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Volume 10(1); March 2022

Review Article

Advances from Conventional to Modern Plant Breeding Methodologies
Sashi Lamichhane, Sapana Thapa
Plant Breed. Biotech. 2022;10(1):1-14.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.1

First initiation of breeding started thousands of years ago when human practiced selection based in visually appealing traits. Further, domestication of wild plants eased adaptation of plant breeding. With increase in population the demand for food also increased which resulted in development of various breeding methodologies. Conventional breeding is a selective breeding methodology where crops are selected based on superior performances. Pure-line selections, mass selection, back cross breeding, recurrent selection, hybridization were most famous traditional breeding methods. It is a longer breeding method and is over-dependent on phenotype of plants. However, phenotypes of a plant are affected by various externalities. So, selection based on phenotypic expression is not accurate. As a result, breeder started integrating various branches of biology in plant breeding and developed modern breeding practices. After Mendelian theory and identification of DNA and RNA, plant breeding diverted to molecular era. People started breeding based on less environmentally susceptible parameters like genotypes, visual and genetic markers, image analysis and loci mapping. Some of the most common modern breeding practices include genomic selection, markers assisted breeding, high throughput phenotyping and CRISPR-Cas9. Despite these, plant breeding has fired up the problems of gene erosion due to loss of local landraces and wild-type plants.

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Research Articles
Physiological and Biochemical Responses of Diverse Peanut Genotypes under Drought Stress and Recovery at the Seedling Stage
Rizwana Begum Syed Nabi, Myoung Hee Lee, Sungup Kim, Jung-In Kim, Min Young Kim, Kwang Soo Cho, Eunyoung Oh
Plant Breed. Biotech. 2022;10(1):15-30.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.15

Peanut (Arachis hypogaea L.) is an important oilseed, cash crop grown worldwide mainly in a tropical and subtropical climate. Drought stress (DS) is one of the serious abiotic stresses that alter the morphological, physiological, biochemical and molecular responses of plants and causes huge production loss across the globe. The aim of this study, to investigate the twenty widely grown Korean genotypes at the seedling stage under the control and drought stress conditions, to identify tolerant lines as well as related traits. In addition, the influence of DS and rehydration or recovery after stress on peanut genotypes was also studied. Initial screening showed that given genotypes had a differential response to DS, demonstrating a wide range of variation in tested peanut genotypes during the seedling stage towards the DS. Further, based on investigation of the different growth attributes and biochemical assessment six genotypes (Palkwang, Milkwang, and Daekwang) and (Daekwang, Haeol, and Heukhwaseang) were observed as drought-tolerant and drought-sensitive lines respectively. The findings of this study will aid in the selection of peanut genotypes in future breeding efforts aimed at improving drought tolerance and minimizing peanut production loss.

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    Journal of Soil Science and Plant Nutrition.2023; 23(4): 6612.     CrossRef
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Genetic Variability and Gene Action for Several Traits in F4 and F5 Population of Rice
Noer-Rahmi Ardiarini, Damanhuri, Afifuddin-Latif Adiredjo
Plant Breed. Biotech. 2022;10(1):31-36.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.31

This study estimated the genetic variability and gene action of several traits in the F4 and F5 rice populations to determine a trait for selection program. The trait of date to flowering and date to harvesting had narrow genetic variability, whereas trait productive tillers, number of fertile grain, and total grains had moderate to wide genetic variability. Genetic variability in trait number of fertile grain and total grains showed decreased in F5 generation compare to the F4 generation, whereas trait productive tillers, date to flowering, and date to harvesting showed an increase. Additive gene action with duplicate and complementary epistasis was found in all traits, except for trait productive tillers only showed additive gene action with duplicate epistasis. Kurtosis less than 3 was found in all traits which indicate many genes control the traits. The number of fertile grain trait showed wide genetic variability which decreased in F5 generation compare to the F4 generation, and there is an additive gene action with duplicate epistasis. It indicates selection will be effective with the trait of number of fertile grain.

