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Volume 5(3); September 2017

Review Article

How Durable is Root Knot Nematode Resistance in Tomato?
M. Harunur Rashid, M. H. Al-Mamun, M. Nazim Uddin
Plant Breed. Biotech. 2017;5(3):143-162.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.143

Among the plant parasitic nematodes, root knot nematode (RKN) is the most devastating in tomato growing regions. Controlling RKN mostly relies on nematicides. Since chemical application is limited due to adverse environmental effect, alternative approaches are required. Although there are some alternatives, but resistance cultivars are getting popularity in the farmer’s field because of simplicity, cost-effective and environment safety. Genes conferring resistance to RKN have already been identified followed by the introgression into elite cultivars. Currently, natural resistance genes (R genes) are used in conventional breeding programmes. Simultaneously, molecular research is going on to characterize and map the linked markers for the detected resistant phenotypes. Currently, it is a prominent threat to maintain the durability of existing R genes. However, durability of host resistance govern by co-evolution of resistance genes from plants and (a)virulence genes from nematodes. So, understanding the mechanisms underlying co-evolution is essential for the durability of R genes. Here we review the existing potential natural resistance in tomato against RKN, currently used resistance mechanisms between RKN and tomato, influential factors of durability of natural resistance genes and opportunity to get more durable resistance in tomato.

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  • Emerging Threat of Meloidogyne enterolobii: Pathogenicity Mechanisms and Sustainable Management Strategies in the Context of Global Change
    Mingming Shi, Rui Liu, D. U. Nilunda Madhusanka, Yonggang Liu, Ning Luo, Wei Guo, Jianlong Zhao, Huixia Li, Zhenchuan Mao
    Microbiology Research.2025; 16(8): 165.     CrossRef
  • Grafting Tomato Scions on Root Knot Nematode (RKN)-Resistant Brinjal Rootstocks Complemented with Biocontrol Agents as an Integrated Nematode Management (INM) Strategy for the Development of RKN-Resistant Tomato
    Anil K. Poonia, Bhupendra Koul, Subhash Kajla, Meerambika Mishra, Muhammad Fazle Rabbee
    Pathogens.2025; 14(12): 1257.     CrossRef
  • Metabolomics and histopathological analysis of two tomato cultivars after co-infection with soil-borne pathogens (Southern root-knot nematode and Fusarium wilt fungus)
    Aatika Sikandar, Wenkai Rao, Heliang He, Bochang Chen, Xiongbiao Xu, Haiyan Wu
    Plant Physiology and Biochemistry.2024; 215: 108983.     CrossRef
  • Identification and characterization of a virulent population of Meloidogyne graminicola
    Hue Thi Nguyen, Seng Vang, Ngan Thi Phan, Pierre Czernic, Phap Quang Trinh, Cuong Viet Ha, Jamel Aribi, Anne-Sophie Masson, Malyna Suong, Stéphane Bellafiore
    Australasian Plant Pathology.2023; 52(5): 391.     CrossRef
  • Plant defense responses in monocotyledonous and dicotyledonous host plants during root-knot nematode infection
    Arnika Przybylska, Aleksandra Obrępalska-Stęplowska
    Plant and Soil.2020; 451(1-2): 239.     CrossRef
  • Tomato Natural Resistance Genes in Controlling the Root-Knot Nematode
    Ahmed H. El-Sappah, Islam M. M., Hamada H. El-awady, Shi Yan, Shiming Qi, Jingyi Liu, Guo-ting Cheng, Yan Liang
    Genes.2019; 10(11): 925.     CrossRef
  • Cucumis metuliferus reduces Meloidogyne incognita virulence against the Mi1.2 resistance gene in a tomato–melon rotation sequence
    Alejandro Expósito, Sergi García, Ariadna Giné, Nuria Escudero, Francisco Javier Sorribas
    Pest Management Science.2019; 75(7): 1902.     CrossRef
  • The possibility of transferring resistance genes Mi1.2 and Mi-3 by crossing between wild and susceptible tomato varieties
    Inad D. Abood, Sarah T. Hasan
    International Journal of Biosciences (IJB).2018; : 417.     CrossRef
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Research Articles
Evaluation of Genetic Divergence in Spanish Bunch Groundnut (Arachis hypogaea Linn.) Genotypes
Saikat Gantait, Sunil Kumar Gunri, Rajib Kundu, Soumitra Chatterjee
Plant Breed. Biotech. 2017;5(3):163-171.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.163

In our present study, we report the nature and degree of genetic diversity among 21 promising Spanish bunch groundnut genotypes of different agro-climatic regions, obtained from Directorate of Groundnut Research, Junagadh, Gujarat (India) during Kharif for 2015–16. The results obtained from analysis of variance showed that there was significant difference (P < 0.05) between the genotypes in terms of days to first flowering, days to maturity, 100-kernels weight, shelling percentage, sound matured kernel, and pod yield. The recorded data matrix on seven morphological traits were employed for Non-hierarchical Euclidean cluster analysis based on square Euclidian distance by Un-weighted Paired Group Arithmetic Average method. The 21 genotypes were grouped into four distinct non-overlapping clusters in a random sequence, indicating the presence of high dimension of genetic diversity. Pod yield as an economically important trait was found to be the key contributor towards the genetic divergence followed by days to maturity. Based on magnitude of divergence and performance towards yield and yield attributes, five genotypes (TG-75, AK-343, ICGV-07038, Girnar-3 and TCGS-1157) were selected for exploitation as parents in future breeding programs. Based on high yielding genotypes and large inter-cluster distances, a trial on crossing of the genotypes from cluster II with the genotypes of clusters IV and III, genotypes from cluster I with II emphasizing on selected five genotypes could result in wide spectrum of promising genetic variability, aiming at enhancement of groundnut yield.

