Article
Biochemistry & Molecular Biology
Xuelei Dai, Peipei Bian, Dexiang Hu, Funong Luo, Yongzhen Huang, Shaohua Jiao, Xihong Wang, Mian Gong, Ran Li, Yudong Cai, Jiayue Wen, Qimeng Yang, Weidong Deng, Hojjat Asadollahpour Nanaei, Yu Wang, Fei Wang, Zijing Zhang, Benjamin D. Rosen, Rasmus Heller, Yu Jiang
Summary: This study reveals the high genetic diversity and the influence of interspecies introgression on the genomic architecture of Chinese indicine cattle.
Article
Biotechnology & Applied Microbiology
Chao Guo, Xianglei Zhang, Yuanxin Li, Jiahui Xie, Pingping Gao, Pengfei Hao, Lingshu Han, Jinyuan Zhang, Wenpei Wang, Peng Liu, Jun Ding, Yaqing Chang
Summary: In this study, population genetic structure and GWAS analysis were conducted on Chinese and Russian A. japonicus, revealing three candidate genes related to the number of parapodium. The results provide an in-depth understanding of the genetic structure differences between A. japonicus populations in China and Russia, and offer important information for subsequent genetic analysis and breeding of this species.
Article
Genetics & Heredity
Heng Du, Xianrui Zheng, Qiqi Zhao, Zhengzheng Hu, Haifei Wang, Lei Zhou, Jian-Feng Liu
Summary: Structural variants play important roles in genetic variation and phenotypic traits in pigs. This study constructed an SV map of porcine using whole-genome sequencing data, identifying multiple candidate variants and novel selection regions in the genome of Meishan pig. The study provides insights into the evolution of SVs under selection pressure and their contribution to phenotypic variation in pigs.
FRONTIERS IN GENETICS
(2021)
Article
Biotechnology & Applied Microbiology
Jiazhong Guo, Rui Jiang, Ayi Mao, George E. Liu, Siyuan Zhan, Li Li, Tao Zhong, Linjie Wang, Jiaxue Cao, Yu Chen, Guojun Zhang, Hongping Zhang
Summary: The study identified two major genetic loci on chromosome 1 affecting the polled phenotype in goats. A diagnostic PCR method was also provided for accurately classifying horned, polled, and PIS-affected goats.
Article
Plant Sciences
Peirong Li, Tongbing Su, Deshuang Zhang, Weihong Wang, Xiaoyun Xin, Yangjun Yu, Xiuyun Zhao, Shuancang Yu, Fenglan Zhang
Summary: The study characterized heterosis in Chinese cabbage F-1 hybrid and its parental lines, showing marked heterosis in leaf weight and biomass yield. Analysis of small RNA sequencing revealed differentially expressed microRNAs at different growth stages, with majority of miRNA clusters in F-1 hybrid showing lower expression levels compared to mid-parent values. Furthermore, transcriptome analysis demonstrated differential expression of genes related to photosynthesis and chlorophyll synthesis in the F-1 hybrid, resulting in increased photosynthesis capacity and chlorophyll content. These findings provide new insights into the regulation of target genes and miRNA expression patterns in leaf size and heterosis for biomass of B. rapa.
HORTICULTURE RESEARCH
(2021)
Article
Multidisciplinary Sciences
Zhikun Wu, Zehang Jiang, Tong Li, Chuanbo Xie, Liansheng Zhao, Jiaqi Yang, Shuai Ouyang, Yizhi Liu, Tao Li, Zhi Xie
Summary: This study conducted long-read sequencing-based structural variant analysis on 405 unrelated Chinese individuals, identifying 132,312 nonredundant structural variants, of which 45.2% are novel. The study also discovered rare deletions associated with anemia and structural variants related to immunity that differentiate the northern and southern Chinese populations.
NATURE COMMUNICATIONS
(2021)
Article
Genetics & Heredity
Kejun Wang, Lige Zhang, Dongdong Duan, Ruimin Qiao, Xiuling Li, Xinjian Li, Xuelei Han
Summary: The introduction of genetic traits from European pigs into Chinese indigenous pigs, especially in Henan indigenous pigs, has potentially improved pig body size and feed conversion efficiency. This suggests that human-mediated introgression and selection have reshaped the genome of Henan pigs and enhanced their desired traits.
