Article
Chemistry, Applied
Yi Wang, Jinqiu Wang, Yaoqiang Shi, Haolong Ye, Wei Luo, Fang Geng
Summary: During the formation of egg yolk, there were significant changes in the abundance of major egg yolk proteins, protein hydrolases, and isomerases. Binding proteins for vitamins and cholesterol were most abundant in the final period of formation. Immunoglobulins decreased while complement proteins increased as formation progressed, showing the dynamic nature of the egg yolk immune system.
Article
Pediatrics
Andrei K. Garzon Dasgupta, Alexey A. Martyanov, Anastasia A. Ignatova, Victor G. Zgoda, Galina A. Novichkova, Mikhail A. Panteleev, Anastasia N. Sveshnikova
Summary: This study showed that pediatric platelets have higher levels of proteins related to mitochondrial activity, proteasome activity, and vesicle transport. Additionally, pediatric platelets exhibited increased cytosolic calcium levels at rest, decreased calcium mobilization in response to ADP, and reduced granule release. These differences in protein composition and functional responses suggest that platelet behavior is age-dependent.
PEDIATRIC RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Dana A. Dahhan, Gregory D. Reynolds, Jessica J. Cardenas, Dominique Eeckhout, Alexander Johnson, Klaas Yperman, Walter A. Kaufmann, Nou Vang, Xu Yan, Inhwan Hwang, Antje Heese, Geert De Jaeger, Jiri Friml, Daniel Van Damme, Jianwei Pan, Sebastian Y. Bednarek
Summary: In this study, mass spectrometry was used to analyze the proteome of Arabidopsis suspension-cultured cell clathrin-coated vesicles (CCVs). The study identified evolutionarily conserved and plant-specific factors associated with CCVs. Notably, the AP-4 complex was found to be abundantly present in the CCV proteome.
Article
Biochemistry & Molecular Biology
Juan Manuel Velazquez-Enriquez, Alma Aurora Ramirez-Hernandez, Luis Manuel Sanchez Navarro, Itayetzi Reyes-Avendano, Karina Gonzalez-Garcia, Cristian Jimenez-Martinez, Luis Castro-Sanchez, Xariss Miryam Sanchez-Chino, Veronica Rocio Vasquez-Garzon, Rafael Baltierrez-Hoyos
Summary: Idiopathic pulmonary fibrosis (IPF) is a chronic lung disease with unknown causes. This study identified differentially expressed proteins (DEPs) related to IPF pathogenesis by comparing IPF lung fibroblast cell lines with normal lung fibroblast cell lines. The results provide valuable information on the role of DEPs in IPF.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Hematology
Yuanliang Peng, Li Tang, Yanan Li, Jianhui Song, Hong Liu, Pan Wang, Zhizhou Zhong, Yifei Yang, Shihui Wang, Lixiang Chen, Ji Zhang, Shijie Zhang, Zi Wang, Min Li, Long Liang, Jing Liu
Summary: This study characterized the quantitative and qualitative analysis of phosphorylated proteins during human early erythropoiesis using tandem mass-tagging technology. The results revealed the important regulatory role of phosphorylated proteins in erythroid development and identified functional modules related to cell cycle and signaling pathways.
BRITISH JOURNAL OF HAEMATOLOGY
(2022)
Article
Cell Biology
Sofia Melliou, Kevin T. Sangster, Jennifer Kao, Mehdi Zarrei, K. H. Brian Lam, Jennifer Howe, Michail-Dimitrios Papaioannou, Queenie P. L. Tsang, Okty Abbasi Borhani, Rifat Shahriar Sajid, Celine Bonnet, Bruno Leheup, Patrick Shannon, Stephen W. Scherer, Dimitri James Stavropoulos, Ugljesa Djuric, Phedias Diamandis
Summary: Cerebral organoids serve as valuable models for studying neurodevelopment and diseases, and can help identify previously unknown genes, making them a valuable resource in neurobiological research.