Citations

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  • Genetic diversity in Groundnut (Arachis hypogaea. L) genotypes varying in maturity duration
    R. Sangeetha Vishnuprabha, PL. Viswanathan, S. Manonmani, L. Rajendran, T. Selvakumar
    Vegetos.2022; 36(4): 1550.     CrossRef
  • Mulching and nitrogen management in peanut cultivation: an evaluation of productivity, energy trade-off, carbon footprint and profitability
    Mousumi Mondal, Sourav Garai, Hirak Banerjee, Sukamal Sarkar, Rajib Kundu
    Energy, Ecology and Environment.2021; 6(2): 133.     CrossRef
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The Interrelationship of Agronomic and Physiological Traits as Affected by Irrigation Regimes in Wheat: Application of Multivariate Statistical Analyses
Samaneh Zamani-Babgohari, Bahram Heidari, Ali Dadkhodaie
Plant Breed. Biotech. 2017;5(3):172-182.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.172

Understanding the interrelationships between agronomic and water status characters helps development of drought tolerant cultivars. In the present study, 34 wheat genotypes were used to investigate joint variability of water status characters and yield related traits under normal irrigation regimes and drought stress in 2014–2015 growing season. The results indicated that selection of genotypes based on loadings in factors number 1, 3 and 4 would be of beneficial in terms of increasing grain yield related traits under drought stress conditions. In canonical correlation analysis (CCA), the first (U1, V1) and second (U2, V2) pairs canonical variables (CV) explained 75% and 67% of the total joint variability of agronomic and physiological traits under drought stress conditions, respectively. The first (V1) physiological CV that had positive correlation with water saturated deficit (WSD, r = 0.63) and excised leaf water loss (ELWL, r = 0.35) was more correlated with grain yield and harvest index under drought stress. The second (V2) physiological CV which was more influenced by variations in initial water content (IWC, r = 0.6) and leaf water content (LWC, r = 0.65) was associated with spike length and spikelet per spike variations. Significant between-groups mean squares advocated that classification of genotypes into four groups was the best possible branching under both conditions. Therefore, making crosses between genotypes of cluster numbers 1 (with high grain yield and its components) and 3 (having shortest height) can be used for the production of extreme or novel phenotypes for grain yield and dwarfness in the progenitors in further breeding programs for drought tolerance.

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  • Arbuscular Mycorrhizal Symbiosis Differentially Affects the Nutritional Status of Two Durum Wheat Genotypes under Drought Conditions
    Valentina Fiorilli, Moez Maghrebi, Mara Novero, Cristina Votta, Teresa Mazzarella, Beatrice Buffoni, Stefania Astolfi, Gianpiero Vigani
    Plants.2022; 11(6): 804.     CrossRef
  • Mitigating the effect of drought stress on yield in wheat (Triticum aestivum) using arbuscular mycorrhiza fungi (Glomus mosseae)
    BABITA RANI, SHASHI MADAN, POOJA POOJA, K D SHARMA, NISHA KUMARI, ASHWANI KUMAR
    The Indian Journal of Agricultural Sciences.2018; 88(12): 1903.     CrossRef
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Development of SSR Markers and Their Use in Studying Genetic Diversity and Population of Finger Millet (Eleusine coracana L. Gaertn.)
Kyung Jun Lee, Mun-Sup Yoon, Myoung-Jae Shin, Jung-Ro Lee, Yang-Hee Cho, Ho-Sun Lee, Kyung-Ho Ma, Gi-An Lee
Plant Breed. Biotech. 2017;5(3):183-191.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.183

Finger millet (Eleusine coracana L. Gaertn.) is an important cereal crop in eastern Africa and southern India with excellent grain storage capacity and the unique ability to thrive in extreme environmental conditions. In this study, we analyzed the genetic diversity and population structure of finger millet using 12 developed microsatellites. By sequencing 815 clones from an SSR-enriched genomic DNA library, we obtained 12 polymorphic SSR markers, which also revealed successful amplicons in finger millet accessions. Using the developed SSR markers, we estimated genetic diversity and population structure among 76 finger millet accessions in Asia, Africa, and unknown origins. The number of alleles ranged from 2 to 9, with an average of 3.3 alleles. The mean values of observed heterozygosity and expected heterozygosity were 0.27 and 0.35, respectively. The average polymorphism information content was 0.301 in all 76 finger millet accessions. AMOVA analysis showed that the percentage of molecular variance among the populations was 1%, that among individuals was 5%, and that within individuals was 94%. In STRUCTURE analysis, the 76 finger millet accessions were divided into two subpopulations which had an admixture of alleles. There was a correspondence among PCoA, AMOVA, and population structure. This study may form the basis for a finger millet breeding and improvement program.