FRONTIERS IN GENETICS
(2021)
Article
Agriculture, Multidisciplinary
Kai WANG, Ping-xian WU, Shu-jie WANG, Xiang JI, Dong CHEN, An-an JIANG, Wei-Hang XIAO, Yan-zhi JIANG, Li ZHU, Yang-shuang ZENG, Xu XU, Xiao-tian QIU, Ming-zhou LI, Xue-wei LI, Guo-qing TANG
Summary: This study compared the meat quality traits of Chenghua (CH) pig and Qingyu (QY) pig and found significant differences in pH and lightness. It also conducted a DNA methylation analysis and identified differentially methylated genes associated with fat metabolism, muscle development, and meat quality traits.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2022)
Article
Plant Sciences
Jianqin Xu, Weiya Xu, Xulei Chen, Huaqing Zhu, Xiuyi Fu, Futong Yu
Summary: This study identified candidate genes associated with iron-deficiency tolerance in maize using high- and low-iron utilization maize inbred lines and found that some genes were significantly regulated under low iron stress. These findings are important for understanding the molecular mechanisms underlying iron-deficiency tolerance in maize.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Ivo F. A. C. Fokkema, Mark Kroon, Julia A. Lopez Hernandez, Daan Asscheman, Ivar Lugtenburg, Jerry Hoogenboom, Johan T. den Dunnen
Summary: Gene variant databases, such as LOVD3, are crucial for DNA-based diagnostics and can store vast amounts of variant data. The software is highly flexible and can be personalized to meet the diverse needs of gene/disease database curators, while also adhering to current standards.
EUROPEAN JOURNAL OF HUMAN GENETICS
(2021)
Article
Clinical Neurology
Kimberley J. Billingsley, Jinhui Ding, Pilar Alvarez Jerez, Anastasia Illarionova, Kristin Levine, Francis P. Grenn, Mary B. Makarious, Anni Moore, Daniel Vitale, Xylena Reed, Dena Hernandez, Ali Torkamani, Mina Ryten, John Hardy, Ruth W. Chia, Sonja J. Scholz, Bryan L. Traynor, Clifton J. Dalgard, Debra Ehrlich, Toshiko Tanaka, Luigi G. Ferrucci, Thomas E. Beach, Geidy P. Serrano, John J. Quinn, Vivien Bubb, Ryan L. Collins, Xuefang Zhao, Mark Walker, Emma Pierce-Hoffman, Harrison E. Brand, Michael Talkowski, Bradford Casey, Mark R. Cookson, Androo A. Markham, Mike Nalls, Medhat Mahmoud, Fritz J. Sedlazeck, Cornelis Blauwendraat, J. Raphael B. Gibbs, Andrew Singleton
Summary: By studying the genetic factors of Parkinson's disease, three structural variants associated with the risk of the disease have been discovered. This is the most comprehensive study to date of the contribution of structural variants to the genetic risk of Parkinson's disease.
ANNALS OF NEUROLOGY
(2023)
Article
Veterinary Sciences
Zhu Caiye, Shuzhen Song, Minna Li, Xaioyu Huang, Yan Luo, Suli Fang
Summary: The study aimed to analyze genome-wide DNA differential methylation in Lanzhou Large-tailed sheep, Altay sheep and Tibetan sheep, which have different tail types, and identify the differentially methylated genes (DMGs) affecting tail type. Whole genome bisulfite sequencing (WGBS) was used to detect three individuals from each breed, and the degree of methylation, differentially methylated regions (DMRs) and DMGs were analyzed. Functional analysis revealed several genes involved in fat metabolism, such as NFATC4, LPIN2, MGAT2 and MAT2B. These findings provide new insights into the epigenetic regulation mechanisms of fat deposition in sheep tails and contribute to the study of local sheep.
FRONTIERS IN VETERINARY SCIENCE
(2023)
Article
Clinical Neurology
Longfei Jia, Fangyu Li, Cuibai Wei, Min Zhu, Qiumin Qu, Wei Qin, Yi Tang, Luxi Shen, Yanjiang Wang, Lu Shen, Honglei Li, Dantao Peng, Lan Tan, Benyan Luo, Qihao Guo, Muni Tang, Yifeng Du, Jiewen Zhang, Junjian Zhang, Jihui Lyu, Ying Li, Aihong Zhou, Fen Wang, Changbiao Chu, Haiqing Song, Liyong Wu, Xiumei Zuo, Yue Han, Junhua Liang, Qi Wang, Hongmei Jin, Wei Wang, Yang Lu, Fang Li, Yuying Zhou, Wei Zhang, Zhengluan Liao, Qiongqiong Qiu, Yan Li, Chaojun Kong, Haishan Jiao, Jie Lu, Jianping Jia
Summary: This study validated predictive models based on genome-wide association studies for assessing the risk of Alzheimer's disease onset in a large Chinese population. These models effectively predicted Alzheimer's disease onset in individuals carrying risk variants, confirming the contribution of these identified variants to disease pathogenesis.