Article
Food Science & Technology
Rao Wu, Chen Chen, Xiaoying Zhang
Summary: The proteomic profiles of Silky fowl egg yolk (SFEY) and Leghorn egg yolk (LEY) were compared, revealing significant differences in protein abundance and composition. Differences in protein expression levels and the presence of coagulation-related and neuroactive ligand-receptor interaction proteins were observed. This study provides a theoretical basis for further exploration of the nutritional and biomedical applications of Silky fowl eggs.
Article
Biology
Nathan R. Johnson, Luis F. Larrondo, Jose M. Alvarez, Elena A. Vidal
Summary: This study systematically assesses the characteristics and annotation reliability of mi/milRNA in fungi. It finds that less than half of the reported loci meet the basic standards for hairpin RNA discovery. Fungal mi/milRNAs are generally similar in size to animal miRNAs and are frequently associated with protein-coding genes. The study also identifies 25 conserved mi/milRNA loci across multiple species.
Article
Biochemistry & Molecular Biology
Md Arifur Rahman, Ardeshir Amirkhani, Farhana Parvin, Durdana Chowdhury, Mark P. Molloy, Anand Kumar Deva, Karen Vickery, Honghua Hu
Summary: This study aimed to investigate the differences in protein components between dry surface biofilms (DSBs) and hydrated biofilms. Using high-throughput mass spectrometry, the study found that proteins associated with peptidoglycan biosynthesis pathway were upregulated in 12-day DSBs, while proteins associated with energy metabolism were upregulated in 12-day hydrated biofilms. However, the levels of gene expression did not fully correspond with the protein levels.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Multidisciplinary Sciences
Hui Zhang, Eric B. Dammer, Duc M. Duong, Diana Danelia, Nicholas T. Seyfried, David S. Yu
Summary: This study used a proteomic approach to investigate the acetylation effects of SIRT2 and identified a large number of acetylation sites and substrates. The results revealed that SIRT2 regulates protein networks in diverse pathways, including carbon metabolism, glycolysis, and RNA transport.
SCIENTIFIC REPORTS
(2022)
Article
Environmental Sciences
Yuan Liu, Yanlun Qiu, Qi Yin, Xinglong Li, Qunhua Bai, Yingli Li, Hong Xiao
Summary: The study investigated the mechanisms of Cr(VI) tolerance and reduction in the wild strain CM01 and its response to environmental pollution pressure at the molecular level. The iTRAQ technique identified differentially expressed proteins in domesticated CM01 related to Cr(VI) resistance. These findings were confirmed by RT-qPCR, showing consistency in gene expression levels. Additionally, domesticated CM01 displayed increased hydrophobicity, self-aggregation, glucose content, and SOD activity in response to Cr(VI) treatment.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2021)
Article
Biotechnology & Applied Microbiology
Rashid Minhas, Henry Loeffler-Wirth, Yusra H. Siddiqui, Tomasz Obrebski, Shikha Vashisht, Karim Abu Nahia, Alexandra Paterek, Angelika Brzozowska, Lukasz Bugajski, Katarzyna Piwocka, Vladimir Korzh, Hans Binder, Cecilia Lanny Winata
Summary: The study characterized the molecular profile of zebrafish sinoatrial ring (SAR) and identified key genes and signaling pathways involved in pacemaker development. Overexpression of several mammalian SAN genes were found in the zebrafish SAR, along with genes related to BMP and Wnt signaling pathways. Functional analysis of SAR-overexpressed genes revealed their novel role in heart development and physiology. The transcriptome data generated in this study provides a valuable resource for understanding pacemaker function and related heart diseases.
Article
Chemistry, Analytical
Wangjie Lv, Zhongda Zeng, Yuqing Zhang, Qingqing Wang, Lichao Wang, Zhaoxuan Zhang, Xianzhe Shi, Xinjie Zhao, Guowang Xu
Summary: In this study, an alternate RPLC-MS method was developed to quantitatively determine metabolites and lipids. A wide set of reference standards and real samples were used to define multiple reaction monitoring (MRM) transitions for metabolomic and lipidomic analyses, resulting in the quantification of over 1000 metabolites and lipids. The developed method showed good analytical characteristics and was successfully validated using standard reference material.