Citations

Citations to this article as recorded by  
  • Integrating path analysis and molecular markers to understand genetic diversity in finger millet, Eleusine coracana (L.) Gaertn.
    Mihir A. Hansalia, Vikas Pali, Amar A. Sakure, Sushil Kumar, Dinesh J. Parmar, Mihir M. Pandya, Dinesh Joshi
    The Nucleus.2026;[Epub]     CrossRef
  • Development of iron and zinc transporter based genic SSR markers in foxtail millet and their cross- genera transferability in little millet
    Kumari Anjani, Kaushal Kumar, V. K. Sharma
    Cereal Research Communications.2026; 54(2): 875.     CrossRef
  • Unlocking Climate Resilience Through Omics in Underutilized Small Millets
    S Muruganantham, Kannabiran Sakthivel, Chockalingam Vanniarajan, Paramasiwam Jeyaprakash, Subramaniam Geethanjali, Mathivanan Sivaji, Thanakkan Ramesh, Sadayandi Geethanjali, Selvavinayagam Monika, Lakshmanan Vigneshwari
    Tropical Plant Biology.2025;[Epub]     CrossRef
  • Finger millet (Eleusine coracana) improvement: Challenges and prospects—A review
    Adane Gebreyohannes, Hussein Shimelis, Jacob Mashilo, Damaris A. Odeny, Taye Tadesse, Chris O. Ojiewo
    Plant Breeding.2024; 143(3): 350.     CrossRef
  • Cross transferability of finger millet SSR markers to little millet (Panicum sumatrense Roth. Ex Roem & Schult.)
    Komal G. Lakhani, Kirankumar Suthar, Diwakar Singh, Sumankumar Jha, Harshal Patil, Rehana Niyaria
    Ecological Genetics and Genomics.2024; 32: 100281.     CrossRef
  • Profiling of foxtail millet (Setaria italica L.) germplasm using in vitro drought screening and SSR markers
    N. S. Ahmad, M. A. Abid, A. A. Al-Assie
    Plant Genetic Resources: Characterization and Utilization.2022; 20(4): 277.     CrossRef
  • Genome-Wide Assessment of Population Structure and Genetic Diversity of the Global Finger Millet Germplasm Panel Conserved at the ICRISAT Genebank
    C. Backiyalakshmi, Mani Vetriventhan, Santosh Deshpande, C. Babu, V. Allan, D. Naresh, Rajeev Gupta, Vania C. R. Azevedo
    Frontiers in Plant Science.2021;[Epub]     CrossRef
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Compositional Analysis of Lentil (Lens culinaris) Cultivars Related to Colors and Their Antioxidative Activity
So-Young Lee, Yun-Soo Yeo, Soo-Yun Park, Seong-Gon Lee, Si-Myung Lee, Hyun-Suk Cho, Nam-Jin Chung, Seon-Woo Oh
Plant Breed. Biotech. 2017;5(3):192-203.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.192

Metabolite profile is a powerful analytical technique to identify the functional characterization of plants. In this study, the phytochemicals and secondary metabolites of lentils (Lens culinaris) were analyzed to compare the anti-oxidative activities according to the different colors. The polar metabolites, fatty acids, carotenoids, flavonoids, anthocyanins, total phenolic acids, DPPH activity were analyzed. Three kind of lentils, French green whole lentil (FG), red whole lentil (LR), and green whole lentil (LG) (ASIA SEED Co., LTD), were used for this study. Fatty acids, phytochemicals, and antioxidative components from each lentil varieties were analyzed by official methods. The contents of lutein in carotenoids were 6–9 times higher than zeaxanthin in all lentils, but were not significantly different among three varieties. The content of carotenoids in FG was lower significantly than those in the LR and LG. Myricetin and luteolin were detected in the only FG. Kaempferol and delphinidin were significantly highest in the FG. Most of the phenolic acids except coumarate were higher in FG and LG than in LR. Also antioxidant effects (EC50) were higher in FG and LG than in LR. The analyzed metabolites obtained from lentils showed distinct separation in the PCA results according to the varieties. Also, lentils showed different anti-oxidant profiles according to the colors. FG and LG showing higher contents of phytochemicals showed higher antioxidative activity than LG containing relative low contents of phytochemicals.

