Article
Biochemistry & Molecular Biology
Yong Chen, Wanling Yang, Rifang Gao, Yaling Chen, Yi Zhou, Jiankun Xie, Fantao Zhang
Summary: Rice is a staple food for over half of the world's population and its production is crucial for global food security. However, rice yield decreases under abiotic stresses such as salinity. This study conducted miRNA sequencing to identify miRNAs and their target genes under salt stress, aiming to understand the roles of miRNAs in salt stress tolerance in rice.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Dentistry, Oral Surgery & Medicine
Padacherri Vethil Jishnu, Sangeetha U. Shenoy, Mohit Sharma, Aditi Chopra, Raghu Radhakrishnan
Summary: This study aims to understand the role of experimentally validated microRNAs (miRNAs) in the acquisition of oncogenic phenotype in oral submucous fibrosis (OSF) through computational analysis. The study identifies 13 deregulated miRNAs in OSF and shows that 371 experimentally validated genes interact with OSF-associated miRNAs. The findings highlight the physiological importance of miRNAs in fibrosis.
Article
Biochemistry & Molecular Biology
Huan Zheng, Yueting Liang, Ben Hong, Yingyi Xu, Mengfan Ren, Yixu Wang, Liyuan Huang, Lina Yang, Jianmin Tao
Summary: This study identified 24 grapevine KCS (VvKCS) genes and provided new names based on their relative chromosome distribution. Based on sequence alignment and phylogenetic investigation, these genes were grouped into seven subgroups, members of the same subgroup having similar motif structures. The analysis revealed that some VvKCS genes showed significant differential expression at the critical stage of pollen wall formation, potentially affecting structural integrity.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Genetics & Heredity
Jeremy Schwartzentruber, Sarah Cooper, Jimmy Z. Liu, Inigo Barrio-Hernandez, Erica Bello, Natsuhiko Kumasaka, Adam M. H. Young, Robin J. M. Franklin, Toby Johnson, Karol Estrada, Daniel J. Gaffney, Pedro Beltrao, Andrew Bassett
Summary: A genome-wide AD meta-analysis identified 37 risk loci, including new associations near CCDC6, TSPAN14, NCK2, and SPRED2. By fine-mapping SNPs and using functional annotation, 21 SNPs with >50% probability of being causally involved in AD risk were identified. Protein interaction networks and tissue-specific expression helped prioritize genes, leading to the discovery of likely causal genes.
Article
Biochemistry & Molecular Biology
You-Mei Li, Meng-Hao Sun, Xuan-Si Tang, Chao-Ping Wang, Zhao-Sen Xie
Summary: The order of leaf senescence in different parts of grapevine is related to the changes in chlorophyll content, and is associated with the expression of certain genes involved in chlorophyll breakdown and ABA signaling.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Babak Pourgholamali, Behnoush Sohrabi, Mandana Salbi, Sanaz Akbari, Iman Rastan, Masoud Sayaf, Abduladheem Turki Jalil, Mustafa M. Kadhim, Roghayeh Sheervalilou, Nazanin Mehrzad
Summary: Breast cancer is a leading cause of death among women and has both genetic and environmental factors. Analysis of miRNA expression profiles and target gene prediction identified miR-29c and miR-361 as potential prognostic biomarkers for breast cancer.
APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY
(2023)
Article
Plant Sciences
Meng Xia, Lichan Tu, Yuan Liu, Zhouqian Jiang, Xiaoyi Wu, Wei Gao, Luqi Huang
Summary: This study conducted a genome-wide analysis of the Tripterygium wilfordii MYB (TwMYB) gene family involved in terpenoid biosynthesis. Through collinearity analysis, it was found that these genes may have played a key role in evolution. Additionally, expression pattern analysis revealed differential expression of TwMYB genes in various tissues. Six candidate TwMYB genes were speculated to be involved in regulating terpenoid biosynthesis through MeJA induction and phylogenetic tree analysis.
Article
Plant Sciences
Xing Huo, Jian Wang, Luo Chen, Hua Fu, Tifeng Yang, Jingfang Dong, Yamei Ma, Lian Zhou, Jiansong Chen, Dilin Liu, Bin Liu, Junliang Zhao, Shaohong Zhang, Wu Yang
Summary: Grain chalkiness is a crucial factor influencing the market value of rice. This study identified 34 QTLs associated with grain chalkiness in 450 rice accessions through a genome-wide association analysis. Four candidate genes were identified as potential targets for molecular breeding to improve rice quality. These findings contribute to a better understanding of the genetic basis of grain chalkiness and provide gene resources for quality improvement in rice through molecular breeding.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biochemistry & Molecular Biology
Xinyu Liu, Ran Yan, Haosheng Liu, Shuai Zhang, Ruixue Wang, Bowen Zhang, Lin Sun
Summary: This study analyzed transcriptome sequencing data of metafemale Drosophila to explore the regulatory mechanism of gene expression in aneuploidy. It found that genes on the X chromosome undergo dosage compensation, while genes on autosomal chromosomes show inverse dosage effects. Additionally, lncRNAs were identified as key regulators of gene expression and were found to be more sensitive to dosage changes than mRNAs. The study deepens our understanding of the role of lncRNAs in the regulation of genomic imbalances.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Correction
Genetics & Heredity
Jeremy Schwartzentruber, Sarah Cooper, Jimmy Z. Liu, Inigo Barrio-Hernandez, Erica Bello, Natsuhiko Kumasaka, Adam M. H. Young, Robin J. M. Franklin, Toby Johnson, Karol Estrada, Daniel J. Gaffney, Pedro Beltrao, Andrew Bassett
Summary: A correction to this paper has been published, and more information can be found at the provided link.
