Article
Biochemistry & Molecular Biology
Shan-Cheng Yi, Yu-Hang Wu, Rui-Nan Yang, Dong-Zhen Li, Hazem Abdelnabby, Man-Qun Wang
Summary: This study examined the olfactory perception of Dastarcus helophoroides, an essential natural enemy in the forestry ecosystem. The research identified DhelOBP4 as a key protein involved in the recognition of two behaviorally attractive substances by D. helophoroides adults. The findings provide a molecular basis for the olfactory perception of this species and contribute to the understanding of how insect odorant-binding proteins recognize herbivore-induced plant volatiles.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Chidhambaram Manikkaraja, Mam Bhavika, Randhir Singh, Balasubramanian Nagarathnam, Geen George, Akash Gulyani, Govindaraju Archunan, Ramanathan Sowdhamini
Summary: In this study, six novel OBP isoforms were cloned from buffalo nasal epithelium using molecular biology and protein engineering methods. 3D models were developed and molecular-docking, dynamics experiments were performed using in silico approaches. The study focused on OBP1a and identified four residues that contributed to favorable interactions with two sex pheromones. The binding specificity was confirmed through site-directed mutagenesis and in vitro binding assays. These findings provide insights into the functions of different nasal epithelium OBP isoforms and have implications for the development of non-invasive biosensing devices for oestrus detection in buffaloes.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Ping Hu, Enhua Hao, Zhende Yang, Zhisong Qiu, Hengfei Fu, Jintao Lu, Ziting He, Yingqi Huang
Summary: The study identified EsigGOBP1 as a key odorant-binding protein in Endoclita signifer larvae, with high binding affinity to key volatiles from eucalyptus trunk, especially alpha-phellandrene. EsigGOBP1 is involved in host selection of E. signifer larvae, making it a potential molecular target for pest control at the larval stage.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Xiao-Long Liu, Zhe-Ran Wu, Wang Liao, Xiao-Qing Zhang, Yi-Wen Pei, Min Lu
Summary: This study investigated the function and binding properties of two general odorant binding proteins (GOBPs) in Spodoptera frugiperda. It was found that SfruGOBP1 had binding affinities to a few volatiles and insecticides, while SfruGOBP2 showed a broader ligand-binding spectrum, suggesting its importance in perceiving host volatiles. Molecular docking and site-directed mutagenesis assays provided insight into the key amino acid residues involved in the binding of insecticides to the GOBPs. This study offers valuable information for understanding the olfactory mechanism of GOBPs in S. frugiperda.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Biochemistry & Molecular Biology
Junjie Zhang, Kaikai Mao, Zhijie Ren, Ruoheng Jin, Yunhua Zhang, Tingwei Cai, Shun He, Jianhong Li, Hu Wan
Summary: The study investigates the role of NlOBP3 in the resistance of N. lugens to nitenpyram and sulfoxaflor. It reveals that NlOBP3 is overexpressed and associated with the resistance, and silencing NlOBP3 increases the mortality rate of N. lugens to the two insecticides.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Article
Biochemistry & Molecular Biology
Shixiang Pan, Wenhao Li, Yaoguo Qin, Zhaokai Yang, Yan Liu, Zhuo Shi, Cheng Qu, Chen Luo, Xinling Yang
Summary: This study designed a series of novel geranic acid esters containing substituted aromatic rings and investigated the impact of inversion ester groups on their activity against aphids. The results showed that the inversion of ester groups enhanced the repellent activity and binding affinity of the compounds towards aphids. Compound 5f exhibited the best activity. The introduction of meta-substitution of the benzene ring and halogen atoms facilitated the biological activity. Molecular docking results indicated the importance of hydrogen bonding interactions and hydrophobic interactions for the binding affinity with the aphids' odorant-binding protein.
Article
Plant Sciences
Xiang Zhou, Zheng Wang, Guangchao Cui, Zimeng Du, Yunlong Qian, Shumei Yang, Minghui Liu, Jixing Guo
Summary: In this study, the cDNA sequence of TrufOBP4 from T. rufivena is cloned and analyzed. The results show that TrufOBP4 has high binding abilities with the host plant volatiles and may play a crucial role in the integrated management of T. rufivena.
Article
Biochemistry & Molecular Biology
Tarsila G. Castro, Carla Silva, Teresa Matama, Artur Cavaco-Paulo
Summary: This study evaluated the binding of odorant molecules to human odorant-binding protein in silico, finding that molecular weight, hydrophobicity, and vapor pressure are the key factors influencing odorant-binding energies. Understanding how odorants behave when complexed with OBP in human olfaction opens new possibilities for future biotechnological applications.
