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"Simple sequence repeat"

Research Articles

Genetic Analysis Reveals a Major Effect QTL Associated with High Grain Zinc Content in Rice (Oryza sativa L.)
Shaikh J. Mohiuddin, Ashraful Haque, Manjurul Haque, Tofazzal Islam, Partha S. Biswas
Plant Breed. Biotech. 2020;8(4):327-340.   Published online December 1, 2020
DOI: https://doi.org/10.9787/PBB.2020.8.4.327

Molecular mapping and application of quantitative trait loci (QTL) associated with a higher level of grain Zinc is a viable option to enhance zinc content in rice through breeding. An F2 population derived from a cross between a high yielding variety, BRRI dhan28, and a locally adapted Zn enriched cultivar, Kalobokri was used to map QTLs associated with higher levels of Zn in rice grain. The F2:3 progenies varied significantly (P < 0.0001) in Zinc contents with a mean value remarkably higher than those in the superior parent. Through marker by trait analysis using IciMapping, we detected a large-effect QTL, qGZn3 on chromosome 3 between RM5419 and RM1164 spanning 1.83 Mb interval at the 0.05 level of significance with a threshold LOD of 10.61. This QTL showed a 21.1% (R2 value) contribution to the total phenotypic variation for zinc content in the unpolished rice grains with 4.68 μg/g additive effect of Kalobokri alleles. We also detected 11 metal homeostasis related genes within the interval of qGZn3. In-silico analysis showed that four expressed sequence tags of one candidate gene (LOC_Os03g22810) encoding Cu/Zn superoxide dismutase, a metal-binding protein, are highly active in the endosperm as well as in the embryonic tissue of rice grain. Taken together, our results suggest that qGZn3 is a major QTL associated with high grain Zn content in the F2 progenies of rice. Our findings offer valuable genetic resources to facilitate breeding for high yielding and Zinc-enriched rice variety.

Citations

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  • Precision breeding strategy to enrich iron and zinc in rice
    Rajvir Kaur, Rupinder Kaur, Renu Khanna, Gurjeet Singh, Dinesh Kumar Saini, Amandeep, Kumari Neelam, Navjot Sidhu, Ranvir Singh Gill
    Cereal Research Communications.2026; 54(1): 657.     CrossRef
  • Genomic Insights into the Genetic Control of Iron and Zinc Content in Rice: A Meta-analysis of Key Hotspots
    Om Prakash Raigar, Gaurav Augustine, Rupinder Kaur, Nitika Sandhu
    Journal of Plant Growth Regulation.2025;[Epub]     CrossRef
  • Association analysis of grain zinc and iron content with agro-morphological traits in segregating population of rice
    Rahul Singh, Anand Kumar, Mankesh Kumar, Sweta Sinha, Sareeta Nahakpam, Sunil Kumar, Shashikant, Satyendra, SP Singh
    Oryza-An International Journal on Rice.2024; 61(4): 283.     CrossRef
  • Genomic prediction and QTL analysis for grain Zn content and yield in Aus-derived rice populations
    Tapas Kumer Hore, C. H. Balachiranjeevi, Mary Ann Inabangan-Asilo, C. A. Deepak, Alvin D. Palanog, Jose E. Hernandez, Glenn B. Gregorio, Teresita U. Dalisay, Maria Genaleen Q. Diaz, Roberto Fritsche Neto, Md. Abdul Kader, Partha Sarathi Biswas, B. P. Mall
    Journal of Plant Biochemistry and Biotechnology.2024; 33(2): 216.     CrossRef
  • QTL mapping reveals different set of candidate genes governing stable and location specific QTLs enhancing zinc and iron content in rice
    Sonali Vijay Habde, Shravan Kumar Singh, Dhirendra Kumar Singh, Arun Kumar Singh, Rameswar Prasad Sah, Mounika Korada, Amrutlal R. Khaire, Prasanta Kumar Majhi, Uma Maheshwar Singh, Vikas Kumar Singh, Arvind Kumar
    Euphytica.2024;[Epub]     CrossRef
  • Deciphering the genetic basis of agronomic, yield, and nutritional traits in rice (Oryza sativa L.) using a saturated GBS-based SNP linkage map
    Mark Ian C. Calayugan, Tapas Kumer Hore, Alvin D. Palanog, Amery Amparado, Mary Ann Inabangan-Asilo, Gaurav Joshi, Balachiranjeevi Chintavaram, B. P. Mallikarjuna Swamy
    Scientific Reports.2024;[Epub]     CrossRef
  • Rice biofortification: breeding and genomic approaches for genetic enhancement of grain zinc and iron contents
    P. Senguttuvel, Padmavathi G, Jasmine C, Sanjeeva Rao D, Neeraja CN, Jaldhani V, Beulah P, Gobinath R, Aravind Kumar J, Sai Prasad SV, Subba Rao LV, Hariprasad AS, Sruthi K, Shivani D, Sundaram RM, Mahalingam Govindaraj
    Frontiers in Plant Science.2023;[Epub]     CrossRef
  • QTL Mapping of Mineral Element Contents in Rice Using Introgression Lines Derived from an Interspecific Cross
    Cheryl Adeva, Yeo-Tae Yun, Kyu-Chan Shim, Ngoc Ha Luong, Hyun-Sook Lee, Ju-Won Kang, Hyun-Jung Kim, Sang-Nag Ahn
    Agronomy.2022; 13(1): 76.     CrossRef
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Genetic Variation Analysis of Chinese Jujube Cultivars Using ISSR Molecular Markers
Jae-Ik Nam, Sea-Hyun Kim, Chul-Woo Kim
Plant Breed. Biotech. 2019;7(3):200-207.   Published online September 1, 2019
DOI: https://doi.org/10.9787/PBB.2019.7.3.200