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  • Genetic Purity Analysis Using Polymorphic SSR Markers in Rice Genotypes (Oryza sativa L.) and Their Confirmation for the Parental Lines
    Afifuddin Latif Adiredjo, Noer Rahmi Ardiarini, Damanhuri
    Plant Breeding and Biotechnology.2023; 11(3): 220.     CrossRef
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Tomato Yield Effects of Reciprocal Hybridization of Solanum lycopersicum Cultivars M82 and Micro-Tom
Sujeevan Rajendran, Jong Hyang Bae, Min Woo Park, Jae Hyun Oh, Hwang Weon Jeong, Young Koung Lee, Soon Ju Park
Plant Breed. Biotech. 2022;10(1):37-48.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.37

Plant breeders have accumulated hybrid effects to increase food production in order to counteract the loss of arable land. Hybrids may possess novel genetic potential to increase agricultural productivity; however, the relationships between genetic resources for optimizing crop productivity remain mostly unclear. In this study, we recorded heterosis effects of genetically inherited traits by reciprocal hybridization of the Solanum lycopersicum cultivar Micro-Tom and the commercial cultivar M82, which are currently available as in silico mutant populations, to identify mutant genes which can induce heterosis. The genetic variations between M82 and Micro-Tom caused intermediate phenotypic effects with regard to flowering time, plant height, and fruit size, indicating additive interactions among variations with a hybrid background. The total yield of F1 hybrid was similar to that of cultivar M82, regardless of reduced vegetative biomass, and it revealed an overdominance effect regarding number of harvested fruits. The inheritance of the phenotypes was similar among reciprocal F1 hybrids with different paternal and maternal materials. Based on the consistency of hybrids and wild types, Micro-Tom mutants showing floral homeotic defects and large plant size can be efficiently screened for overdominant yield mutants in F1 hybrids. Therefore, we suggest that identical traits in reciprocal hybrids between Micro-Tom and M82 varieties are useful as control F1 hybrids to improve field tomato productivity by screening mutant hybrids of Micro-Tom mutants and commercial variety M82.

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  • Introgression of dwarfing genes into tomato fruit through backcrossing aiming at salad-type background
    Thúlio P. Mattos, Gabriel M. Maciel, Camila S. de Oliveira, Ana L. A. Ribeiro, Ana C. S. Siquieroli, Nilo C. Q. Silva, Orlando R. de Oliveira, Vinicius A. Pereira
    Revista Caatinga.2025;[Epub]     CrossRef
  • Enhancing fruit quality and stress resilience: Genetic advancements in dwarf tomato populations
    Thúlio Pereira Mattos, Gabriel Mascarenhas Maciel, Ana Luisa Alves Ribeiro, Camila Soares de Oliveira, Ana Carolina Silva Siquieroli, Nilo Cesar Queiroga Silva, Frederico Garcia Pinto, Brena Rodrigues Mota Ikehara
    Acta Scientiarum. Agronomy.2025; 47(1): e72614.     CrossRef
  • Unraveling novel mechanisms controlling heterosis in seeds: advances and biotechnological applications in crops
    Sara Belcapo, Elise Réthoré, Eric Nguema-Ona, Ignacio Ezquer, Rainer Melzer
    Journal of Experimental Botany.2025; 76(22): 6619.     CrossRef
  • Small and strong: Dwarf cultivars as a strategic response to shade avoidance syndrome through molecular, hormonal, and breeding innovations
    Sujeevan Rajendran, Su Min Chun, Yu Mi Kang, Gyu Hun Hwang, Do Hyun Lee, Sang‐Hoon Lee, Bumkyu Lee, Ho Cheol Kim, Jong Hyang Bae, Chul Min Kim
    Agronomy Journal.2025;[Epub]     CrossRef
  • Light quality and intensity modulation on yield and quality on crops grown in vertical farms
    A. Ferrante, S. Toscano, D. Romano
    European Journal of Horticultural Science.2024; 89(5): 1.     CrossRef
  • New insights into the use of dwarf tomato plants for pest resistance
    Gabriel Mascarenhas Maciel, Camila Soares de Oliveira, Ana Carolina Silva Siquieroli, Lucas Medeiros Pereira, Ana Luisa Alves Ribeiro, Frederico Garcia Pinto, Brena Rodrigues Mota Ikehara, Nilo Cesar Queiroga Silva, Ana Karoline Silva Rocha de Farias
    Bragantia.2024;[Epub]     CrossRef
  • Saladette-type dwarf tomato introgression lines with agronomic potential, improved fruit quality, and biotic stress tolerance
    Camila Soares de Oliveira, Gabriel Mascarenhas Maciel, Ana Carolina Silva Siquieroli, Frederico Garcia Pinto, Brena Rodrigues Mota Ikehara, Lucas Medeiros Pereira
    Ciência e Agrotecnologia.2024;[Epub]     CrossRef
  • Additional Advantages for Agronomic Performance and Fruit Quality in Tomato Hybrids of the Saladette Type Derived from a Dwarf Male Parent
    Lucas Medeiros Pereira, Gabriel Mascarenhas Maciel, Ana Carolina Silva Siquieroli, Ana Luisa Alves Ribeiro, Frederico Garcia Pinto, Brena Rodrigues Mota Ikehara, José Magno Queiroz Luz, Rickey Yoshio Yada, Camila Soares de Oliveira
    Horticulturae.2024; 10(11): 1145.     CrossRef
  • Heterosis in horticultural crop breeding: combining old theoretical bases with modern genomic views
    Silvia Farinati, Francesco Scariolo, Fabio Palumbo, Alessandro Vannozzi, Gianni Barcaccia, Margherita Lucchin
    Frontiers in Horticulture.2023;[Epub]     CrossRef
  • Studies on the Molecular Basis of Heterosis in Arabidopsis thaliana and Vegetable Crops
    Saaya Shiraki, Kazumasa Fujiwara, Yoshiki Kamiya, Mst. Arjina Akter, Elizabeth S. Dennis, Ryo Fujimoto, Hasan Mehraj
    Horticulturae.2023; 9(3): 366.     CrossRef
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Loss of Arabidopsis PATATIN-RELATED PHOSPHOLIPASE 2A Affects the Expression of Genes Involved in Fertilization
Jun Soo Kwak, Jong Tae Song, Hak Soo Seo
Plant Breed. Biotech. 2022;10(1):49-61.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.49