Article
Microbiology
Kanti Kiran, Hukam C. Rawal, Himanshu Dubey, Rajdeep Jaswal, Subhash C. Bhardwaj, Rupesh Deshmukh, Tilak Raj Sharma
Summary: The study involved whole-genome sequencing of four diverse pathotypes of P. graminis, revealing genetic variation and evolution, particularly highlighting pathotype 117-6 as potentially highly diverse in nature. This genomic information could be valuable for comparative genomic studies and better rust management in wheat.
Article
Biotechnology & Applied Microbiology
Harmeet Singh Chawla, HueyTyng Lee, Iulian Gabur, Paul Vollrath, Suriya Tamilselvan-Nattar-Amutha, Christian Obermeier, Sarah V. Schiessl, Jia-Ming Song, Kede Liu, Liang Guo, Isobel A. P. Parkin, Rod J. Snowdon
Summary: Genome structural variation plays a crucial role in trait variation in plants and has a significant impact on evolutionary and adaptation-related traits. Long-read sequencing technologies can reveal widespread small- to mid-scale SV in plants and uncover unexpected levels of functional gene variation, with major implications for trait regulation and crop improvement.
PLANT BIOTECHNOLOGY JOURNAL
(2021)
Article
Fisheries
Xiaoxing Guan, Jing Wang, Li Ma, Xifeng Wang, Xueigian Cheng, Haitang Han, Yaofeng Zhao, Liming Ren
DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY
(2016)
Article
Immunology
Li Ma, Tong Qin, Dan Chu, Xueqian Cheng, Jing Wang, Xifeng Wang, Peng Wang, Haitang Han, Liming Ren, Robert Aitken, Lennart Hammarstrom, Ning Li, Yaofeng Zhao
JOURNAL OF IMMUNOLOGY
(2016)
Article
Multidisciplinary Sciences
Wei Zhang, Liang Zhong, Jing Wang, Jianyong Han
Article
Multidisciplinary Sciences
Jing Wang, Huiying Zou, Lei Chen, Xi Long, Jing Lan, Wenjie Liu, Li Ma, Chao Wang, Xinyu Xu, Liming Ren, Zhenglong Gu, Ning Li, Xiaoxiang Hu, Yaofeng Zhao, Yiqiang Zhao
SCIENTIFIC REPORTS
(2017)
Article
Multidisciplinary Sciences
Dawei Yu, Jing Wang, Huiying Zou, Tao Feng, Lei Chen, Jia Li, Xiaolan Qi, Zhifang Li, Xiaoyue Duan, Chunlong Xu, Liang Zhang, Xi Long, Jing Lan, Chao Chen, Chao Wang, Xinyu Xu, Jilong Ren, Yiqiang Zhao, Xiaoxiang Hu, Zhengxing Lian, Hongsheng Men, Dengke Pan, Ning Li, Mario R. Capecchi, Xuguang Du, Yaofeng Zhao, Sen Wu
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Biochemistry & Molecular Biology
Huiying Zou, Dawei Yu, Xuguang Du, Jing Wang, Lei Chen, Yangyang Wang, Huitao Xu, Yunxuan Zhao, Shanjiang Zhao, Yunwei Pang, Yan Liu, Haisheng Hao, Xueming Zhao, Weihua Du, Yunping Dai, Ning Li, Sen Wu, Huabin Zhu
CELLULAR AND MOLECULAR LIFE SCIENCES
(2019)
Article
Genetics & Heredity
Jing An, Jinxiu Li, Ying Wang, Jing Wang, Qinghe Li, Huaijun Zhou, Xiaoxiang Hu, Yiqiang Zhao, Ning Li
Article
Cell & Tissue Engineering
Peng Deng, Quan Yuan, Yingduan Cheng, Jiong Li, Zhenqing Liu, Yan Liu, Ye Li, Trent Su, Jing Wang, Mari Ekimyan Salvo, Weiguang Wang, Guoping Fan, Karen Lyons, Bo Yu, Cun-Yu Wang
Summary: The loss of KDM4B in mesenchymal stromal cells (MSCs) has been found to exacerbate skeletal aging and osteoporosis by reducing bone formation and increasing marrow adiposity. KDM4B plays a crucial role in coordinating beta-catenin/Smad1-mediated transcription by removing repressive H3K9me3, affecting MSC self-renewal and exhaustion. Activation of KDM4B in MSCs might be a new strategy for preventing and treating skeletal aging and osteoporosis by reversing bone-fat imbalance.