Chinese jujube (Ziziphus jujuba Mill.) is an economically important species with over 4,000 years of cultivation history. Cultivar classification and phylogenetic relationship of jujube have been controversial due to the lack of data related to species origin and cultivation. In this study, inter simple sequence repeat (ISSR) markers were used to analyze the genetic characteristics and relationships of Korean and Chinese jujube cultivars. The amplification of genomic DNA of the 32 accessions using 11 primers yielded 149 amplified bands, of which 141 were polymorphic. The amplification of 22 jujube cultivars generated 76 bands, 40 of which were polymorphic, suggesting that many polymorphic bands appeared in the outgroup. The mean genetic similarity index (GSI) of the cultivars was 0.835; Bokjo, Geumseong, Wolchul, and Mudeung cultivars showed the highest GSI of 1, and Sandonglizao and Xiaolizao had the lowest GSI of 0.658. The cluster analysis resolved Indian jujube (Z. mauritiana Lam.) and Paliurus ramosissimus Poir. in a basal Group I, sour jujube 2 (Z. acidojujuba C.Y. Cheng & M.J. Liu) and Damaya formed Group II, Dabailing and Daguazao were clustered in Group III, and the remaining accessions formed Group IV. The Korean cultivars and Korean native varieties showed genetic uniformity and were close to some Chinese cultivars. Accordingly, exploration of domestic and foreign genetic resources should be supplemented with survey of characteristics of collected material for genetic resources management and breeding of elite lines.