Doubled haploid (DH) technology enables the generation and evaluation of new plant genotypes in ≤ 2 years, which is in stark contrast to the 6-7 years required for conventional breeding. Recently, a few proteins including MATRILINEAL (MTL) were found to trigger haploid induction in monocot plants. However, MTL function in dicot plants remains unclear. Here, we investigate the effects of Arabidopsis PATATIN-RELATED PHOSPHOLIPASE 2A (pPLA-IIa), a maize MTL homolog, on the expression of genes that modulate pollen development and fertilization in Arabidopsis. Quantitative real-time PCR analysis showed that transcript levels of four pollen tube growth-related genes and six pollen guidance- or reception-related genes were increased in the ppla-iia T-DNA insertion mutant compared with the wild type. In addition, transcript levels of four mitosis- and meiosis-related genes, two hormone-related genes, and a calcium pump-encoding gene were also upregulated in the ppla-iia mutant, whereas expression levels of genes encoding a synergid-secreted peptide (AtLURE1.1) and calmodulin-activated Ca2+-ATPase ion pump 9 (ACA9) protein were downregulated in the ppla-iia mutant compared with the wild type. Taken together, these results suggest that AtLURE1.1 and ACA9 play positive roles in pPLA-IIa-mediated fertilization. Thus, pPLA-IIa controls fertilization through the modulation of pollen germination and pollen tube growth and guidance in Arabidopsis.

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Physiological and Molecular Responses of Red Maple (Acer rubrum L.) Cultivars to Drought Stress
Philip Bissiwu, Krishnanand P. Kulkarni, Kalpalatha Melmaiee, Sathya Elavarthi
Plant Breed. Biotech. 2022;10(1):62-74.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.62

Acer rubrum (red maple) is one of the most important ornamental trees in North America. It is used in urban forestry and landscaping, as well as timber and syrup production. Drought is a major challenge that hinders the development and growth of maples and other tree species. The
objective
of the present study was to evaluate three red maple cultivars namely, October glory, Autumn red, and Red sunset for their physiological and molecular response to drought stress. Saplings of three cultivars of red maple were subjected to drought stress (up to 28 days unirrigated) in the summer of 2018 and 2019, and leaf samples were used to quantify physiological, biochemical, and expression changes under stress. Decrement of chlorophyll content significantly correlated with the soil moisture content observed in all three genotypes subjected to drought stress. Significant variation in proline concentration, Malondialdehyde levels, and increase in superoxide dismutase (SOD) activity at various stages of the experiments showed the ability of the maple plants to respond to drought stress. RT-qPCR analyses revealed higher and variable expression of drought-responsive genes GGAT1 encoding glutamate-glyoxylate aminotransferase, and CSD2 encoding SOD, in the red maple plants under drought stress. The results from this study indicate that the red maple plants alleviate drought stress by the possible mechanism involving decreased lipid peroxidation, and enhanced production of osmolyte and antioxidants.

