Article
Biochemistry & Molecular Biology
Maizura Ithnin, Wendy T. Vu, Min-Gyoung Shin, Vasantika Suryawanshi, Katrina Sherbina, Siti Hazirah Zolkafli, Norhalida Mohamed Serdari, Mohd Din Amiruddin, Norziha Abdullah, Suzana Mustaffa, Marhalil Marjuni, Rajanaidu Nookiah, Ahmad Kushairi, Paul Marjoram, Sergey Nuzhdin, Peter L. Chang, Rajinder Singh
Summary: The study reveals genetic similarity between wild American oil palm populations and some cultivated African oil palm populations, potentially originating from the Amazon Basin. Despite genetic bottleneck and inbreeding, there is significant genetic and phenotypic variation for agronomically valuable traits.
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
Biochemical Research Methods
Ying Zhang, Yuxin Song, Jin Gao, Hengyu Zhang, Ning Yang, Runqing Yang
Summary: The study extended the Hi-RRM model into a genome-wide association analysis for longitudinal data, reducing the dimensionality of repeated measurements significantly. The method improved computing efficiency through model transformation and demonstrated its statistical utility through simulation experiments.
BRIEFINGS IN BIOINFORMATICS
(2021)
Article
Genetics & Heredity
Tsz Fung Chan, Xinyue Rui, David V. Conti, Myriam Fornage, Mariaelisa Graff, Jeffrey Haessler, Christopher Haiman, Heather M. Highland, Su Yon Jung, Eimear E. Kenny, Charles Kooperberg, Loic Le Marchand, Kari E. North, Ran Tao, Genevieve Wojcik, Christopher R. Gignoux, Charleston W. K. Chiang, Nicholas Mancuso
Summary: This article introduces a method called HAMSTA for estimating heritability, which uses summary statistics from admixture mapping to infer the heritability explained by local ancestry while adjusting for biases due to ancestral stratification. Through simulations, it is demonstrated that HAMSTA provides unbiased estimates and is robust to ancestral stratification compared to existing approaches. This method offers a fast and powerful estimation of genome-wide heritability and evaluates biases in test statistics of admixture mapping studies.
AMERICAN JOURNAL OF HUMAN GENETICS
(2023)
Article
Fisheries
D. S. Liyanage, Sukkyoung Lee, Hyerim Yang, Chaehyeon Lim, W. K. M. Omeka, W. M. Gayashani Sandamalika, H. M. V. Udayantha, Gaeun Kim, Subothini Ganeshalingam, Taehyug Jeong, Seong-Rip Oh, Seung-Hwan Won, Hyoung-Bum Koh, Mun-Kwan Kim, David B. Jones, Cecile Massault, Dean R. Jerry, Jehee Lee
Summary: Selective breeding plays a vital role in the development of disease-resistant traits and high growth rates in flounder aquaculture. This study used a genome-wide association study (GWAS) to analyze viral hemorrhagic septicemia virus (VHSV) resistance in olive flounder. Significant single nucleotide polymorphisms (SNPs) and associated genes were identified, providing valuable information for breeding applications.
FISH & SHELLFISH IMMUNOLOGY
(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
Agriculture, Dairy & Animal Science
Yilong Zhao, Sangang He, Jinfeng Huang, Mingjun Liu
Summary: pH is one of the main factors affecting meat storage/shelf life and overall quality. Through a genome-wide association analysis, candidate genes related to pH were identified, providing new opportunities for genetic improvement and extending the shelf life of meat.