Citations

Citations to this article as recorded by  
  • Genetic diversity analysis of pomelo germplasm resources based on leaf phenotype and SCoT markers
    Xiaoqi Duan, Faisal Hayat, Ziqi Lei, Haocheng Ruan, Wenzhao Lin, Panfeng Tu, Caiqin Li, Wenpei Song, Yongquan Li, Juan Li, Lubin Zhang, Guohua Li, Ruifeng Ma, Wentao Gou, Gensheng Xiao, Qin Wang, Qiansong Wang
    Scientia Horticulturae.2025; 346: 114174.     CrossRef
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Rapid Communication

Development of Polymorphic SSR Markers from Pinus densiflora (Pinaceae) Natural Population in Korea
Hee Chung, Jaebok Lee, Jinsu Gil, Yurry Um, Ji Hyun Kim, Min Yeong Hwang, Ho Bang Kim, Chang Pyo Hong, Shin Gi Park, Donghwan Shim, Yi Lee
Plant Breed. Biotech. 2019;7(1):67-71.   Published online March 1, 2019
DOI: https://doi.org/10.9787/PBB.2019.7.1.67

Simple sequence repeat (SSR) markers were developed from Pinus densiflora, a species native to Asia, to investigate its genetic diversity and population structure in order to provide information for the management and breeding of this species. Using next-generation sequencing, a total of 1,008 putatively polymorphic SSR primer sets were designed. Seventeen polymorphic SSR markers in 121 individuals belonging to four natural populations of P. densiflora were identified and characterized, with three to seventeen alleles per locus. The expected heterozygosity ranged from 0.1844 to 0.8731 in four populations, and the average of the PIC values ranged from 0.2789 to 0.8488. Cross amplification of these markers was performed among the related species P. rigida, P. koraiensis, P. parviflora, and P. bungeana. The developed novel SSR markers are promising tools for studying the genetic diversity or population structure of P. densiflora and its related species.

Citations

Citations to this article as recorded by  
  • Analysis of the genetic diversity and population structure of Lindera obtusiloba (Lauraceae), a dioecious tree in Korea
    Ho Bang Kim, Hye-Young Lee, Mi Sun Lee, Yi Lee, Youngtae Choi, Sung-Yeol Kim, Jaeyong Choi
    Journal of Plant Biotechnology.2023;[Epub]     CrossRef
  • Genome-wide microsatellite characterization and marker development in Diospyros oleifera
    Yang Xu, Cuiyu Liu, Xu Yang, Kaiyun Wu, Bangchu Gong
    Industrial Crops and Products.2023; 203: 117182.     CrossRef
  • Genetic Diversity and Structure of Pinus densiflora Siebold & Zucc. Populations in Republic of Korea Based on Microsatellite Markers
    Ji-Young Ahn, Jei-Wan Lee, Kyung-Nak Hong
    Forests.2021; 12(6): 750.     CrossRef
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Research Articles
High-Throughput Development of Polymorphic Simple Sequence Repeat Markers Using Two Whole Genome Sequence Data in Peucedanum japonicum
Junki Lee, Ho Jun Joh, Nam-Hoon Kim, Sang-Choon Lee, Woojong Jang, Beom Soon Choi, Yeisoo Yu, Tae-Jin Yang
Plant Breed. Biotech. 2017;5(2):134-142.   Published online June 1, 2017
DOI: https://doi.org/10.9787/PBB.2017.5.2.134

Resource plants are important and have strong potential for a variety of utilities as crops or pharmaceutical materials. However, most resource plants remain wild and thus their utility for breeding and biotechnology is limited. Molecular markers are useful to initiate genetic study and molecular breeding for these understudied resource plants. We collected various wild collections of Peucedanum japonicum which is indigenous resource plants utilized as oriental medicine and leafy vegetables in Korea. In this study, we produced two independent whole genome sequences (WGSs) from two collections and identified large scale polymorphic simple sequence repeat (pSSR) based on our pipeline to develop SSR markers based on comparison of two WGSs. We identified a total of 452 candidate pSSR contigs. To confirm the accuracy and utility of pSSR, we designed ten SSR primer pairs and successfully applied those to seven collections of P. japonicum. The WGS and pSSR candidates identified in this study will be useful resource for genetic research and breeding purpose for the valuable resource plant, P. japonicum.

