Article
Plant Sciences
Liqiang He, Yao Sui, Yanru Che, Huixian Wang, Khalid Y. Rashid, Sylvie Cloutier, Frank M. You
Summary: This study evaluated the resistance of 445 flax accessions to pasmo, a disease caused by the fungus Septoria linicola. Genetic analysis identified numerous QTNs associated with pasmo resistance, providing potential targets for improving resistance in flax breeding programs. Additionally, the study discovered candidate genes and gene-environment interactions that contribute to pasmo resistance in flax.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Genetics & Heredity
Jin Zhang, Min Chen, Yangjun Wen, Yin Zhang, Yunan Lu, Shengmeng Wang, Juncong Chen
Summary: The newly developed FastRR algorithm under the MLM framework shows superior power in detecting and estimating the effects of multiple genetic markers on traits, providing a more accurate and stable approach for both large and small QTN detection. Compared with existing methods, FastRR algorithm also offers the advantage of high computing speed in high dimensional genomic datasets.
FRONTIERS IN GENETICS
(2021)
Article
Biochemical Research Methods
Aurelie C. Lozano, Hantian Ding, Naoki Abe, Alexander E. Lipka
Summary: This study introduces a novel regularized multi-trait linear mixed model and scalable estimation approaches to address the estimation problems in the presence of high-dimensional genotypes and a large number of traits. The effectiveness of the proposed methods was evaluated using datasets from maize and sorghum diversity panels, showing advantages in achieving high prediction accuracy in GS and identifying relevant marker-trait associations.
BMC BIOINFORMATICS
(2023)
Article
Biotechnology & Applied Microbiology
Xuehang Xiong, Jianxin Li, Pingping Su, Haiyang Duan, Li Sun, Shuhao Xu, Yan Sun, Haidong Zhao, Xiaoyang Chen, Dong Ding, Xuehai Zhang, Jihua Tang
Summary: Through comparative analysis of GWAS models, this study identified 140 quantitative trait nucleotides (QTNs) associated with maize chlorophyll content, involving 481 genes and explaining 0.29-10.28% of phenotypic variation. The GRMZM2G110408 (ZmCCS3) gene was identified by multiple models and in multiple environments, and its encoded protein likely contributes to chlorophyll biosynthesis. These findings are important for ideotype-based breeding of new maize varieties with high photosynthetic efficiency.
Article
Plant Sciences
Liqiang He, Huixian Wang, Yao Sui, Yuanyuan Miao, Cheng Jin, Jie Luo
Summary: In this study, GWAS was conducted using amino acid content and high-quality SNPs of rice accessions, and different methods were compared. The results showed that the use of the 3VmrMLM method could identify the most QTNs and stable QTLs, and candidate genes were found to be involved in important metabolic pathways. Additionally, this method could detect QTN-by-environment interactions for five FAA levels. These findings are important for molecular breeding of rice and understanding FAA accumulation.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Caroline Ariyoshi, Gustavo Cesar Sant'ana, Mariane Silva Felicio, Gustavo Hiroshi Sera, Livia Maria Nogueira, Lucas Mateus Rivero Rodrigues, Rafaelle Vecchia Ferreira, Bruna Silvestre Rodrigues da Silva, Mario Lucio Vilela de Resende, Suzete Aparecida Lanza Destefano, Douglas Silva Domingues, Luiz Filipe Protasio Pereira
Summary: Bacteria halo blight, caused by Pseudomonas syringae pv. garcae, is a significant disease in coffee plants, particularly in mountain regions and mild climate areas. This study focused on identifying genetic factors associated with resistance to this disease in Ethiopian accessions of Coffea arabica. The research utilized population structure analysis and genome-wide association study (GWAS) to identify quantitative trait nucleotides (QTNs) linked to resistance. The findings provide valuable insights into the genetic control of resistance to bacteria halo blight in Coffea arabica and contribute to the understanding of the domestication history of this species.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agronomy
Muhammad Ikram, Ruiqiang Lai, Yanshi Xia, Ronghua Li, Weicai Zhao, Kadambot H. M. Siddique, Jianjun Chen, Peiguo Guo
Summary: This study identified novel stable QTNs and candidate genes associated with plant height in tobacco through measuring plant height of 94 tobacco accessions and conducting a genome-wide association study. The findings provide important information for investigating the genetic basis and molecular breeding of tobacco.