Citations

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  • One-pot green solution combustion synthesis of ZnV2O6 photo catalyst for dye degradation, Cr (VI) detoxification, phyto toxicity analysis and latent finger printing applications
    R Nalina, Udayabhanu, R. Harini, K.P. Latha, K.B. Naveen, Mohd Shkir, H.N. Shwetha, K.N. Nandeesh, G. Nagaraju
    Inorganic Chemistry Communications.2026; 189: 116650.     CrossRef
  • Microbiological and physicochemical properties of bean, lentil, and chickpea kefirs as plant-based dairy alternatives
    Seyma Gunturk, Firuze Ergin Zeren, Ahmet Kucukcetin, Emine Mine Comak Gocer
    European Food Research and Technology.2026;[Epub]     CrossRef
  • Evaluating polyphenol profile and antioxidant activity in relation to seed morphology in a collection of red lentils
    Gaetano Giudice, Lorenzo Palombi, Stefano Pavan, Marzia Guerriero, Andrea Visioni, Barbara Laddomada
    Food Bioscience.2026; 78: 108452.     CrossRef
  • COMPARATIVE ASSESSMENT OF LEGUME MILKS FOR PLANT-BASED ICE CREAM: NUTRITIONAL, FUNCTIONAL, AND TECHNOLOGICAL ASPECTS
    Elif Meltem İşçimen, Duygu Aslan Türker
    Gıda.2026; 51(1): 1.     CrossRef
  • Innovations in industrial and functional food applications of lentil in the era of biofortification
    Asish Kumar Padhy, Shiksha Chaurasia, Abinaya Manivannan, Kuldeep Tripathi, Sapna Sapna, Sabhyata Bhatia
    Discover Food.2025;[Epub]     CrossRef
  • Effect of soaking conditions on glyphosate absorption in selected pulses: understanding solvent behaviour and morphological changes
    Sindhu Sindhu, Annamalai Manickavasagan, Amanat Ali
    International Journal of Environmental Analytical Chemistry.2024; 104(19): 7855.     CrossRef
  • Lactic and propionic acid bacteria starter cultures for improved nutritional properties of pea, faba bean and lentil
    Minna Kahala, Lucia Blasco, Rina Bragge, Davide Porcellato, Hilde Marit Østlie, Thomas Rundberget, Jose Antonio Baz-Lomba, Juha-Matti Pihlava, Jarkko Hellström, Emilie Gullberg Jørgensen, Vesa Joutsjoki, Tove Gulbrandsen Devold, Anne Pihlanto
    LWT.2024; 208: 116691.     CrossRef
  • Phenolic profile of whole seeds and seed fractions of lentils and its impact on antioxidant activity
    Antonio Manco, Carmela Gerardi, Giuseppe Romano, Leone D'Amico, Antonio Blanco, Francesco Milano, Gian Pietro Di Sansebastiano, Rind Balech, Barbara Laddomada
    Food Bioscience.2023; 54: 102887.     CrossRef
  • Tissue-Specific Antioxidant Activities of Germinated Seeds in Lentil Cultivars during Thermal Processing
    Ji Hye Kim, Shucheng Duan, You Rang Park, Seok Hyun Eom
    Antioxidants.2023; 12(3): 670.     CrossRef
  • Lentil (Lens culinaris Medik.) Flour Varieties as Promising New Ingredients for Gluten-Free Cookies
    Lívia Hajas, László Sipos, Éva Csajbókné Csobod, Márta Veresné Bálint, Réka Juhász, Csilla Benedek
    Foods.2022; 11(14): 2028.     CrossRef
  • Lentil-Based Yogurt Alternatives Fermented with Multifunctional Strains of Lactic Acid Bacteria—Techno-Functional, Microbiological, and Sensory Characteristics
    Theresa Boeck, Lilit Ispiryan, Andrea Hoehnel, Aylin W. Sahin, Aidan Coffey, Emanuele Zannini, Elke K. Arendt
    Foods.2022; 11(14): 2013.     CrossRef
  • Protective effects of functional foods against Parkinson's disease: A narrative review on pharmacology, phytochemistry, and molecular mechanisms
    Milad Iranshahy, Behjat Javadi, Amirhossein Sahebkar
    Phytotherapy Research.2022; 36(5): 1952.     CrossRef
  • Genotypic and Environmental Effect on the Concentration of Phytochemical Contents of Lentil (Lens culinaris L.)
    Maria Irakli, Anastasia Kargiotidou, Evangelia Tigka, Dimitrios Beslemes, Maria Fournomiti, Chrysanthi Pankou, Kostoula Stavroula, Nektaria Tsivelika, Dimitrios N. Vlachostergios
    Agronomy.2021; 11(6): 1154.     CrossRef
  • Nutritional and Rheological Features of Lentil Protein Isolate for Yoghurt-Like Application
    Theresa Boeck, Emanuele Zannini, Aylin W. Sahin, Juergen Bez, Elke K. Arendt
    Foods.2021; 10(8): 1692.     CrossRef
  • Influence of partial pork meat replacement by pulse flour on physicochemical and sensory characteristics of low‐fat burgers
    Natalia Soledad Argel, Natalia Ranalli, Alicia Noemí Califano, Silvina Cecilia Andrés
    Journal of the Science of Food and Agriculture.2020; 100(10): 3932.     CrossRef
  • LINKAGE MAPPING OF CAROTENOID CLEAVAGE DIOXYGENASE-4 FAMILY IN LENTIL GENOME
    Duygu Ates
    Turkish Journal Of Field Crops.2018; : 167.     CrossRef
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Inhibitors Targeting ABA Biosynthesis and Catabolism Can Be Used to Accurately Discriminate between Haploid and Diploid Maize Kernels during Germination
Jun Soo Kwak, Sung-Il Kim, Jong Tae Song, Si Wan Ryu, Hak Soo Seo
Plant Breed. Biotech. 2017;5(3):204-212.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.204

There is a growing preference for using doubled haploids (DHs) in maize breeding programs because they reduce the time required to generate and evaluate new lines to 2 years or less. However, there is an urgent need for efficient techniques that accurately discriminate between haploid and diploid maize kernels. Here, we investigate the effects of several hormones and chemicals on the germination of haploid and diploid maize kernels, including auxin, cytokinin, ethylene, abscisic acid (ABA) biosynthesis inhibitor (fluridone), ABA catabolism inhibitor (diniconazole), methyl jasmonate (MeJA), and NaCl. Ethylene effectively stimulated the germination of both haploid and diploid maize kernels. The ABA biosynthesis inhibitor fluridone, the ABA catabolism inhibitor diniconazole, and MeJA selectively stimulated the germination of haploid maize kernels. By contrast, gibberellin, 1-naphthaleneacetic acid (NAA), kinetin, and NaCl inhibited the germination of both haploid and diploid maize kernels. These results indicate that the germination of haploid maize kernels is selectively stimulated by fluridone and diniconazole, and suggest that ABA-mediated germination of haploid maize kernels differs from that of diploid maize kernels and other plant seeds.