Citations

Citations to this article as recorded by  
  • 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
  • De Novo Assembly and Species-Specific Marker Development as a Useful Tool for the Identification of Scutellaria L. Species
    Hakjoon Choi, Wan Seok Kang, Jin Seok Kim, Chang-Su Na, Sunoh Kim
    Current Issues in Molecular Biology.2021; 43(3): 2177.     CrossRef
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Genetic Diversity and Population Structure of Rubus Accessions Using Simple Sequence Repeat Markers
Kyung Jun Lee, Gi-An Lee, Hee-Kyoung Kang, Jung-Ro Lee, Sebastin Raveendar, Myoung-Jae Shin, Yang-Hee Cho, Kyung-Ho Ma
Plant Breed. Biotech. 2016;4(3):345-351.   Published online August 31, 2016
DOI: https://doi.org/10.9787/PBB.2016.4.3.345

Sixty-nine Rubus accessions were analyzed to determine the genetic relationships using simple sequence repeat (SSR) markers. Twenty-three SSR markers generated a total of 351 alleles from all accessions, with an average of 15.3 alleles per locus. The average value of polymorphism information content was 0.76, ranging from 0.52 to 0.91. As a result of population structure analysis, 69 Rubus accessions of six Rubus species were subdivided into six subpopulations. Four subpopulations included distinct Rubus species accessions; pop2 (Rubus crataegifolius var. subcuneatus, 2 accessions), pop3 (R. crataegifolius Bunge., 18 accessions), pop4 (R. fruticosus L., 3 accessions) and pop6 (R. coreanus Miq., 36 accessions) while The pop1 and pop5 mainly included R. idaeus L. and R. parvifolius L., respectively. In cluster analysis, 69 Rubus accessions were divided into three groups. Group I contained 35 Rubus accessions, which consisted of six Rubus species. Groups II and III had 30 and 4 Rubus accessions, respectively. They consisted of only R. coreanus. The uncertain diversity of species and artificial groups of the Rubus genus has created confusion with respect to the correct classification of the species at both commercial and scientific levels. The results of the present study will provide basic information for phylogeny, taxonomy and breeding programs of Rubus species.

