Article
Genetics & Heredity
Congcong Yan, Kefan Xing, Yujie Liu, Weihua Kong, Ruirui Zhang, Yuying Sun, Jiquan Zhang
Summary: Wnt proteins are hydrophobic secreted glycoproteins involved in diverse biological processes. This study identified and analyzed 11 Wnt genes in Neocaridina denticulata sinensis, revealing their expression patterns in various tissues, developmental stages, and stresses. The findings highlight the tissue-specific expression and variability of these Wnt genes, enriching our understanding of the Wnt gene family in crustaceans.
Article
Biochemistry & Molecular Biology
Yanxiao Li, Han Gao, Hui Zhang, Runnan Yu, Fan Feng, Jing Tang, Bin Li
Summary: This study systematically identified and characterized GPCRs in Spodoptera litura, a highly destructive omnivorous pest. It was found that certain subfamilies of GPCRs have expanded in S. litura, which may be related to its omnivorous nature and drought environment resistance. The large Mth/Mthl subfamily of S. litura may be involved in longevity and stress response. The study provides a basis for further understanding the functions of these receptors in regulating physiology and behavior.
COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS
(2022)
Article
Multidisciplinary Sciences
Shizhe Yu, Haoren Wang, Lingpeng Yang, Yingxue Yan, Qiang Cai, Duo Ma, Long Jiang, Zehai Gao, Zhiyong Yu, Zongping Xia
Summary: The comprehensive study of the spatial-cellular anatomy of the human liver is crucial for understanding the cellular origins of liver disease. In this study, spatial transcriptomics were conducted on normal human liver tissue sections, providing detailed transcriptional information on liver zonation. A total of 6581 high-quality spots from normal livers were analyzed, mainly consisting of hepatocytes, which were classified into four sub-groups. These data serve as a reliable reference for studying the spatial heterogeneity of liver lobules.
Article
Biochemistry & Molecular Biology
Stephanie M. Zimmerman, Robin Fropf, Bridget R. Kulasekara, Maddy Griswold, Oliver Appelbe, Arya Bahrami, Rich Boykin, Derek L. Buhr, Kit Fuhrman, Margaret L. Hoang, Quoc Huynh, Lesley Isgur, Andrew Klock, Alecksandr Kutchma, Alexa E. Lasley, Yan Liang, Jill McKay-Fleisch, Jeffrey S. Nelson, Karen Nguyen, Erin Piazza, Aric Rininger, Daniel R. Zollinger, Michael Rhodes, Joseph M. Beechem
Summary: Emerging spatial profiling technology allows high-plex molecular profiling in biological tissues while preserving the spatial and morphological context of gene expression. By expanding the chemistry for the Digital Spatial Profiling platform, researchers have successfully quantified whole transcriptomes in human and mouse tissues, enabling applications in cancer research, molecular pathology, and developmental biology.
Article
Chemistry, Multidisciplinary
Ling Hu, Yi Qiao, Jingyu Liu, Chao Zheng, Xiaofeng Wang, Peng Sun, Yucheng Gu, Wen Liu
Summary: Thioamitides are a family of RiPP natural products with potential in anticancer drug development, featuring a unique hdmHis residue. The enzymatic process for His functionalization relies on specific enzymes and precursor peptide sequences, without the need for prior peptide thioamidation.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Biochemistry & Molecular Biology
Ferhat Alkan, Oscar G. Wilkins, Santiago Hernandez-Perez, Sofia Ramalho, Joana Silva, Jernej Ule, William J. Faller
Summary: Recent studies have identified multiple mechanisms that contribute to the heterogeneity in ribosomal composition, and have developed a new method, called dripARF, to study this phenomenon. This method uses Ribosome Profiling (Ribo-seq) data to detect differential protein incorporation into the ribosome by combining "waste" rRNA fragment data with the known 3D structure of the human ribosome. The results indicate that ribosome heterogeneity can be detected in Ribo-seq data, providing a new tool to study this phenomenon.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Environmental Sciences
Xuedong Chen, Xing Zhang, Aihong Ye, Xuehui Wu, Jinru Cao, Wenlin Zhou
Summary: This study comprehensively assessed the toxicity of triphenyltin (TPT) in the silkworm Bombyx mori as a model insect. The results indicated that TPT exposure reduced the weight of silkworm pupa and inhibited midgut development, while also affecting gene expression and metabolic profiles in the midgut.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2022)
Article
Biotechnology & Applied Microbiology
Suhad A. A. Al-Salihi, Ian D. Bull, Raghad Al-Salhi, Paul J. Gates, Kifah S. M. Salih, Andy M. Bailey, Gary D. Foster
Summary: The study highlights the potential of mushroom-forming fungi as an underexplored source of bioactive natural products. Through screening and investigating the chemical properties and genetic pathways of fungi, a potential antibacterial compound was identified, which could impact the development in both pharmaceutical and agrochemical industries.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Article
Plant Sciences
Huiming Huang, Liangguang Yue, Fayu Deng, Xiaoyu Wang, Ning Wang, Hu Chen, Huayue Li
Summary: The integration of NMR-metabolomic and genomic analyses allows for enhanced identification of structural properties and biosynthetic information in natural products. In this study, NMR-based metabolomic profiling and genome mining were employed to isolate and determine the structures of two new natural products from Streptomyces sp. S063. The cytotoxicity evaluation demonstrated moderate growth inhibition against several human cancer cells.
