized to a 3.75 Mb region on chromosome 9. To better delineate the main-effect Cmfs locus, co-dominant polymorphic molecular markers were developed in this genetic interval, and genotyping was performed within the F2 mapping populations grown across two years. QTL analysis of the phenotypic and genotypic datasets delimited the major-effect Cmfs locus interval for fruit length [2023: logarithm of odds (LOD) value = 6.16, 16.20% phenotypic variation explained (PVE); 2024: LOD = 5.44, 6.35% PVE] and fruit diameter (2023: LOD value = 5.48, 14.59% PVE; 2024: LOD = 6.22, 7.22% PVE) to 1.88 and 2.20 Mb intervals, respectively. The annotation analysis across the melon genome and comparison of resequencing data from the two parental lines led to the preliminary identification of MELO3C021600.1 (annotated as cytochrome P450 724B1) as a candidate gene related to melon fruit size. These results provide a better understanding for further fine mapping and functional gene analysis related to melon fruit size. Full article
(This article belongs to the Special Issue Functional Genomics of Cucurbit Species)
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