Article
Biochemistry & Molecular Biology
Er-Tao Li, Han-Jia Wu, Jian-Hui Qin, Jing Luo, Ke-Bin Li, Ya-Zhong Cao, Shuai Zhang, Yu Peng, Jiao Yin
Summary: Holotrichia parallela is attracted to the volatiles released by organic fertilizers during oviposition. Odorant-binding protein 3 (HparOBP3) was identified as a key protein in the perception of oviposition cues. Silencing HparOBP3 significantly reduced the electro-physiological responses and tropism of males and females to specific compounds. The binding ability of HparOBP3 was dependent on hydrophobic residues, and its mutation diminished the binding ability. Silencing HparOBP3 also reduced the attraction and oviposition indexes of organic fertilizers to H. parallela.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Entomology
Yu Ma, Yu Li, Zhi-Qiang Wei, Jing-Hao Hou, Yu-Xiao Si, Jin Zhang, Shuang-Lin Dong, Qi Yan
Summary: In this study, the binding affinities between general odorant binding proteins (GOBPs) and camphor volatiles as well as sex pheromone components were identified. The interaction between GOBPs and host plant volatiles was predicted using 3-D structure modeling and ligand molecular docking. OachGOBP2 showed a wider odorant binding spectrum and higher binding capacity compared to GOBP1.
Article
Entomology
Yuting Yang, Liang Luo, Lixia Tian, Changwei Zhao, Hongli Niu, Yifeng Hu, Caihua Shi, Wen Xie, Youjun Zhang
Summary: The study reveals the olfactory function of BodoOBP8 in recognizing plant volatiles and sex pheromones, providing insights into new approaches for controlling B. odoriphaga. Real-time PCR analysis confirms the importance of BodoOBP8 in the olfactory process, laying the theoretical foundation for the development of novel ways to control B. odoriphaga.
Article
Entomology
Yang Yuting, Hua Dengke, Shi Caihua, Xie Wen, Zhang Youjun
Summary: In this study, a full-length cDNA sequence of BodoOBP5 was cloned from the insect pest Bradysia odoriphaga, and its expression patterns in different developmental stages and tissues were investigated. The results demonstrated that BodoOBP5 strongly binds to two sulfur compounds and specific amino acid residues are crucial for this interaction.
JOURNAL OF ECONOMIC ENTOMOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Souleymane Diallo, Mohd Shahbaaz, JohnMark O. Makwatta, Jackson M. Muema, Daniel Masiga, Alan Christofells, Merid N. Getahun
Summary: Research on the role of odorant-binding proteins (OBPs) in Glossina fuscipes fuscipes olfaction shows that their specific expression and silencing significantly affect flies' attraction to specific odors.
Article
Biochemistry & Molecular Biology
Dan Jia, Wangli Miao, Yuefan Rui, Yanting Chen, Wenhui Liang, Zhongsheng Yi
Summary: T3 and T4 play crucial roles in regulating cell metabolic rate and promoting brain tissue development and differentiation. MeO-PCBs competitively bind to thyroid carrier proteins, disrupting the transport of thyroid hormone. Computational simulations showed that the binding affinity of MeO-PCBs decreased with increasing chlorine atoms.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Biochemistry & Molecular Biology
Cassie Sims, Michael A. Birkett, Neil J. Oldham, Robert A. Stockman, David M. Withall
Summary: This study investigated the binding of aphid pheromones and OBPs in the pea aphid. The results showed that ApisOBP6 was able to bind the sex pheromone components and discriminate from the alarm pheromone and a plant compound. These findings provide insights into pre-receptor odorant discrimination and potential functions of aphid olfactory proteins.
INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Isabella P. Godoi, William Gustavo Lima, Moacyr Comar Junior, Ricardo Jose Alves, Jaqueline Maria S. Ferreira, De-Xin Kong, Alex G. Taranto
JOURNAL OF THE BRAZILIAN CHEMICAL SOCIETY
(2017)
Article
Chemistry, Medicinal
Jun Shang, Ben Hu, Junmei Wang, Feng Zhu, Yu Kang, Dan Li, Huiyong Sun, De-Xin Kong, Tingjun Hou
JOURNAL OF CHEMICAL INFORMATION AND MODELING
(2018)
Article
Biochemistry & Molecular Biology
De-Xin Kong, Fang Lv, Ben Hu, Li-Min Cao
Article
Multidisciplinary Sciences
Guang-Qiang Yu, Dong-Zhen Li, Yu-Lin Lu, Ya-Qi Wang, De-Xin Kong, Man-Qun Wang
SCIENTIFIC REPORTS
(2018)
Article
Biochemical Research Methods
Jun Sun, Ling-Li Yang, Xi Chen, De-Xin Kong, Rong Liu
JOURNAL OF PROTEOME RESEARCH
(2018)
Article
Chemistry, Applied
Xiaoya Han, Feng Sheng, Dexin Kong, Yulian Wang, Yuanhu Pan, Mo Chen, Yanfei Tao, Zhenli Liu, Saeed Ahmed, Zonghui Yuan, Dapeng Peng
Article
Chemistry, Medicinal
Dong Wang, Zhaoyang Li, Yi Liu, Mo Chen, Nianhang Chen, Zhili Zuo, De-Xin Kong
FUTURE MEDICINAL CHEMISTRY
(2019)
Article
Biochemistry & Molecular Biology
Dong Wang, Ren-Yuan Hong, Mengyao Guo, Yi Liu, Nianhang Chen, Xun Li, De-Xin Kong
Correction
Multidisciplinary Sciences
Song-Bing He, Ben Hu, Zheng-Kun Kuang, Dong Wang, De-Xin Kong
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Xin Yu, Qian Yang, Dong Wang, Zhaoyang Li, Nianhang Chen, De-Xin Kong
Summary: A pipeline named EnMCB was developed to predict lung adenocarcinoma survival based on methylation-correlated blocks, using a combination of Cox regression, SVR, and elastic-net models. The stacking ensemble model showed good performance in predicting patient survival across different datasets, indicating its potential as a reliable tool for MCB selection and survival prediction.
Article
Biochemical Research Methods
Xin Yu, De-Xin Kong
Summary: The study introduced a machine learning model ensemble package called EnMCB for constructing survival prediction signatures based on DNA methylation correlated blocks. The package automatically partitions the genome into tightly co-methylated CpG site blocks for predicting patients' survival.
Article
Pharmacology & Pharmacy
Bo Zhou, Yaxia Yuan, Le Shi, Sheng Hu, Dong Wang, Yang Yang, Yuanhu Pan, Dexin Kong, Alexander N. Shikov, Pierre Duez, Moonsoo Jin, Xiaohua Li, Xuebo Hu
Summary: Through screening a triterpenoid library, glycyrrhetinic acid (GA) was selected as a scaffold for a celastrol mimic active against obesity. A simple chemical modification of GA resulted in GA-02, which effectively suppressed food intake and led to weight loss in diet-induced obesity mice. GA-02 re-activated leptin signaling and reduced inflammation, showing potential as a safe and effective treatment for obesity. This strategy of scaffold search and modification based on bio-content and structural similarity provides a green, economic, efficient, and practical way of expanding the medicinal applications of natural compounds.
FRONTIERS IN PHARMACOLOGY
(2021)
Article
Biochemical Research Methods
Dong Wang, Zhenxing Wu, Chao Shen, Lingjie Bao, Hao Luo, Zhe Wang, Hucheng Yao, De-Xin Kong, Cheng Luo, Tingjun Hou
Summary: This study explores the utility and effectiveness of evidential uncertainty in compound screening. The results demonstrate that evidential uncertainties help reduce false positives and improve experimental validation rates. The study highlights the importance of understanding the uncertainty in model predictions.
BRIEFINGS IN BIOINFORMATICS
(2023)
Review
Biochemistry & Molecular Biology
Yinliang Chen, Yi Liu, Nianhang Chen, Yuting Jin, Ruofei Yang, Hucheng Yao, De-Xin Kong
Summary: This study analyzed the natural glycosides from the Dictionary of Natural Products (DNP) using chemoinformatic methods. The glycosylation ratios of natural products from plants, bacteria, animals, and fungi were found to decrease successively, with percentages of 24.99%, 20.84%, 8.40%, and 4.48%, respectively. It was also observed that steroids, tannins, and flavonoids had higher proportions of glycosides, while amino acids and peptides, and alkaloids had comparatively lower proportions of glycosylation.
NATURAL PRODUCT REPORTS
(2023)
Article
Biochemistry & Molecular Biology
Yucheng Wang, Yujie Peng, Rui Long, Peiting Shi, Yinghao Zhang, De-Xin Kong, Jinshui Zheng, Xiaocong Wang
Summary: Siglecs are important lectins found on the surface of immune cells, which can inhibit immune cell functions by recognizing glycans and converting them into signals. This study investigated the impact of sequence variation in the CC' loop of Siglec-8/9/3 on the recognition of sulfated oligosaccharides using molecular models.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2023)