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  • The Irrigation Water pH Has a Dominant Impact on the Growth and Stress Markers of Bigleaf Hydrangea
    Monika Marković, Vlatko Galić, Veronika Težak, Marija Ravlić, Željko Barač, Irena Jug, Lucija Galić
    Applied Sciences.2025; 15(16): 8773.     CrossRef
  • Genome-wide identification of the UGT genes family in Acer rubrum and role of ArUGT52 in anthocyanin biosynthesis under cold stress
    Khan Arif Kamal, Faheem Afzal Shah, Yue Zhao, Zhu Chen, Songling Fu, Zhiyong Zhu, Jie Ren, Hua Liu
    BMC Plant Biology.2025;[Epub]     CrossRef
  • Transcriptome profiling, physiological, and biochemical analyses provide new insights towards drought stress response in sugar maple (Acer saccharum Marshall) saplings
    Lungowe Mulozi, Amaranatha R. Vennapusa, Sathya Elavarthi, Oluwatomi E. Jacobs, Krishnanand P. Kulkarni, Purushothaman Natarajan, Umesh K. Reddy, Kalpalatha Melmaiee
    Frontiers in Plant Science.2023;[Epub]     CrossRef
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Classification of Soybean [Glycine max (L.) Merr.] Seed Based on Deep Learning Using the YOLOv5 Model
Yu-Hyeon Park, Tae-Hwan Jun
Plant Breed. Biotech. 2022;10(1):75-80.   Published online March 28, 2022
DOI: https://doi.org/10.9787/PBB.2022.10.1.75

From an agricultural point of view, deep learning models can be used in a variety of way to study the agricultural properties of soybean. Object detection can be performed using image or video data on phenotypic traits of soybean. In this project, a study on the phenotype analysis about soybean seed was conducted by artificial intelligence (AI) based on the YOLOv5 model. In model summary, layers and parameters were calculated as 243 and 7020913, respectively. Means of average precision (mAP)@[0.5: 0.95] was recorded as 0.835, 0.739, 0.785 for each class, and Daewonkong (DW) with yellow seed coat color was calculated as the highest value, and landrace with black seed coat color (NG2) revealed the lowest value. As a result of prediction performance in the confusion matrix, each class of DW, NG2, and inbreeding line with green seed coat color (NGT) showed significant correlation of true positive (TP) in the matrix with the same output value for the input value.

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  • Identification of soybean variety based on spectral data and RGB image fusion combined with deep learning method
    Wei Liu, Quan Jiang, Hao Wang, Xinran Zhou, Chenchen Wu, Changhong Liu
    Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy.2026; 360: 128009.     CrossRef
  • Detection of sugar beet seed coating defects via deep learning
    Abdullah Beyaz, Zülfi Saripinar
    Scientific Reports.2025;[Epub]     CrossRef
  • DLML-PC: an automated deep learning and metric learning approach for precise soybean pod classification and counting in intact plants
    Yixin Guo, Jinchao Pan, Xueying Wang, Hong Deng, Mingliang Yang, Enliang Liu, Qingshan Chen, Rongsheng Zhu
    Frontiers in Plant Science.2025;[Epub]     CrossRef
  • Identification of varieties of wheat seeds based on multispectral imaging combined with improved YOLOv5
    Wei Liu, Yang Liu, Fei Hong, Jiaming Li, Quan Jiang, Lingfei Kong, Changhong Liu, Lei Zheng
    Food Physics.2025; 2: 100042.     CrossRef
  • An improved YOLOv5-based approach to soybean phenotype information perception
    Lichao Liu, Jing Liang, Jianqing Wang, Peiyu Hu, Ling Wan, Quan Zheng
    Computers and Electrical Engineering.2023; 106: 108582.     CrossRef
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