Citations

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  • Maize Doubled Haploid Technology: A New Breeding Paradigm
    Van Gioi Ha, Hwi Moon, Yoon-Sup So
    Korean Journal of Breeding Science.2024; 56(4): 471.     CrossRef
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Genetic Diversity and Population Structure of Mongolian Wheat Based on SSR Markers: Implications for Conservation and Management
Narantsetseg Ya, Sebastin Raveendar, N Bayarsukh, Myagmarsuren Ya, Jung-Ro Lee, Kyung-Jun Lee, Myoung-Jae Shin, Gyu-Taek Cho, Kyung-Ho Ma, Gi-An Lee
Plant Breed. Biotech. 2017;5(3):213-220.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.213

Production of spring wheat, the major crop in Mongolia, accounts for 98% of the cultivated area. Understanding genetic variability in existing gene bank accessions is critical for collection, conservation and use of wheat germplasms. To determine genetic diversity and population structure among a representative collection of Mongolian local wheat cultivars and lines, 200 wheat accessions were analyzed with 15 SSR markers distributed throughout the wheat genome. A total of 85 alleles were detected, with three to five alleles per locus and a mean genetic richness of 5.66. Average genetic diversity index was 0.69, with values ranging from 0.37–0.80. The 200 Mongolian wheat accessions were mainly divided into two subgroups based on structure and phylogenetic analyses, and some phenotypes were divergent by the subgroups. Results from this study will provide valuable information for conservation and sustainable use of Mongolian wheat genetic resources.

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  • The Genetic Diversity of Tunisian Sea Barley (Hordeum marinum ssp. marinum): Insights from Cross-species SSRs
    Warda Saoudi, Wael Taamalli, Mounawer Badri, António Martin, Chedly Abdelly
    Plant Molecular Biology Reporter.2026;[Epub]     CrossRef
  • Harnessing genetic potentials for drought tolerance in wheat (Triticum aestivum L.) using tolerance indices and molecular markers
    Mst. Anamika Amzad, Md. Arifuzzaman, Md. Ashraful Alam
    Gene Reports.2025; 40: 102230.     CrossRef
  • Morphological characterization and molecular diversity assessment of rust resistant genetic stocks of wheat
    Sneha Adhikari, S. C. Bhardwaj, O. P. Gangwar, Pramod Prasad, Charu Lata, Subodh Kumar, Gulab Chand
    Tropical Plant Pathology.2024; 49(4): 525.     CrossRef
  • Structure and genetic diversity of macauba [Acrocomia aculeata (Jacq.) Lodd. ex Mart.] approached by SNP markers to assist breeding strategies
    Bruno Galvêas Laviola, Adriano dos Santos, Erina Vitório Rodrigues, Larissa Pereira Ribeiro Teodoro, Paulo Eduardo Teodoro, Tatiana Barbosa Rosado, Cíntia Gonçalves Guimarães, Léo Duc Haa Carson Schwartzhaupt da Conceição
    Genetic Resources and Crop Evolution.2022; 69(3): 1179.     CrossRef
  • Genetic diversity, population structure and relationship of Ethiopian barley (Hordeum vulgare L.) landraces as revealed by SSR markers
    Allo A. Dido, M. S. R. Krishna, Ermias Assefa, Dawit T. Degefu, B. J. K. Singh, Kassahun Tesfaye
    Journal of Genetics.2022;[Epub]     CrossRef
  • Genetic diversity and population structure in Jatropha (Jatropha curcas L.) based on molecular markers
    Adriana de Souza Carneiro, Adriano dos Santos, Bruno Galvêas Laviola, Larissa Pereira Ribeiro Teodoro, Paulo Eduardo Teodoro, Erina Vitório Rodrigues
    Genetic Resources and Crop Evolution.2022; 69(1): 245.     CrossRef
  • Association analysis for agronomic traits in wheat under terminal heat stress
    Adeel Khan, Munir Ahmad, Mukhtar Ahmed, Kulvinder Singh Gill, Zahid Akram
    Saudi Journal of Biological Sciences.2021; 28(12): 7404.     CrossRef
  • Genetic Diversity and Genome-Wide Association Study of Seed Aspect Ratio Using a High-Density SNP Array in Peanut (Arachis hypogaea L.)
    Kunyan Zou, Ki-Seung Kim, Kipoong Kim, Dongwoo Kang, Yu-Hyeon Park, Hokeun Sun, Bo-Keun Ha, Jungmin Ha, Tae-Hwan Jun
    Genes.2020; 12(1): 2.     CrossRef
  • Population structure of Nepali spring wheat (Triticum aestivum L.) germplasm
    Kamal Khadka, Davoud Torkamaneh, Mina Kaviani, Francois Belzile, Manish N. Raizada, Alireza Navabi
    BMC Plant Biology.2020;[Epub]     CrossRef
  • Development of genomic simple sequence repeat markers for Glycyrrhiza lepidota and cross-amplification of other Glycyrrhiza species
    Jun Hyoung Bang, Chi Eun Hong, Sebastin Raveendar, Kyong Hwan Bang, Kyung Ho Ma, Soon Wook Kwon, Hojin Ryu, Ick Hyun Jo, Jong-Wook Chung
    PeerJ.2019; 7: e7479.     CrossRef
  • Genome-Wide Genetic Diversity and Population Structure of Tunisian Durum Wheat Landraces Based on DArTseq Technology
    Cyrine Robbana, Zakaria Kehel, M’barek Ben Naceur, Carolina Sansaloni, Filippo Bassi, Ahmed Amri
    International Journal of Molecular Sciences.2019; 20(6): 1352.     CrossRef
  • Melatonin Mitigates Salt Stress in Wheat Seedlings by Modulating Polyamine Metabolism
    Qingbo Ke, Jun Ye, Bomei Wang, Jianhong Ren, Lina Yin, Xiping Deng, Shiwen Wang
    Frontiers in Plant Science.2018;[Epub]     CrossRef
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Characterization of Complete Chloroplast Genome of Allium victorialis and Its Application for Barcode Markers
Junki Lee, JaeKyung Chon, JongSung Lim, Eun-Kyoung Kim, Gyoungju Nah
Plant Breed. Biotech. 2017;5(3):221-227.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.221

