Conventional vs. Modern Techniques in Horticultural Crop Breeding

A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Horticultural and Floricultural Crops".

Deadline for manuscript submissions: 31 October 2025 | Viewed by 3261

Special Issue Editors


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Guest Editor
Department of Horticulture and Landscape Architecture, National Taiwan University, Taipei 10617, Taiwan
Interests: postharvest biology; ethylene signaling; sex determination; molecular farming; auxin transport; disease resistance; plant biotechnology; plant genome editing; plant molecular biology
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Guest Editor Assistant
Department of Horticulture, National Chiayi University, Chiayi 600, Taiwan
Interests: molecular breeding; plant biotechnology; crop transcript bioinformatics analysis

Special Issue Information

Dear Colleagues,

Crop breeding is crucial in agriculture as it helps us to obtain new varieties with desirable traits such as yield, disease resistance, and tolerance to environmental conditions. Through breeding, crop productivity, sustainability, and adaptation, we can ensure food security and enhance support for the ever-growing global population's needs. Traditionally, the major methods of breeding have been crossing and selection for new superior genotype combinations that result in hybrid varieties or synthetic varieties. In recent years, research and development on crop molecular genetics and functional genomics has advanced rapidly all over the world. Molecular marker breeding, transgenic breeding, and molecular design breeding have gradually become the mainstream technologies of crop breeding worldwide in modern crop breeding.

This Special Issue (SI) will provide a brief overview on the applications of both traditional and modern breeding in horticultural crops. We aim to record the most recent breeding works on fruit, vegetable, and ornamental production. Scientific research data on new species or varieties of fruits, vegetables, or flowers are welcome. Contributions to this SI may focus on, but are not limited to, four major topics: (1) breeding strategies, (2) genetic improvement at the molecular level, (3) valuable and desirable traits, and (4) phenotyping.

Prof. Dr. Yi-Yin Do
Guest Editor

Dr. Su-Ying Yeh
Guest Editor Assistant

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Keywords

  • genetic improvement
  • hybridization
  • selection
  • molecular marker breeding
  • transgenic breeding
  • design breeding

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Published Papers (2 papers)

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Research

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13 pages, 1339 KiB  
Article
Combined Analysis of SRAP and SSR Markers Reveals Genetic Diversity and Phylogenetic Relationships in Raspberry (Rubus idaeus L.)
by Zhifeng Guo, Zhenzhu Fan, Xueyi Li, Haoqi Du, Zhuolong Wu, Tiemei Li and Guohui Yang
Agronomy 2025, 15(6), 1492; https://doi.org/10.3390/agronomy15061492 - 19 Jun 2025
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Abstract
Raspberry (Rubus idaeus L.) is a high-value horticultural crop recognized for its significant economic importance and exceptional nutritional profile. We analyzed 76 raspberry accessions (wild and cultivar) using simple sequence repeat (SSR) and sequence-related amplified polymorphism (SRAP) markers, and we established a [...] Read more.
Raspberry (Rubus idaeus L.) is a high-value horticultural crop recognized for its significant economic importance and exceptional nutritional profile. We analyzed 76 raspberry accessions (wild and cultivar) using simple sequence repeat (SSR) and sequence-related amplified polymorphism (SRAP) markers, and we established a standardized SRAP system for this species. Genetic similarity differed markedly between markers: SSR values spanned 0.47–0.98 (mean = 0.73), compared to the narrower range of 0.52–0.97 (mean = 0.75) for SRAP. Cultivar accessions exhibited higher intra-group homogeneity than wild accessions, and northeastern wild accessions showed more stable similarity metrics than Guizhou wild accessions. In hierarchical clustering, the resolution varied depending on the labeling marker. The cluster analysis by SSR markers identified two main clusters and further partitioned them into three clusters. In contrast, the SRAP system revealed two primary clusters, which subsequently diverged into five subclusters. SSR markers effectively captured population-level differentiation, whereas SRAP markers enabled precise discrimination of cultivars and ecotypes through non-coding region polymorphisms. Phylogenetic analyses confirmed closer genetic affinity between northeastern wild and cultivated accessions, which diverged significantly from Guizhou. This dual-marker approach revealed complementary information: SSR markers were used to survey genome-wide diversity, while SRAP markers were used to detect structural variations. Their integrated application enhances germplasm characterization efficiency and provides practical strategies for raspberry conservation and molecular breeding. Full article
(This article belongs to the Special Issue Conventional vs. Modern Techniques in Horticultural Crop Breeding)
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Review

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14 pages, 295 KiB  
Review
Novel Breeding Techniques and Strategies for Enhancing Greenhouse Vegetable Product Quality
by Julia Weiss and Nazim S. Gruda
Agronomy 2025, 15(1), 207; https://doi.org/10.3390/agronomy15010207 - 16 Jan 2025
Cited by 6 | Viewed by 2253
Abstract
With its controlled environment, protected cultivation is advantageous and effective for breeding programs. This distinct setting also guarantees that fresh vegetables meet high quality standards. The controlled environment allows for precise monitoring and tuning of breeding efforts, a critical factor in continuously improving [...] Read more.
With its controlled environment, protected cultivation is advantageous and effective for breeding programs. This distinct setting also guarantees that fresh vegetables meet high quality standards. The controlled environment allows for precise monitoring and tuning of breeding efforts, a critical factor in continuously improving the quality of fresh vegetable production. Classical breeding strategies include hybridization, pedigree selection, backcrossing, recombination, and marker-assisted breeding. However, advanced techniques like phenomics and genome editing are revolutionizing the field. These methods accelerate phenotyping and aid in identifying traits and genetic variants linked to quality characteristics. Modern biotechnological tools, specifically genetic engineering and gene editing methods like CRISPR/Cas, have enhanced a wide array of traits in numerous vegetable species. These technological advancements have the potential to effectively address challenges associated with stress resistance, product quality, and shelf-life, thereby presenting promising prospects for the advancement of agriculture. The protracted process of developing new vegetable cultivars with reduced physiological issues through contemporary techniques is an enduring endeavor. Full article
(This article belongs to the Special Issue Conventional vs. Modern Techniques in Horticultural Crop Breeding)
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