ANALYTICA CHIMICA ACTA
(2022)
Article
Immunology
Zongchao Yu, Xiaoping Hong, Xiaoli Zhang, Fengping Zheng, Fanna Liu, Huixuan Xu, Chengxin Zhu, Wanxia Cai, Dongzhou Liu, Lianghong Yin, Bo Hu, Donge Tang, Yong Dai
Summary: This study investigated potential pathways involved in the pathogenesis of new-onset ankylosing spondylitis (AS) through systematic proteomic and phosphorylation analyses, and identified proteins that could be used as candidate markers for AS diagnosis and new therapeutic targets.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Zoheir B. Demmouche, Jacques J. Tremblay
Summary: Leydig cells produce testosterone, a hormone essential for male sex differentiation and spermatogenesis. LH stimulates testosterone production by activating various kinases and transcription factors through increasing cAMP levels. AMPK, activated by AMP, potently represses steroidogenesis. The study identifies global changes in protein and phosphoprotein levels during both the stimulatory and inhibitory phases of steroidogenesis, providing new insights into the finely tuned processes of adequate steroid hormone production.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemical Research Methods
Shilpa Pant, Caixia Li, Zhiyuan Gong, Nanguang Chen
JOURNAL OF BIOMEDICAL OPTICS
(2017)
Meeting Abstract
Developmental Biology
Hankun Li, Xiaojing Huo, Zhen Li, Zhiyuan Gong
MECHANISMS OF DEVELOPMENT
(2017)
Meeting Abstract
Developmental Biology
Yan Li, Zhiyuan Gong
MECHANISMS OF DEVELOPMENT
(2017)
Meeting Abstract
Developmental Biology
Qiqi Yang, Chuan Yan, Zhiyuan Gong
MECHANISMS OF DEVELOPMENT
(2017)
Article
Environmental Sciences
Hongyan Xu, Caixia Li, Pacharaporn Suklai, Qinghua Zeng, Raymond Chong, Zhiyuan Gong
Article
Engineering, Environmental
Caixia Li, Qiyu Chen, Xiaoyan Zhang, Shane A. Snyder, Zhiyuan Gong, Siew Hong Lam
Review
Biochemical Research Methods
Shenglan Jia, Mauricius Marques Dos Santos, Caixia Li, Shane A. Snyder
Summary: This review summarizes analytical methods that have been applied to and advanced for the targeted detection and suspect screening of per- and polyfluoroalkyl substances (PFAS), including sampling and sample preparation methods, quality assurance/quality control, quantitative methods, and automated suspect screening strategies. The importance of promoting and improving existing analytical techniques for detecting trace amounts of PFAS in the environment is highlighted.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Environmental Sciences
Shenglan Jia, Caixia Li, Mingliang Fang, Mauricius Marques Dos Santos, Shane A. Snyder
Summary: In this study, metabolomics and XF analysis were used to investigate the effects of Bisphenol analogues (BPs) on liver metabolism. The results showed significant alterations in metabolite profiles associated with energy metabolism, oxidative stress, and cell proliferation after exposure to BPs. Different BPs also interfered with different metabolic pathways.
Article
Environmental Sciences
Mauricius Marques dos Santos, Megan Tan Pei Fei, Caixia Li, Shenglan Jia, Shane Allen Snyder
Summary: This study evaluates the effects of organic contaminants on different cell lines and suggests that immortalized cell lines can be a suitable alternative to primary cells in the development of high-throughput assays. The results also highlight the importance of careful selection of in-vitro models and potential drawbacks in risk assessment studies.
ENVIRONMENT INTERNATIONAL
(2022)
Meeting Abstract
Oncology
Joji Nakayama, Zhiyuan Gong
Review
Biochemistry & Molecular Biology
Jeng-Wei Lu, Yi-Jung Ho, Shih-Ci Ciou, Zhiyuan Gong
Article
Gastroenterology & Hepatology
Qiqi Yang, Chuan Yan, Chunyue Yin, Zhiyuan Gong
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2017)
Article
Marine & Freshwater Biology
Hongyuan Zhou, Saji George, Caixia Li, Subramaniam Gurusamy, Xiulan Sun, Zhiyuan Gong, He Qian
AQUATIC TOXICOLOGY
(2017)