Article
Plant Sciences
Jinfeng Zhang, Harsimardeep S. Gill, Jyotirmoy Halder, Navreet K. Brar, Shaukat Ali, Amy Bernardo, Paul St. Amand, Guihua Bai, Brent Turnipseed, Sunish K. Sehgal
Summary: This study evaluated the genetic basis of native Fusarium head blight (FHB) resistance in US hard winter wheat and identified multiple marker-trait associations (MTAs) for FHB resistance. Some of these MTAs have been reported in previous studies, while others may represent novel resistance loci. Candidate genes were also identified, highlighting the need for further investigation.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Genetics & Heredity
Jing Xiao, Yang Zhou, Shu He, Wen-Long Ren
Summary: The newly proposed method ScoreEB combines score test and Empirical Bayes, improving computational efficiency in multi-locus GWAS. Applied to quantitative trait analysis in plants and animals, ScoreEB can detect new genes and accurately control false positive rate.
FRONTIERS IN GENETICS
(2021)
Article
Plant Sciences
Jemanesh K. Haile, Demissew Sertse, Amidou N'Diaye, Valentyna Klymiuk, Krystalee Wiebe, Yuefeng Ruan, Harmeet S. Chawla, Maria-Antonia Henriquez, Lipu Wang, Hadley R. Kutcher, Barbara Steiner, Hermann Buerstmayr, Curtis J. Pozniak
Summary: Durum wheat is more susceptible to Fusarium head blight (FHB), which reduces yield and quality and contaminates the grain. A comprehensive assessment of the genetic basis of FHB resistance and DON accumulation in durum wheat was conducted, resulting in the identification of multiple quantitative trait loci (QTL) associated with FHB resistance and related traits.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Muluken Enyew, Tileye Feyissa, Anders S. Carlsson, Kassahun Tesfaye, Cecilia Hammenhag, Amare Seyoum, Mulatu Geleta
Summary: This study conducted a genome-wide association study (GWAS) using sorghum genetic resources in Ethiopia to identify genomic regions and candidate genes associated with major agronomic traits in sorghum. The study revealed the genetic variation in sorghum traits and identified several novel and previously known quantitative trait loci. The major findings of this study were the significant association of major effect SNP loci with traits such as panicle width, days to flowering, grain yield, and panicle length.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Genetics & Heredity
Wangsheng Li, Ming Lin, Jiajia Li, Dali Liu, Wenbo Tan, Xilong Yin, Yan Zhai, Yuanhang Zhou, Wang Xing
Summary: Sugar beets are an important crop for global sugar production. This study used 328 sugar beet germplasms to identify SNP markers and candidate genes associated with drought tolerance using GWAS. The results showed 11 significantly associated loci on chromosomes 2, 3, 5, 7, and 9, and identified 13 differentially expressed genes related to drought tolerance. These candidate genes play important roles in regulating sugar metabolism, maintaining internal environmental stability, and participating in photosystem repair. This study provides valuable information for understanding the molecular mechanisms of drought tolerance and improving sugar beet cultivation.
FRONTIERS IN GENETICS
(2023)
Article
Plant Sciences
Cuiping Zhang, Ruolin Gong, Hua Zhong, Chunyan Dai, Ru Zhang, Jungang Dong, Yangsheng Li, Shuai Liu, Jihong Hu
Summary: Rapeseed, an important source of vegetable oil and biofuel, has low yield compared to other major crops. This study identified 908 quantitative trait nucleotides related to rapeseed yield through genome-wide sequencing. Further validation of 79 candidate genes, including 12 genes affecting seed weight and seed per pod, was conducted.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
A. S. Eslami, N. Safaie, S. B. Mahmoudi, Sh. Mojerlou
Summary: The study compared different statistical models for predicting sugar beet yield loss and found that simple linear regression models performed best in certain regions and cultivars, while artificial neural network models were more accurate in prediction.
EUROPEAN JOURNAL OF AGRONOMY
(2021)
Review
Agronomy
Dinesh K. Saini, Yuvraj Chopra, Jagmohan Singh, Karansher S. Sandhu, Anand Kumar, Sumandeep Bazzer, Puja Srivastava
Summary: This review provides a comprehensive overview of the importance of GWAS in wheat, including population design, high-throughput genotyping and phenotyping platforms, statistical models, and the utilization of MTAs in breeding programs. Future breakthroughs in genomic selection, multi-omics-based approaches, and machine and deep learning models in wheat breeding are also discussed.