Citations

Citations to this article as recorded by  
  • Genetic diversity and population structure of some blackberry genotypes collected from different parts of Türkiye using inter simple sequence repeat (ISSR) markers
    Fatma Alan, Aydın Uzun, Hasan Pınar
    Genetic Resources and Crop Evolution.2025; 72(7): 9001.     CrossRef
  • Cross-transferability of Rubus ellipticus EST–SSR markers for genetic diversity analysis of peach (Prunus persica)
    Samriti Sharma, Rajinder Kaur, Krishan Kumar, Heerendra Sagar
    Genetic Resources and Crop Evolution.2024; 71(4): 1615.     CrossRef
  • Genetic diversity and population relationships in wild Korean black raspberry (Rubus coreanus Miq.) based on microsatellite markers: establishing a fruit tree breeding strategy
    Sung-Kyung Han, Hanna Shin, Jei-Wan Lee, Kyung-Nak Hong, Ji-Young Ahn
    Horticulture, Environment, and Biotechnology.2024; 65(2): 293.     CrossRef
  • Genetic differentiation between Czech and Norwegian raspberry populations: new options for breeding
    Jiří Sedlák, Leona Leišová-Svobodová, Inger Martinussen, Vojtěch Holubec
    Euphytica.2022;[Epub]     CrossRef
  • Genetic variability in Rubus ellipticus collections assessed by morphological traits and EST-SSR markers
    Samriti Sharma, Rajinder Kaur, Krishan Kumar, Dinesh Kumar, Amol Kumar U. Solanke
    Journal of Plant Biochemistry and Biotechnology.2021; 30(1): 37.     CrossRef
  • Evaluación de marcadores microsatélites (SSRs) heterólogos en Rubus niveus para estudios de diversidad genética en las Islas Galápagos
    Pablo Alarcón Bolaños, María de Lourdes Torres, Gabriela Pozo, María Paula Erazo, Mayra Ortega, Estefanía Rojas, Noelia Barriga, Antonio Leon Reyes
    ACI Avances en Ciencias e Ingenierías.2021; 13(2): 20.     CrossRef
  • Recent Large-Scale Genotyping and Phenotyping of Plant Genetic Resources of Vegetatively Propagated Crops
    Hilde Nybom, Gunārs Lācis
    Plants.2021; 10(2): 415.     CrossRef
  • MODERN WAYS OF RASPBERRY BREEDING
    L. V. FROLOVA, T. A. HASHENKO, O. A. HASHENKO
    Fruit-Growing.2021; 33: 211.     CrossRef
  • Genetic diversity of the Andean blackberry (Rubus glaucusBenth.) in Ecuador assessed by AFLP markers
    Patricia Garrido, Eduardo Morillo, Wilson Vásquez-Castillo
    Plant Genetic Resources: Characterization and Utilization.2020; 18(4): 243.     CrossRef
  • Molecular markers in the genetic diversity studies of representatives of the genus Rubus L. and prospects of their application in breeding
    A. M. Kamnev, O. Yu. Antonova, S. E. Dunaeva, T. A. Gavrilenko, I. G. Chukhina
    Vavilov Journal of Genetics and Breeding.2020; 24(1): 20.     CrossRef
  • Genetic and genomic resources for Rubus breeding: a roadmap for the future
    Toshi M. Foster, Nahla V. Bassil, Michael Dossett, Margaret Leigh Worthington, Julie Graham
    Horticulture Research.2019;[Epub]     CrossRef
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Genetic Diversity and Population Structure of Asian Tomato Accessions Based on Simple-Sequence Repeats
Sebastin Raveendar, Jong-Wook Chung, Gi-An Lee, Jung-Ro Lee, Kyung-Jun Lee, Myoung-Jae Shin, Yang-Hee Cho, Kyung-Ho Ma
Plant Breed. Biotech. 2016;4(3):306-314.   Published online August 31, 2016
DOI: https://doi.org/10.9787/PBB.2016.4.3.306

Tomato (Solanum lycopersicum L.) is one of the most economically important plants in the family Solanaceae. Understanding its genetic diversity of accessions is vital for additional collection of tomato germplasms. The
objective
of this study was to determine the genetic diversity and population structure of 355 tomato accessions from Asia using 18 simple-sequence repeats (SSRs). A total of 176 alleles were detected at an average of ten alleles per SSR locus. The average major allele frequency and polymorphic information content were 0.69 and 0.39, respectively. Model-based structure analysis revealed two subpopulations (88%), including admixtures (11%) in the 355 Asian tomato accessions, consistent with clustering results based on genetic distance. The overall FST value was 0.135, indicating a moderate differentiation between the inferred subpopulations. Analysis of molecular variance showed that the genetic variance among geographical groups was less than 6%, in contrast to 86% of genetic variance among individuals. The results from this study will provide important information for future germplasm conservation and improvement programs for tomato.

Citations

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  • Next generation sequencing technologies to explore the diversity of germplasm resources: Achievements and trends in tomato
    Pasquale Tripodi
    Computational and Structural Biotechnology Journal.2022; 20: 6250.     CrossRef
  • Genetic diversity, population structure and validation of SSR markers linked to Sw-5 and I-2 genes in tomato germplasm
    Saidaiah Pidigam, Vishnukiran Thuraga, Suchandranath Babu Munnam, Geetha Amarapalli, Gopal Kuraba, Someswara Rao Pandravada, Srinivas Nimmarajula, Hari Kishan Sudini
    Physiology and Molecular Biology of Plants.2021; 27(8): 1695.     CrossRef
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Identification of a New Race and Development of DNA Markers Associated with Powdery Mildew in Melon
Hoy-Taek Kim, Jong-In Park, Arif Hasan Khan Robin, Tomoko Ishikawa, Maki Kuzuya, Manabu Horii, Katsutoshi Yashiro, Ill-Sup Nou
Plant Breed. Biotech. 2016;4(2):225-233.   Published online May 31, 2016
DOI: https://doi.org/10.9787/PBB.2016.4.2.225