Chloroplast genome sequencing has served as valuable source for developing DNA markers, including the authentication of plant material used for health supplement from its fraudulent materials. We sequenced and analyzed the chloroplast genome of Allium victorialis, a medicinal plant, to discover potential marker regions for the authentication from Veratrum patulum, an inedible toxic plant. Although we examined conventional barcode marker loci in chloroplast, matK and rbcL, there was a difficulty in aligning coding regions and determining PCR primer sequences in these two loci between A. victorialis and V. patulum, possibly due to the distant evolutionary relationship. Instead, we identified potential DNA markers that carry Insertion/Deletion (InDels) that are able to discriminate these two species around clpP, petB, petD, rpl22, and ycf2 loci. In this analysis, we demonstrated the possibility of developing potential DNA markers in the chloroplast genome other than conventional barcode markers, such as matK and rbcL. The potential DNA markers identified in this analysis will serve as useful tools for future authentication of Allium and Veratrum species.

Citations

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  • Complete plastome sequence of Narcissus pseudonarcissus L., one of the most iconic European plants
    Martino Adamo, Valeria Fochi, Marco Mucciarelli
    Mitochondrial DNA Part B.2024; 9(8): 1132.     CrossRef
  • Authentication of Allium ulleungense, A. microdictyon and A. ochotense based on super-barcoding of plastid genome and 45S nrDNA
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    PLOS ONE.2023; 18(11): e0294457.     CrossRef
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    Yanan Jin, Ting Zhang, Binke Liu, Chengzhong Zheng, Hongyan Huo, Jixing Zhang
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    Junpei Chen, Dengfeng Xie, Xingjin He, Yi Yang, Xufeng Li
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    Geetika Malik, Ajmer Singh Dhatt, Ajaz Ahmed Malik
    Food Reviews International.2021; 37(4): 415.     CrossRef
  • Gene Loss, Pseudogenization in Plastomes of Genus Allium (Amaryllidaceae), and Putative Selection for Adaptation to Environmental Conditions
    Victoria A. Scobeyeva, Ilya V. Artyushin, Anastasiya A. Krinitsina, Pavel A. Nikitin, Maxim I. Antipin, Sergei V. Kuptsov, Maxim S. Belenikin, Denis O. Omelchenko, Maria D. Logacheva, Evgenii A. Konorov, Andrey E. Samoilov, Anna S. Speranskaya
    Frontiers in Genetics.2021;[Epub]     CrossRef
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    Kiran Khandagale, Ram Krishna, Praveen Roylawar, Avinash B. Ade, Ashwini Benke, Bharat Shinde, Major Singh, Suresh J. Gawande, Ashutosh Rai
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    Denis O. Omelchenko, Anastasia A. Krinitsina, Maxim S. Belenikin, Evgenii A. Konorov, Sergey V. Kuptsov, Maria D. Logacheva, Anna S. Speranskaya
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    Deng-Feng Xie, Jin-Bo Tan, Yan Yu, Lin-Jian Gui, Dan-Mei Su, Song-Dong Zhou, Xing-Jin He
    Annals of Botany.2020; 125(7): 1039.     CrossRef
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    Xin Yang, Deng-Feng Xie, Jun-Pei Chen, Song-Dong Zhou, Yan Yu, Xing-Jin He, Marcelo A. Soares
    BioMed Research International.2020;[Epub]     CrossRef
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    Deng-Feng Xie, Yan Yu, Jun Wen, Jiao Huang, Jun-Pei Chen, Juan Li, Song-Dong Zhou, Xing-Jin He
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  • Phylogeny of Chinese Allium Species in Section Daghestanica and Adaptive Evolution of Allium (Amaryllidaceae, Allioideae) Species Revealed by the Chloroplast Complete Genome
    Deng-Feng Xie, Huan-Xi Yu, Megan Price, Chuan Xie, Yi-Qi Deng, Jun-Pei Chen, Yan Yu, Song-Dong Zhou, Xing-Jin He
    Frontiers in Plant Science.2019;[Epub]     CrossRef
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Fruit Quality and Chemical Contents of Hybrid Boysenberry (Rubus ursinus) Lines Developed by Hybridization and Gamma Irradiation
Jaihyunk Ryu, Soon-Jae Kwon, Yeong Deuk Jo, Hong-Il Choi, Kyung-Yun Kang, Bo mi Nam, Dong-Gun Kim, Chang-Hyun Jin, Jin-Baek Kim, Ee-Yup Kim, Seung Cheol Oh, Bo-Keun Ha, Si-Yong Kang
Plant Breed. Biotech. 2017;5(3):228-236.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.228