MOLECULAR BREEDING
(2022)
Article
Agronomy
Tobias Wuerschum, Willmar L. Leiser, Felix Jaehne, Kristina Bachteler, Martin Miersch, Volker Hahn
THEORETICAL AND APPLIED GENETICS
(2019)
Article
Agronomy
Ana L. Galiano-Carneiro, Philipp H. G. Boeven, Hans Peter Maurer, Tobias Wuerschum, Thomas Miedaner
Article
Agronomy
Catherine Pauline Herter, Erhard Ebmeyer, Sonja Kollers, Viktor Korzun, Tobias Wuerschum, Thomas Miedaner
THEORETICAL AND APPLIED GENETICS
(2019)
Article
Agronomy
Patrick Thorwarth, Guozheng Liu, Erhard Ebmeyer, Johannes Schacht, Ralf Schachschneider, Ebrahim Kazman, Jochen Christoph Reif, Tobias Wuerschum, Carl Friedrich Horst Longin
THEORETICAL AND APPLIED GENETICS
(2019)
Article
Agronomy
Wessam Akel, Matthias Rapp, Patrick Thorwarth, Tobias Wuerschum, C. Friedrich H. Longin
THEORETICAL AND APPLIED GENETICS
(2019)
Article
Agronomy
Thomas Miedaner, Matthias Rapp, Kerstin Flath, C. Friedrich H. Longin, Tobias Wuerschum
Article
Agronomy
M. Rapp, A. Sieber, Ebrahim Kazman, Willmar L. Leiser, T. Wuerschum, C. F. H. Longin
THEORETICAL AND APPLIED GENETICS
(2019)
Article
Genetics & Heredity
Tobias Wuerschum, Matthias Rapp, Thomas Miedaner, C. Friedrich H. Longin, Willmar L. Leiser
Article
Agronomy
Felix Jaehne, Christiane Balko, Volker Hahn, Tobias Wuerschum, Willmar L. Leiser
Article
Agronomy
Thomas Miedaner, Wessam Akel, Kerstin Flath, Andreas Jacobi, Mike Taylor, Friedrich Longin, Tobias Wuerschum
THEORETICAL AND APPLIED GENETICS
(2020)
Article
Plant Sciences
Laura G. Wilkinson, Xiujuan Yang, Rachel A. Burton, Tobias Wuerschum, Matthew R. Tucker
FRONTIERS IN PLANT SCIENCE
(2019)
Article
Plant Sciences
Tobias Wuerschum, Willmar L. Leiser, Simon M. Langer, Matthew R. Tucker, Thomas Miedaner
Article
Biochemistry & Molecular Biology
Dongdong Li, Haoying Wang, Meng Wang, Guoliang Li, Zhe Chen, Willmar L. Leiser, Thea Mi Weiss, Xiaohuan Lu, Ming Wang, Shaojiang Chen, Fanjun Chen, Lixing Yuan, Tobias Wuerschum, Wenxin Liu
Summary: The study analyzed the biomass, grain yield, and phosphorus use efficiency (PUE)-related traits of 359 maize inbred lines grown under low-P and normal-P conditions. It identified candidate genes for various traits under different phosphorus conditions and characterized key genes related to phosphate transporters or stress responses. The research provides insights into the genetic dissection and molecular characterization of PUE in maize, highlighting the importance of selecting genotypes with high phosphorus use efficiency.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Agronomy
Leon Hinrich Oehme, Alice-Jacqueline Reineke, Thea Mi Weiss, Tobias Wuerschum, Xiongkui He, Joachim Mueller
Summary: This study utilized digital surface models created from RGB-images captured by a UAV to estimate the plant height of 400 maize genotypes. The results showed that the UAV-based estimation was most accurate between 39 to 68 days after sowing.
Article
Biochemistry & Molecular Biology
Dongdong Li, Guoliang Li, Haoying Wang, Yuhang Guo, Meng Wang, Xiaohuan Lu, Zhiheng Luo, Xintian Zhu, Thea Mi Weiss, Sandra Roller, Shaojiang Chen, Lixing Yuan, Tobias Wuerschum, Wenxin Liu
Summary: Genotype-by-environment interaction (G-by-E) is a common and potentially problematic phenomenon in plant breeding. This study investigated the genotypic performance and plasticity of maize lines under different environments, focusing on soil phosphorus levels. The study identified several QTL associated with genotype performance and plasticity, as well as genes related to phosphorus use efficiency. The study also observed the superiority of G-by-E in genomic selection.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)