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JOURNAL ARTICLE
Huijuan Fan, Chun Song, Jingyu Zhang
BACKGROUND: Sterile alpha and TIR motif-containing 1 (Sarm1) is known as a negative regulator of inflammatory responses. However, its role in inflammatory bowel disease (IBD) is still unclear. OBJECTIVE: This study aimed to explore the function of Sarm1 in IBD and its underlying mechanisms. Sarm1 and tumor necrosis factor (TNF) receptor associated factor 3 (TRAF3) knockout (KO) micewere established. METHODS: The colitis was induced using dextran sulfate sodium (DSS)...
April 23, 2024: Immunological Investigations
#2
JOURNAL ARTICLE
Andrew G Geeslin, Gilbert Moatshe, Lars Engebretsen, Martin Lind, Frida Hansson, Anders Stalman, Bjorn Barenius, Robert F LaPrade
PURPOSE: The purpose of this study was to perform a scoping review of clinical practice guidelines (CPGs) concerning the use of functional anterior cruciate ligament (ACL) braces and to clarify the nomenclature for bracing relevant to ACL injury treatment in order to support prescribing clinicians. METHODS: A PubMed search for CPGs for the use of braces following ACL injury or reconstruction was performed. CPGs on the treatment of ACL injuries with sufficient attention to postoperative braces were included in this scoping review...
April 23, 2024: Knee Surgery, Sports Traumatology, Arthroscopy
#3
JOURNAL ARTICLE
Mengmeng Tan, Natsuki Makiguchi, Kosuke Kusamori, Shoko Itakura, Yuki Takahashi, Yoshinobu Takakura, Makiya Nishikawa
It was previously demonstrated that polypod-like nanostructured DNA (polypodna) comprising three or more oligodeoxynucleotides (ODNs) were useful for the delivery of ODNs containing cytosine-phosphate-guanine (CpG) motifs, or CpG ODNs, to immune cells. Although the immunostimulatory activity of single-stranded CpG ODNs is highly dependent on CpG motif sequence and position, little is known about how the position of the motif affects the immunostimulatory activity of CpG motif-containing nanostructured DNAs...
April 2024: Biotechnology Journal
#4
JOURNAL ARTICLE
Mengru Zhu, Shengnan Wang, Kuo Qu, Feiyu Lu, Mengyuan Kou, Yunpeng Yao, Tong Zhu, Yongli Yu, Liying Wang, Chaoying Yan
The role of neutrophils in tumor initiation stage is rarely reported because of the lack of suitable models. We found that neutrophils recruited in early tumor nodules induced by subcutaneous inoculation of B16 melanoma cells were able to attack tumor cells by trogocytosis. The anti-tumor immunotherapy like peritoneal injection with TLR9 agonist CpG oligodeoxynucleotide combined with transforming growth factor β2 inhibitor TIO3 could increase the trogocytic neutrophils in the nodules, as well as CD8+ T cells, natural killer (NK) cells, and their interferon-γ production...
May 17, 2024: IScience
#5
JOURNAL ARTICLE
Aleksander Sulkowski, Clément Bouton, Chad Swanson
Vertebrate genomes contain lower than expected frequencies of the CpG dinucleotide. Consequently, many vertebrate viruses have evolved to mimic this composition, possibly in order to evade host antiviral defences (Greenbaum et al., 2008). For example, the antiviral protein ZAP binds CpGs in viral single stranded RNA with specific spacing requirements (Gonçalves-Carneiro et al., 2022), though CpGs are also likely depleted in viral genomes due to other selective pressures (Forni et al., 2023). Increasing CpG abundance by synonymous recoding could facilitate attenuation of viruses without compromising their epitope antigenicity by changing non-CpG codons to alternatives containing CpG without changing the overall amino acid sequence (Gonçalves-Carneiro et al...
April 3, 2024: Journal of Open Source Software
#6
JOURNAL ARTICLE
Isabel Fernández-Pérez, Joan Jiménez-Balado, Adrià Macias-Gómez, Antoni Suárez-Pérez, Marta Vallverdú-Prats, Alberto Pérez-Giraldo, Marc Viles-García, Julia Peris-Subiza, Sergio Vidal-Notari, Eva Giralt-Steinhauer, Daniel Guisado-Alonso, Manel Esteller, Ana Rodriguez-Campello, Jordi Jiménez-Conde, Angel Ois, Elisa Cuadrado-Godia
Vasospasm is a potentially preventable cause of poor prognosis in patients with aneurysmal subarachnoid hemorrhage (aSAH). Epigenetics might provide insight on its molecular mechanisms. We aimed to analyze the association between differential DNA methylation (DNAm) and development of vasospasm. We conducted an epigenome-wide association study in 282 patients with aSAH admitted to our hospital. DNAm was assessed with the EPIC Illumina chip (> 850 K CpG sites) in whole-blood samples collected at hospital admission...