Powdery mildew disease caused by an obligatory parasitic fungus Podosphaera xanthii is a serious problem of melon (Cucumis melo L.) production worldwide. Severity of problem is further associated with emergence of new races over the years. In this study a new race of powdery mildew fungus was discovered from Ibaraki, Japan. The race was different from all other existing races of P. xanthii occurring in Japan. Phenotypic and genetic analysis established the new fungus type as a new race, N5. Ten melon lines were infected with a total of eight fungal races including the new N5 race and it was found that all melon lines had different disease reactions against the new race compared to other seven races. Only four melon genotypes were found resistant out of 42 commercial cultivars and lines were tested. Disease reactions of two sets of F2 populations and one set of backcross population revealed that two separate epistatic gene loci located in two different linkage groups (LG), LG II and LG XII, interact together for the resistant or susceptible reaction of melon lines. A total of six simple sequence repeat (SSR) markers were found polymorphic in melon lines out of 16 tested in response to N5 race. Two different sets of F2 populations between resistant and susceptible melon lines were assessed with two polymorphic SSR markers located in two different groups, LG II and LG XII. SSR genotyping yielded 78% and 94% expected polymerase chain reaction fragments in favor of resistance or susceptibility of F2 populations of CM17187×PMR5 and PMR45×PMR5 of melon lines, respectively.

Citations

Citations to this article as recorded by  
  • A survey of Podosphaera xanthii races in melon-producing regions in Rio Grande do Norte State, Brazil
    Anânkia de Oliveira Ricarte Marinho, Adriano Ferreira Martins, Francisco Linco de Souza Tomaz, Elaíne Welk Lopes Pereira Nunes, Denilson Eduardo Silva Dantas, Geovanna Alicia Dantas Gomes, Edicleide Macedo da Silva, Glauber Henrique de Sousa Nunes
    Journal of Plant Pathology.2025; 108(1): 777.     CrossRef
  • Status, Gaps and Perspectives of Powdery Mildew Resistance Research and Breeding in Cucurbits
    Aleš Lebeda, Eva Křístková, Barbora Mieslerová, Narinder P. S. Dhillon, James D. McCreight
    Critical Reviews in Plant Sciences.2024; 43(4): 211.     CrossRef
  • Identification of powdery mildew resistance quantitative trait loci in melon and development of resistant near-isogenic lines through marker-assisted backcrossing
    Chun-San Wang, Ssu-Yu Lin, Jin-Hsing Huang, Hsin-Yi Chang, Di-Kuan Lew, Yu-Hua Wang, Kae-Kang Hwu, Yung-Fen Huang
    Botanical Studies.2024;[Epub]     CrossRef
  • Identification of Gene Responsible for Conferring Resistance against Race KN2 of Podosphaera xanthii in Melon
    Sopheak Kheng, San-Ha Choe, Nihar Sahu, Jong-In Park, Hoy-Taek Kim
    International Journal of Molecular Sciences.2024; 25(2): 1134.     CrossRef
  • Fine mapping and identification of candidate genes associated with powdery mildew resistance in melon (Cucumis melo L.)
    Xiaoyu Duan, Yue Yuan, Núria Real, Mi Tang, Jian Ren, Jiaqi Wei, Bin Liu, Xuejun Zhang
    Horticulture Research.2024;[Epub]     CrossRef
  • Inheritance of Resistance to Race 5 of Powdery Mildew Fungus Podosphaera xanthii in Melon and Development of Race 5-Specific High Resolution Melting Markers
    Jeong-Eui Hong, Mohammad Rashed Hossain, Hee-Jeong Jung, Ill-Sup Nou
    Plant Breeding and Biotechnology.2022; 10(4): 272.     CrossRef
  • Development of powdery mildew race 5-specific SNP markers in Cucumis melo L. using whole-genome resequencing
    Jewel Howlader, Yeji Hong, Sathishkumar Natarajan, Kanij Rukshana Sumi, Hoy-Taek Kim, Jong-In Park, Ill-Sup Nou
    Horticulture, Environment, and Biotechnology.2020; 61(2): 347.     CrossRef
  • Genetic Mapping and Nucleotide Diversity of Two Powdery Mildew Resistance Loci in Melon (Cucumis melo)
    Cui Haonan, Ding Zhuo, Fan Chao, Zhu Zicheng, Zhang Hao, Gao Peng, Luan Feishi
    Phytopathology®.2020; 110(12): 1970.     CrossRef
  • PCR-Based InDel Marker Associated with Powdery Mildew-Resistant MR-1
    Yu-Ri Choi, Jae Yong Lee, Seongbin Hwang, Hyun Uk Kim
    Agronomy.2020; 10(9): 1274.     CrossRef
  • Identification of Two New Races of Podosphaera xanthii Causing Powdery Mildew in Melon in South Korea
    Ye-Ji Hong, Mohammad Rashed Hossain, Hoy-Taek Kim, Jong-In Park, Ill-Sup Nou
    The Plant Pathology Journal.2018; 34(3): 182.     CrossRef
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Analysis of QTL Interaction for Grain Weight using Near Isogenic Lines in Rice
Hae-hwang Kim, Dong-min Kim, Ju-won Kang, Hyun-Sook Lee, Yun-ju Kang, Sang-nag Ahn
Plant Breed. Biotech. 2015;3(1):30-38.   Published online March 31, 2015
DOI: https://doi.org/10.9787/PBB.2015.3.1.030