Article
Plant Sciences
Gaopeng Yuan, Dexi Sun, Yifan Wang, Guolin An, Weihua Li, Wenjing Si, Junpu Liu, Yingchun Zhu
Summary: This study comprehensively analyzed the NLP gene family in watermelon and found that ClNLP1 may play a crucial role in regulating the response of watermelon to nitrate nitrogen.
HORTICULTURAL PLANT JOURNAL
(2022)
Article
Biology
Nikhil Kumar Singh, Sabina Moser Tralamazza, Leen Nanchira Abraham, Gaetan Glauser, Daniel Croll
Summary: In this study, the metabolite production of a large population of the fungal pathogen of wheat, Zymoseptoria tritici, was analyzed. Significant variation in metabolite abundance among different isolates was found. By integrating whole-genome sequencing data, metabolite genome-wide association mapping was performed to identify loci underlying variation in metabolite production. The study provides a significant resource for unraveling the genetic basis of metabolome diversity within a species.
Article
Biochemical Research Methods
Na Wang, Yukun Li, Sijing Liu, Liu Gao, Chang Liu, Xiaoxue Bao, Peng Xue
Summary: This study identified 5 differentially expressed miRNAs in BMSCs, with miRNA-novel-272-mature showing decreased expression during osteogenic differentiation and further reduction after GLP-1RA treatment. This miRNA may interact with target genes to enhance osteogenesis in BMSCs, including SOX5 and GPR84.
CURRENT BIOINFORMATICS
(2021)
Article
Plant Sciences
Yuhan Liu, Yuhui Chen, Hengke Jiang, Zhaowei Shui, Yujun Zhong, Jing Shang, Hui Yang, Xin Sun, Junbo Du
Summary: In this study, 27 RALFs were identified and characterized in the soybean genome, with analyses conducted on their gene structures, conserved motifs, and other features. The study also found associations between these RALFs and soybean's disease resistance and growth development.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Horticulture
Kun Ning, Wangxiang Zhang, Donglin Zhang, Yousry A. El-Kassaby, Ting Zhou
Summary: This study identified 341 MIKCC-type genes among 13 species in the Malus lineage based on the conserved domains of the MADS-box gene family. Phylogenetic analysis revealed three different groups of genes, including an ancestral MIKCC-type gene cluster from lower moss to higher flowering plants. Comparative analysis with Arabidopsis thaliana demonstrated a similar evolutionary relationship. This study provides insights into the evolutionary history and expansion mechanism of the MIKCC-type MADS-box gene family in plants and its implications for flower development in the Malus lineage.
Article
Genetics & Heredity
Fanggui Zhao, Chen Wang, Jian Han, Xudong Zhu, Xiaopeng Li, Xicheng Wang, Jinggui Fang
FUNCTIONAL & INTEGRATIVE GENOMICS
(2017)
Article
Genetics & Heredity
Tariq Pervaiz, Cheng Zhang, Muhammad Faheem, Qian Mu, Jinggui Fang
MITOCHONDRIAL DNA PART A
(2017)
Article
Genetics & Heredity
XiangPeng Leng, Peipei Wang, Xudong Zhu, Xiaopeng Li, Ting Zheng, Lingfei Shangguan, Jinggui Fang
FUNCTIONAL & INTEGRATIVE GENOMICS
(2017)
Review
Plant Sciences
Abolfazl Lotfi, Tariq Pervaiz, Songtao Jiu, Faezeh Faghihi, Zahra Jahanbakhshian, Effat Ghadirzadeh Khorzoghi, Jinggui Fang, Seyed Mahdi Seyedi
PLANT GROWTH REGULATION
(2017)
Article
Genetics & Heredity
Xudong Zhu, Mengqi Wang, Xiaopeng Li, Songtao Jiu, Chen Wang, Jinggui Fang
Article
Plant Sciences
Xudong Zhu, Chaobo Zhang, Weimin Wu, Xiaopeng Li, Chuan Zhang, Jinggui Fang
HORTICULTURE RESEARCH
(2017)
Article
Biochemistry & Molecular Biology
Xudong Zhu, Songtao Jiu, Xiaopeng Li, Kekun Zhang, Mengqi Wang, Chen Wang, Jinggui Fang
Article
Plant Sciences
Lingfei Shangguan, Xiang Fang, Lide Chen, Liwen Cui, Jinggui Fang
Article
Multidisciplinary Sciences
Xudong Zhu, Xiaopeng Li, Songtao Jiu, Kekun Zhang, Chen Wang, Jinggui Fang
ROYAL SOCIETY OPEN SCIENCE
(2018)
Article
Agriculture, Multidisciplinary
Kekun Zhang, Zhongjie Liu, Le Guan, Ting Zheng, Songtao Jiu, Xudong Zhu, Haifeng Jia, Jinggui Fang
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2018)
Article
Multidisciplinary Sciences
Lingfei Shangguan, Qian Mu, Xiang Fang, Kekun Zhang, Haifeng Jia, Xiaoying Li, Yiqun Bao, Jinggui Fang
Article
Multidisciplinary Sciences
Xiangpeng Leng, Peipei Wang, Chen Wang, Xudong Zhu, Xiaopeng Li, Hongyan Li, Qian Mu, Ao Li, Zhongjie Liu, Jinggui Fang
SCIENTIFIC REPORTS
(2017)
Article
Multidisciplinary Sciences
Muhammad Salman Haider, Cheng Zhang, Mahantesh M. Kurjogi, Tariq Pervaiz, Ting Zheng, Chaobo Zhang, Chen Lide, Lingfie Shangguan, Jinggui Fang
SCIENTIFIC REPORTS
(2017)