JOURNAL OF NATURAL PRODUCTS
(2023)
Article
Multidisciplinary Sciences
Yan Ma, Qiwei Sun, Lihua Huang, Qin Luo, Wenhui Zeng, Yao Ou, Jingwen Ma, Hanfu Xu
Summary: Transcription factors (TFs) are essential proteins that regulate gene transcription, especially in the silk gland of the silkworm Bombyx mori. A total of 348 candidate TFs were identified in this study, with detailed analysis of their characteristics and expression patterns, providing a foundation for further research on the roles of TFs in the B. mori silk gland.
Article
Fisheries
Yuanyuan Fu, Jie He, Lei Liu, Xinlian Huang, Yuankai Xu, Chunlin Wang
Summary: Thirteen Wnt family genes were identified and classified in the swimming crab Portunus trituberculatus, showing specific expression patterns and involvement in biological pathways during limb regeneration. These results provide valuable insights into the regulatory mechanisms of regeneration in crustaceans.
Article
Entomology
Jianping Duan, Shimei Liang, Zhenni Zhu, Xinfeng Yang, Ying Li, Xin Xu, Jiazhen Wang, Xuwei Zhu, Lunguang Yao
Summary: Tissue-based transcriptome and gene co-expression network analysis were performed to investigate gene expression variation among different larval tissues of Antheraea pernyi, an insect with economic value. This study provides valuable insights into the biology of A. pernyi and can contribute to its protection and breeding.
JOURNAL OF ASIA-PACIFIC ENTOMOLOGY
(2023)
Article
Multidisciplinary Sciences
Michael Rohr, Jordan Beardsley, Sai Preethi Nakkina, Xiang Zhu, Jihad Aljabban, Dexter Hadley, Deborah Altomare
Summary: The study developed a meta-dataset comprising healthy, adenoma, and CRC tissue samples from multiple independent studies, providing a robust platform for investigating colorectal adenoma formation and malignant transformation through integrated analysis and functional validation.
Article
Biochemistry & Molecular Biology
K. Banzai, S. Izumi
Summary: Genes encoding choline acetyltransferase (ChAT) and vesicular acetylcholine transporter are located in the same gene locus, known as the cholinergic gene locus, essential for maintaining the functional phenotype of cholinergic neurons. Multiple enhancer regions within 1 kb upstream of the cholinergic gene locus were identified in the silkworm Bombyx mori, including conserved cAMP response element and CAAT box sequences. Dibutyryl-cAMP was found to influence ChAT expression in B. mori, and potential transcriptional factors controlling the cholinergic gene locus expression were identified.
INSECT MOLECULAR BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Reza Mirzazadeh, Zaneta Andrusivova, Ludvig Larsson, Phillip T. Newton, Leire Alonso Galicia, Xesus M. Abalo, Mahtab Avijgan, Linda Kvastad, Alexandre Denadai-Souza, Nathalie Stakenborg, Alexandra B. Firsova, Alia Shamikh, Aleksandra Jurek, Niklas Schultz, Monica Nister, Christos Samakovlis, Guy Boeckxstaens, Joakim Lundeberg
Summary: Spatially resolved transcriptomics allows genome-wide mRNA expression profiling within tissue sections. The RNA quality is crucial for methods targeting mRNA polyA tails, and the high cost of current spatial transcriptomics assays requires careful sample screening. In this study, the authors introduce a workflow called RRST for mRNA recovery from fresh frozen specimens with moderate to low RNA quality, and demonstrate its robustness on different tissue types.
NATURE COMMUNICATIONS
(2023)
