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

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 F_ST 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

Citations to this article as recorded by  

• 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

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.

Citations

Citations to this article as recorded by  

• Development of Molecular Markers for Flower Color Determination Based on Carotenoid Genes Using QTL Analysis in Chrysanthemum
  Ye-Ji Lee, So Youn Won, Jae-A Jung, Jung Sun Kim
  Korean Journal of Breeding Science.2025; 57(2): 91.     CrossRef
• Current Trends in Wheat Breeding Strategies for Developing Domestic Wheat Cultivars in Korea
  Hajeong Kang, Hyoun-Min Park, San-Gu Lee, Eun-Ha Kim, Muhammad Imran, Hanyoung Choi, Myeong-Ji Kim, Seonwoo Oh
  Korean Journal of Breeding Science.2024; 56(4): 491.     CrossRef
• Consensus genomic regions associated with multiple abiotic stress tolerance in wheat and implications for wheat breeding
  Mohammad Jafar Tanin, Dinesh Kumar Saini, Karansher Singh Sandhu, Neeraj Pal, Santosh Gudi, Jyoti Chaudhary, Achla Sharma
  Scientific Reports.2022;[Epub]     CrossRef
• Genome-wide association study of pre-harvest sprouting resistance in Chinese wheat founder parents
  Yu Lin, Shihang Liu, Yaxi Liu, Yujiao Liu, Guoyue Chen, Jie Xu, Mei Deng, Qiantao Jiang, Yuming Wei, Yanli Lu, Youliang Zheng
  Genetics and Molecular Biology.2017; 40(3): 620.     CrossRef

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.

Citations

Citations to this article as recorded by  

• Marker–Trait Association for Protein Content among Maize Wild Accessions and Coix Using SSR Markers
  Shankarappa Varalakshmi, Smrutishree Sahoo, Narendra Kumar Singh, Navneet Pareek, Priya Garkoti, Velmurugan Senthilkumar, Shruti Kashyap, Jai Prakash Jaiswal, Sherry Rachel Jacob, Amol N. Nankar
  Agronomy.2023; 13(8): 2138.     CrossRef
• Association mapping of cane weight and tillers per plant in sugarcane
  Muhammad Bilal, Muhammad Saeed, Idrees Ahmad Nasir, Bushra Tabassum, Mariam Zameer, Anwar Khan, Muhammad Tariq, Muhammad Aslam Javed, Tayyab Husnain
  Biotechnology & Biotechnological Equipment.2015; 29(4): 617.     CrossRef