Grain weight (GW) is one of the most important targets for grain yield in rice breeding. In previous studies, two quantitative trait loci (QTLs) for grain weight, tgw2 and gw8.1, were identified using progeny derived from crosses between the japonica cultivar Hwaseong and Oryza grandiglumis, and between Hwaseong and O. rufipogon (IRGC 105491), respectively. The wild alleles increased GW at two loci. An F2 population (186 plants) was developed by crossing two near isogenic lines (NILs) harboring tgw2 and gw8.1 to test their interaction. Simple sequence repeat (SSR) markers tightly linked to the two QTLs were used to check the genotype of the F2 population. Based on the genotype at the two loci, tgw2 and gw8.1, the F2 plants were classified into 9 groups with a combination of three genotypes at each of the two loci. Two-way ANOVA revealed no interaction between the 2 QTLs in the F2 population. The 1,000 grain weight (TGW) of homozygous plants with wild alleles at the two loci was significantly higher than that of plants with a single QTL in the F2 and F3 lines. These results indicate that two QTLs act additively, in distinct or complementary pathways, to control grain weight. Based on these results, it is desirable to pyramid the two QTLs into a single line, since the double-QTL line displayed further increase of TGW in the Hwaseong background.

Citations

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  • QTL Analysis Related to Grain Size Using the Population Derived from a Cross Between Hopum and Basmati 370
    Da-Eun Im, Seong-Gyu Jang, Backki Kim, Jeonghwan Seo, D. S. Kishor, Hee-Jong Koh, Soon-Wook Kwon
    Korean Journal of Breeding Science.2023; 55(2): 118.     CrossRef
  • QTL-by-QTL, QTL-by-environment, and QTL-by-QTL-by-environment interactions of loci controlling grain length in rice
    Tsuneo Kato, Akira Horibata
    Euphytica.2022;[Epub]     CrossRef
  • Fine mapping and candidate gene analysis of the quantitative trait locus gw8.1 associated with grain length in rice
    Yun-Joo Kang, Kyu-Chan Shim, Hyun-Sook Lee, Yun-A Jeon, Sun-Ha Kim, Ju-Won Kang, Yeo-Tae Yun, In-Kyu Park, Sang-Nag Ahn
    Genes & Genomics.2018; 40(4): 389.     CrossRef
  • Estimation of additive and epistatic gene effects of doubled haploid lines of winter oilseed rape (Brassica napus L.)
    Jan Bocianowski, Kamila Nowosad, Agnieszka Dobrzycka, Joanna Wolko
    Euphytica.2017;[Epub]     CrossRef
  • Path analysis and estimation of additive and epistatic gene effects of barley SSD lines
    Jan Bocianowski, Katarzyna Górczak, Kamila Nowosad, Wojciech Rybiński, Dariusz Piesik
    Journal of Integrative Agriculture.2016; 15(9): 1983.     CrossRef
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Mapping of QTL for Pre-Harvest Sprouting Resistance and Seed Dormancy in a Doubled Haploid Population