The Rubus fruit is an economically important berry crop that contains various functional compounds. The
objective
of this study was to analyze fruit qualities (i.e., pH, soluble solids content, titratable acidity, and mineral content) as well as fatty acid and phenolic compounds (i.e., ellagic acid and anthocyanins) among hybrid boysenberry lines developed by hybridization and gamma irradiation. There were no significant differences in the hybrid boysenberry fruit pH and titratable acidity (%) among the tested genotypes. However, the soluble solids content was higher in the BSA119 and BSA144 mutants than in the original genotype (BS_Hybrid). Meanwhile, linoleic acid was the most abundant fatty acid in the analyzed hybrid boysenberry fruits. The fatty acid composition did not differ significantly among the genotypes. The ellagic acid content of all genotypes ranged from 8.72 mg/100 g to 46.10 mg/100 g, with the highest concentration observed for the BSB127 genotype. Additionally, cyanidin-3-O-sophoroside (M-H+, 611 m/z) and cyanidin-3-O-glucoside (M-H+, 449 m/z) were the two major anthocyanins detected in the boysenberry and mutant genotypes, while cyanidin-3-O-glucoside was the predominant blackberry anthocyanin. The total anthocyanin concentrations of four mutant genotypes (i.e., BSA036, BSA078, BSA101, and BSB127) were significantly higher than that of the original genotype (382.0 mg/100 g). The highest total anthocyanin concentration was observed for the BSA078 genotype (467.9 mg/100 g). These results may be useful for identifying the optimal genotypes for breeding new cultivars with enhanced qualities and potential health benefits.

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  • Extreme transgressive segregation for rhoifolin reveals breeding potential in strawberry F1 hybrids
    José G. Vallarino, Luca Mazzoni, Rohullah Qaderi, Franco Capocasa, Sonia Osorio, Bruno Mezzetti
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    Juyoung Kim, Jaihyunk Ryu, Seung Hyeon Lee, Jae Hoon Kim, Dong-Gun Kim, Tae Hyun Ha, Sang Hoon Kim
    Antioxidants.2025; 14(8): 1012.     CrossRef
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    Mostafa Saeed, Mohamed A. Elsadek, Zhuyun Chen, Lan Zhao, Guoyun Wang, Chaochao Zhou, Deli Sun, Zhongshan Gao, Yun Jiao
    Food Chemistry.2025; 479: 143784.     CrossRef
  • The Role of Silver Nanoparticles in Response of In Vitro Boysenberry Plants to Drought Stress
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    Maria Cristina Copello Rotili, Fabíola Villa, Daniel Fernandes da Silva, Solivan Rosanelli, Gilberto Costa Braga, Giovana Ritter
    Revista Ceres.2022; 69(1): 13.     CrossRef
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    Silvia Sabbadini, Franco Capocasa, Maurizio Battino, Luca Mazzoni, Bruno Mezzetti
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  • Phenolic Compound Content of Leaf Extracts from Different Roselle (Hibiscus sabdariffa) Accessions
    Jae Il Lyu, Jung Min Kim, Dong-Gun Kim, Jin-Baek Kim, Sang Hoon Kim, Joon-Woo Ahn, Si-Yong Kang, Jaihyunk Ryu, Soon-Jae Kwon
    Plant Breeding and Biotechnology.2020; 8(1): 1.     CrossRef
  • Genotyping-by-sequencing based single nucleotide polymorphisms enabled Kompetitive Allele Specific PCR marker development in mutant Rubus genotypes
    Jaihyunk Ryu, Woon Ji Kim, Juhyun Im, Sang Hun Kim, Kang-Seop Lee, Han-Jig Jo, Ee-Youb Kim, Si-Yong Kang, Jeong-Hee Lee, Bo-Keun Ha
    Electronic Journal of Biotechnology.2018; 35: 57.     CrossRef
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Overexpression of a Chromatin Architecture-Controlling ATPG7 has Positive Effect on Yield Components in Transgenic Soybean
Hye Jeong Kim, Hyun Suk Cho, Jun Hun Pak, Kook Jin Kim, Dong Hee Lee, Young-Soo Chung
Plant Breed. Biotech. 2017;5(3):237-242.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.237

AT-hook proteins of plant have shown to be involved in growth and development through the modification of chromatin architecture to co-regulate transcription of genes. Recently, many genes encoding AT-hook protein have been identified and their involvement in senescence delay is investigated. In this study, soybean transgenic plants overexpressing chromatin architecture-controlling ATPG7 gene was produced by Agrobacterium-mediated transformation and investigated for the positive effect on the important agronomic traits mainly focusing on yield-related components. A total of 27 transgenic soybean plants were produced from about 400 explants. T1 seeds were harvested from all transgenic plants. In the analysis of genomic DNAs from soybean transformants, ATPG7 and Bar fragments were amplified as expected, 975 bp and 408 bp in size, respectively. And also exact gene expression was confirmed by reverse transcriptase-PCR (RT-PCR) from transgenic line #6, #7 and #8. In a field evaluation of yield components of ATPG7 transgenic plants (T3), higher plant height, more of pod number and greater average total seed weight were observed with statistical significance. The results of this study indicate that the introduction of ATPG7 gene in soybean may have the positive effect on yield components.

