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7. Characterization and Phylogenetic Analysis of the Complete Mitochondrial Genome of Saturnia japonica

Author

Baojian Zhu, Peng Ying, Jia Jinjin, Guoqing Wei, Junjun Dai, Lei Wang, Sun Yahao, Cen Qian, Yemei Zong, and Jiang Liu

Subjects
Genetics, Mitochondrial DNA, biology, Sequence Analysis, DNA, General Medicine, Moths, Ribosomal RNA, biology.organism_classification, Biochemistry, Stop codon, RNA, Transfer, Saturniidae, RNA, Ribosomal, Molecular evolution, Phylogenetics, Genome, Mitochondrial, Transfer RNA, Codon, Terminator, Animals, Molecular Biology, Gene, Phylogeny, Ecology, Evolution, Behavior and Systematics
Abstract

The complete mitochondrial genome (mitogenome) of Saturnia japonica (Lepidoptera: Saturniidae) was sequenced and annotated. It is a circular molecule of 15, 376 bp, composed of 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNA), and an adenine (A) + thymine (T)-rich region. All protein-coding genes (PCGs) are initiated by the ATN codon except for cytochrome c oxidase subunit 1 (cox1) gene that is seemingly initiated by the CGA codon. Except for cox2 and nad4, which were terminated by incomplete stop codon T or TA, the rest were terminated by canonical stop codon TAA. The A + T-rich region is high conservative, including ‘ATAGA’ motif followed by a 19 bp poly-T stretch, a microsatellite-like element (AT)9 and also a poly-A element, with a total length of 332 bp. The Asn codon was the most frequently used codon, followed by Ile, Leu2, Lys, Met, Phe, and Tyr, while Cys was the least frequently used codon. Phylogenetic relationships analysis based on the 13 PCGs by using maximum likelihood (ML) and neighbor Joining (NJ) revealed that S. japonica belongs to the Saturniidae family. In this study, the annotation and characteristics of the mitogenome of S. japonica were resolved for the first time, which laid a foundation for species classification and the molecular evolution of Lepidoptera: Saturniidae.

Published
2021
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9. A molecular pathway for CO2 response in Arabidopsis guard cells

Author

Tian, Wang, primary, Hou, Congcong, additional, Ren, Zhijie, additional, Pan, Yajun, additional, Jia, Jinjin, additional, Zhang, Haiwen, additional, Bai, Fenglin, additional, Zhang, Peng, additional, Zhu, Huifen, additional, He, Yikun, additional, Luo, Shenglian, additional, Li, Legong, additional, and Luan, Sheng, additional

Published
2015
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11. Potential mechanism of Luoshi Neiyi prescription in endometriosis based on serum pharmacochemistry and network pharmacology.

Author

Wu L, Lin S, Hu Y, Jing S, Sun B, Chen X, Jia J, Zeng C, and Pei F

Abstract

Introduction: Endometriosis (EMs) is characterized by ectopic growth of active endometrial tissue outside the uterus. The Luoshi Neiyi prescription (LSNYP) has been extensively used for treating EMs in China. However, data on the active chemical components of LSNYP are insufficient, and its pharmacological mechanism in EMs treatment remains unclear. This study aimed to explore the potential mechanism of LSNYP for EMs through network pharmacology based on the components absorbed into the blood., Methods: Ultra-high performance liquid chromatography-quadrupole time-of-flight mass spectrometry was used to analyze blood components, and a series of network pharmacology strategies were utilized to predict targets of these components and EMs. Protein-protein interaction (PPI) network analysis, component-target-disease network construction, gene ontology (GO) functional enrichment analysis, and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis were performed. Additionally, molecular docking, molecular dynamics simulations, and in vitro and in vivo experiments were conducted to validate the HIF1A/EZH2/ANTXR2 pathway associated with hypoxic pathology in EMs., Results: Thirty-four absorbed components suitable for network pharmacology analysis were identified, and core targets, such as interleukin 6, EGFR, HIF1A, and EZH2, were founded. Enrichment results indicated that treatment of EMs with LSNYP may involve the regulation of hypoxia and inflammatory-related signaling pathways and response to oxidative stress and transcription factor activity. Experimental results demonstrated that LSNYP could decrease the expression of HIF1A, ANTXR2, YAP1, CD44, and β-catenin, and increased EZH2 expression in ectopic endometrial stromal cells and endometriotic tissues. Molecular docking and molecular dynamics simulations manifested that there was stable combinatorial activity between core components and key targets of the HIF1A/EZH2/ANTXR2 pathway., Conclusion: LSNYP may exert pharmacological effects on EMs via the HIF1A/EZH2/ANTXR2 pathway; hence, it is a natural herb-related therapy for EMs., Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2024 Wu, Lin, Hu, Jing, Sun, Chen, Jia, Zeng and Pei.)

Published
2024
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