Article
Plant Sciences
Aixia Yang, Xiaolei Ding, Yuan Feng, Ruiwen Zhao, Jianren Ye
Summary: This study compared the reproductivity and genetic variations of different strains of B. xylophilus in Liaoning Province and other parts of China. It found that the Liaoning isolates have higher reproductive ability at low temperatures and showed significant genetic differentiation from other isolates. Genome-wide association analysis identified SNPs closely related to low-temperature tolerance in genes responsible for environmental adaptation. These findings contribute to a better understanding of the prevalence and diffusion status of B. xylophilus in China.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Pharmacology & Pharmacy
Yunqing Ren, Ling Wang, Huatuo Dai, Guiying Qiu, Jipeng Liu, Dianhe Yu, Jianjun Liu, Cheng-Zhi Lyu, Lunfei Liu, Min Zheng
Summary: By conducting a genome-wide association study, we identified seven genetic biomarkers that are associated with the response to TNF-alpha inhibitors in Chinese psoriasis patients. These findings contribute to our understanding of the variability in treatment response and may serve as potential markers for personalized therapy.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Zhe Zheng, Ruijuan Hao, Chuangye Yang, Yu Jiao, Qingheng Wang, Ronglian Huang, Yongshan Liao, Jianbo Jian, Yao Ming, Lixin Yin, Weiming He, Ziman Wang, Chuyi Li, Qi He, Kun Chen, Yuewen Deng, Xiaodong Du
Summary: Biomineralization-controlled growth of exo-/endoskeleton contributes to body growth and size diversity. This study used pearl oysters to investigate the genetic regulation of biomineralization-controlled growth and ectopic biomineralization. The insulin-like growth factor (IGF) endocrine signal and ancient single-copy transcription factors formed the regulatory network. Cross-phylum regulation of key long noncoding RNA (lncRNA) in bivalves and mammals suggests conserved genetic and epigenetic regulation. Thyroid hormone signal and apoptosis regulation affected ectopic biomineralization in pearl oysters.
MOLECULAR ECOLOGY RESOURCES
(2023)
Article
Biochemistry & Molecular Biology
Hao Ding, Guangzhen Zhou, Long Zhao, Xinyu Li, Yicheng Wang, Chengcai Xia, Zhiqiang Xia, Yinglang Wan
Summary: By studying the fruit shape of 137 areca germplasms, 45,094 high-quality SNPs were identified, and 86 candidate genes associated with areca fruit shape were found. Among them, the UGT85A2 gene was significantly upregulated in columnar fruits, providing genetic data for areca breeding and new insights into the formation mechanisms of fruit shape.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Kyu-Won Kim, Bhagwat Nawade, Jungrye Nam, Sang-Ho Chu, Jungmin Ha, Yong-Jin Park
Summary: This study presents an integrated SNP array system for rice breeding research, which combines SNPs from eight different data resources. The developed 580 K Axiom Rice Genotyping Chip demonstrates robust and highly efficient genotyping in various studies, including GWAS and GS. This cost-effective genotyping platform will accelerate rice breeding research.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Anesthesiology
Sirkku Ahlstrom, Paula Bergman, Ritva Jokela, Linda Ottensmann, Ari Ahola-Olli, Matti Pirinen, Klaus T. Olkkola, Mari A. Kaunisto, Eija Kalso
Summary: Genetic variation in the SLCO1A2 gene, accounting for 4% of the variation in rocuronium consumption, was identified as a factor influencing rocuronium dosage. However, the underlying mechanism remains unknown.
BRITISH JOURNAL OF ANAESTHESIA
(2021)
Article
Plant Sciences
Ehsan Rabieyan, Mohammad Reza Bihamta, Mohsen Esmaeilzadeh Moghaddam, Hadi Alipour, Valiollah Mohammadi, Kobra Azizyan, Saeideh Javid
Summary: This study conducted a genome-wide association study on 298 Iranian bread wheat landraces and cultivars, identifying drought-tolerant genotypes, which can contribute to tackling the challenges of diminishing water resources and growing population.
Article
Plant Sciences
Rui Wang, Zhenzhen Zhou, Mengyuan Xiong, Mingyu Du, Xingxing Lin, Cuiping Liu, Mingwei Lu, Zhengbo Liu, Yinping Chang, Erbao Liu
Summary: Eight QTLs related to salt tolerance traits were detected, and three candidate genes were predicted, providing a reference for breeding salt-tolerant rice varieties.