Kyeong-Hoon Kim, Ji-Ung Jung, Chon-Sik Kang, Sang-Hyun Shin, Jong-Chul Park, Jae-Han Son, Chul Soo Park
Plant Breed. Biotech. 2014;2(3):247-256.   Published online September 30, 2014
DOI: https://doi.org/10.9787/PBB.2014.2.3.247

Pre-harvest sprouting (PHS) of wheat reduces grain yield and has deleterious effects on wheat flour quality. PHS resistance is strongly associated with grain color and seed dormancy. Resistance to PHS is a priority of wheat breeding program. We have studied a population of 122 Doubled Haploid (DH) lines from the cross between two cultivars, ‘Keumkang’ and ‘Olgeuru’, in order to detect QTLs correlated with PHS resistance. PHS was evaluated using mist spray in the humid chamber (PHS-MS), and the germination index (GI) was determined for two years. The variety ‘Keumkang’ has white grains and higher percentage of PHS rate (30.2%), while ‘Olgeuru’ has red grains and lower PHS rate (2.8%). There was significant difference in grain color according to the GI. PHS-MS was positively correlated with GI (r = 0.732, P < 0.001). Two molecular markers, Xbarc12 and Xgwm3, were found correlated with PHS resistance and GI. These markers were mapped on chromosomes 3A and 3D with LOD scores of 4.95 and 4.02, respectively. Xbarc12 explained the highest amount of phenotypic variation (R2) which is 11.99% in GI and 27.25% in PHS. Xgwm3 explained 9.10% of phenotypic variation in GI. The respective value of PHS-MS and GI in Korean wheat cultivars ranged from 1.37% to 86.75% and from 0.03 to 0.73. This study provides useful information for marker-assisted wheat breeding for PHS resistance improvement in Korea.

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Application of Simple Sequence Repeat (SSR) Markers for the Discrimination of Korean and Chinese Sesame (Sesamum indicum L.) Accessions
Jong-Hyun Park, Sundan Suresh, Xiang-Min Piao, Gyu Taek Cho, Sok-Young Lee, Hyung Jin Baek, Chul-Won Lee, Jong-Wook Chung
Plant Breed. Biotech. 2014;2(1):80-87.   Published online March 31, 2014
DOI: https://doi.org/10.9787/PBB.2014.2.1.080

Sesame (Sesamum indicum L.) is an ancient oil seed crop that has been referred to as the ‘queen of oilseeds’ by virtue of its high quality oil. Fourteen simple sequence repeat (SSR) markers were used to differentiate 70 sesame (Sesame indicum L) accessions. Forty-three of the accessions were from Korea and 27 were from China. An initial round of analysis using two SSR markers (GBssr-sa-005 and GBssr-sa-182) identified 21 distinct accessions. A second round of analysis using one additional SSR marker (GBssr-sa-108) identified 25 more distinct accessions. Addition of a fourth SSR marker (GBssr-sa-184) for a third round of analysis identified an additional 20 accessions. This study demonstrates differentiation between 43 accessions from Korea and 23 accessions from China by four SSR markers.

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