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  • Efficient Isolation and Gene Transfer of Protoplast in Korean Soybean (Glycine Max (L.) Merr.) Cultivars
    Chuloh Cho, Dool-Yi Kim, Man-Soo Choi, Mina Jin, Mi-Suk Seo
    Korean Journal of Breeding Science.2021; 53(3): 230.     CrossRef
  • Increased Production of α-Linolenic Acid in Soybean Seeds by Overexpression of Lesquerella FAD3-1
    Wan Woo Yeom, Hye Jeong Kim, Kyeong-Ryeol Lee, Hyun Suk Cho, Jin-Young Kim, Ho Won Jung, Seon-Woo Oh, Sang Eun Jun, Hyun Uk Kim, Young-Soo Chung
    Frontiers in Plant Science.2020;[Epub]     CrossRef
  • Overexpression of ATHG1/AHL23 and ATPG3/AHL20, Arabidopsis AT-hook motif nuclear-localized genes, confers salt tolerance in transgenic Zoysia japonica
    Ha-Na Jeong, Hyeon-Jin Sun, Zhi-Fang Zuo, Dong Hee Lee, Pill-Soon Song, Hong-Gyu Kang, Hyo-Yeon Lee
    Plant Biotechnology Reports.2020; 14(3): 351.     CrossRef
  • Overexpression of AtYUCCA6 in soybean crop results in reduced ROS production and increased drought tolerance
    Jin Sol Park, Hye Jeong Kim, Hyun Suk Cho, Ho Won Jung, Joon-Young Cha, Dae-Jin Yun, Seon-Woo Oh, Young-Soo Chung
    Plant Biotechnology Reports.2019; 13(2): 161.     CrossRef
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The Complete Chloroplast Genome Sequence and Intra-Species Diversity of Rhus chinensis
Inseo Kim, Jee Young Park, Yun Sun Lee, Ho Jun Joh, Shin Jae Kang, Jayakodi Murukarthick, Hyun Oh Lee, Young-Jin Hur, Yong Kim, Kyung Hoon Kim, Sang-Choon Lee, Tae-Jin Yang
Plant Breed. Biotech. 2017;5(3):243-251.   Published online September 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.3.243

Rhus chinensis is a shrub widely distributed in Asia. It has been used for traditional medicine and ecological restoration. Here, we report the complete chloroplast genome sequence of two R. chinensis genotypes collected from China and Korea. The assembled chloroplast genome of Chinese R. chinensis is 149,094 bp long, consisting of a large single copy (97,246 bp), a small single copy (18,644 bp) and a pair of inverted repeats (16,602 bp). Gene annotation revealed 77 protein coding genes, 30 tRNA genes, and 4 rRNA genes. A phylogenomic analysis of the chloroplast genomes with 11 known complete chloroplast genomes clarified the relationship of R. chinensis with the other plant species in the Sapindales order. A comparative chloroplast genome analysis identified 170 SNPs and 85 InDels at intra-species level of R. chinensis between Chinese and Korean collections. Based on the sequence diversity between Korea and Chinese R. chinensis plants, we developed three DNA markers useful for genetic diversity and authentication system. The chloroplast genome information obtained in this study will contribute to enriching genetic resources and conservation of endemic Rhus species.

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  • Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus
    Yeonjeong Lee, Hyun-Seung Park, Jae-Hyeon Jeon, Jee Young Park, Seung Hyun Kim, Jungmoo Huh, Sunmin Woo, Do-Won Jeong, Tae-Jin Yang
    Current Plant Biology.2022; 30: 100244.     CrossRef
  • Variation among the Complete Chloroplast Genomes of the Sumac Species Rhus chinensis: Reannotation and Comparative Analysis
    Yujie Xu, Jun Wen, Xu Su, Zhumei Ren
    Genes.2022; 13(11): 1936.     CrossRef
  • Phytochemical, Antioxidant, Anti-Microbial, and Pharmaceutical Properties of Sumac (Rhus coriaria L.) and Its Genetic Diversity
    Anna Perrone, Sanaz Yousefi, Boris Basile, Giandomenico Corrado, Antonio Giovino, Seyed Alireza Salami, Alessio Papini, Federico Martinelli
    Horticulturae.2022; 8(12): 1168.     CrossRef
  • Authentication of Rubus coreanus and Related Species via DNA Barcoding and HPLC Approaches
    Young Sang Park, Young Jun Kim, Tae Jin Yang, Ji Yeon Kim
    Korean Journal of Medicinal Crop Science.2021; 29(6): 425.     CrossRef
  • Plastid genomes of the North American Rhus integrifolia-ovata complex and phylogenomic implications of inverted repeat structural evolution in Rhus L.
    Craig F. Barrett
    PeerJ.2020; 8: e9315.     CrossRef
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