Article
Biochemistry & Molecular Biology
Li Ma, Jing Wang, Jianlong Ge, Yuan Wang, Wei Zhang, Yuanning Du, Jun Luo, Yangping Li, Feng Wang, Guoping Fan, Rong Chen, Bing Yao, Zhen Zhao, Ming-Lei Guo, Woong-Ki Kim, Yang Chai, Jian-Fu Chen
Summary: This study demonstrates that ZIKV infection during pregnancy in mice leads to offspring displaying autistic-like behaviors, with abnormalities in neural circuits resulting in social memory deficits. The research highlights the importance of the vHIP-mPFC pathway in driving these behavioral abnormalities.
Article
Engineering, Biomedical
Zheng Zhong, Jing Wang, Jing Tian, Xiaoqian Deng, Alis Balayan, Yazhi Sun, Yi Xiang, Jiaao Guan, Jacob Schimelman, Henry Hwang, Shangting You, Xiaokang Wu, Chao Ma, Xiaoao Shi, Emmie Yao, Sophie X. Deng, Shaochen Chen
Summary: In this study, a 3D multicellular in vitro pterygium model was developed using a digital light processing (DLP)-based 3D bioprinting platform. The model consisted of human conjunctival stem cells (hCjSCs), immune cells, and vascular cells, and showed distinct gene expression patterns related to inflammation, angiogenesis, and epithelial mesenchymal transition. The model was validated with patient-derived pterygium tissues, demonstrating its potential for personalized medicine and drug screening.
Article
Cell Biology
Junliang Li, Dawei Yu, Jing Wang, Chongyang Li, Qingwei Wang, Weihua Du, Shanjiang Zhao, Yunwei Pang, Haisheng Hao, Xueming Zhao, Huabin Zhu, Shijie Li, Huiying Zou
Summary: This study investigates the imprinting status and methylation regulation of the DLK1-DIO3 region in wild-type and cloned neonatal pigs. The results reveal the abnormal imprinting and hypermethylation in the DLK1-DIO3 region in cloned pigs, providing a theoretical basis for improving cloning efficiency by gene editing to correct abnormal imprinting.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Li Ma, Chen Liang, Jing Wang, Qing Chang, Yuan Wang, Wei Zhang, Yuanning Du, Jotham Sadan, Jian-Fu Chen
Summary: G4C2 repeat expansion in C9orf72 gene causes the most common familial frontotemporal dementia and amyotrophic lateral sclerosis (C9FTD/ALS). Dysregulation of the lysosome-ribosome biogenesis circuit is identified as an early and key disease mechanism, and C9orf72 deficiency exacerbates related pathology and behavior. C9orf72 depletion disrupts lysosomes in neurons and leads to transcriptional dysregulation of ribosomal protein genes.
HUMAN MOLECULAR GENETICS
(2023)
Article
Cell Biology
Xiaoqian Deng, Ryan Lee, Sin Yee Lim, Zheng Zhong, Jing Wang, Yizhi Liu, Guoping Fan
Summary: In this study, human fetal retinal pigment epithelial (RPE) cells were successfully reprogrammed into photoreceptor-like cells through the use of small molecules, providing a potential cell source for cell replacement therapy in retinal degenerative diseases. The suppression of epithelial-to-mesenchymal transition and activation of glutamate receptors were found to be important mechanisms in the conversion process.
Article
Medicine, Research & Experimental
Xili Ding, Qin An, Weikang Zhao, Yang Song, Xiaokai Tang, Jing Wang, Chih-Chiang Chang, Gexin Zhao, Tzung Hsiai, Guoping Fan, Yubo Fan, Song Li
Summary: This study provides insights at the single-cell level on the distinct patterns of endothelial cells and smooth muscle cells (SMCs) responses to vascular injury. Less than 30% of SMCs responded to the injury, forming proinflammatory SMCs and stress-responsive SMCs clusters. Proinflammatory SMCs were enriched with inflammatory markers while stress-responsive SMCs overexpressed heat shock proteins. The interaction between macrophages and proinflammatory SMCs was found to be the major cell-cell communication among all cell types in the injured arteries.