April 23, 2024: Translational Stroke Research
#7
JOURNAL ARTICLE
Abel A Pavía-López, José A Magaña-Serrano, José A Cigarroa-López, Adolfo Chávez-Mendoza, José L Mayorga-Butrón, Diego Araiza-Garaygordobil, Juan B Ivey-Miranda, Gustavo F Méndez-Machado, Héctor González-Godínez, Luisa F Aguilera-Mora, Antonio Jordán-Ríos, Luis Olmos-Domínguez, Marcos J Olalde-Román, Emma M Miranda-Malpica, Zuilma Vázquez-Ortiz, Jorge Rayo-Chávez, Alexandra A Mendoza, Manlio F Márquez-Murillo, Sergio A Chávez-Leal, Amada Álvarez-San Gabriel, Marissa A Silva-García, Alex D Pacheco-Bouthiller, Jorge A Aldrete-Velazco, Carlos A Guizar-Sánchez, Efraín Gaxiola-López, Arturo Guerra-López, Lourdes Figueiras-Graillet, Gustavo Sánchez-Miranda, Genaro H Mendoza-Zavala, Moisés Aceves-García, Adolfo Chávez-Negrete, Marisol Arroyo-Hernández, Bertha B Montaño-Velázquez, Luis F Romero-Moreno, María M Baquero-Hoyos, Liliana Velasco-Hidalgo, Ana L Rodríguez-Lozano, Nancy E Aguilar-Gómez, Mario Rodríguez-Vega, Jorge E Cossío-Aranda
Chronic heart failure continues to be one of the main causes of impairment in the functioning and quality of life of people who suffer from it, as well as one of the main causes of mortality in our country and around the world. Mexico has a high prevalence of risk factors for developing heart failure, such as high blood pressure, diabetes, and obesity, which makes it essential to have an evidence-based document that provides recommendations to health professionals involved in the diagnosis and treatment of these patients...
2024: Archivos de Cardiología de México
#8
JOURNAL ARTICLE
Jingmin Shu, Jaroslav Jelinek, Hai Chen, Yan Zhang, Taichun Qin, Ming Li, Li Liu, Jean-Pierre J Issa
CpG islands near promoters are normally unmethylated despite being surrounded by densely methylated regions. Aberrant hypermethylation of these CpG islands has been associated with the development of various human diseases. Although local genetic elements have been speculated to play a role in protecting promoters from methylation, only a limited number of methylation barriers have been identified. In this study, we conducted an integrated computational and experimental investigation of colorectal cancer methylomes...
April 22, 2024: Nucleic Acids Research
#9
JOURNAL ARTICLE
Zhichu Xiang, Jianhua Lu, Shangrui Rao, Chenxing Fu, Yuying Yao, Yongdong Yi, Yang Ming, Weijian Sun, Weisheng Guo, Xiaoyuan Chen
Background: Neoantigen nanovaccine has been recognized as a promising treatment modality for personalized cancer immunotherapy. However, most current nanovaccines are carrier-dependent and the manufacturing process is complicated, resulting in potential safety concerns and suboptimal codelivery of neoantigens and adjuvants to antigen-presenting cells (APCs). Methods: Here we report a facile and general methodology for nanoassembly of peptide and oligonucleotide by programming neoantigen peptide with a short cationic module at N-terminus to prepare nanovaccine...
2024: Theranostics
#10
John T González, Kyra Thrush, Margarita Meer, Morgan E Levine, Albert T Higgins-Chen
Studies of the aging transcriptome focus on genes that change with age. But what can we learn from age-invariant genes-those that remain unchanged throughout the aging process? These genes also have a practical application: they serve as reference genes (often called housekeeping genes) in expression studies. Reference genes have mostly been identified and validated in young organisms, and no systematic investigation has been done across the lifespan. Here, we build upon a common pipeline for identifying reference genes in RNA-seq datasets to identify age-invariant genes across seventeen C57BL/6 mouse tissues (brain, lung, bone marrow, muscle, white blood cells, heart, small intestine, kidney, liver, pancreas, skin, brown, gonadal, marrow, and subcutaneous adipose tissue) spanning 1 to 21+ months of age...
April 13, 2024: bioRxiv
#11
Liuhan Dai, Alexander Johnson-Buck, Peter W Laird, Muneesh Tewari, Nils G Walter
The most well-studied epigenetic marker in humans is the 5-methyl modification of cytosine in DNA, which has great potential as a disease biomarker in liquid biopsies of cell-free DNA. Currently, quantification of DNA methylation relies heavily on bisulfite conversion followed by PCR amplification and NGS or microarray analysis. PCR is subject to potential bias in differential amplification of bisulfite-converted methylated versus unmethylated sequences. Here, we combine bisulfite conversion with single-molecule kinetic fingerprinting to develop an amplification-free assay for DNA methylation at the branched-chain amino acid transaminase 1 (BCAT1) promoter...
April 10, 2024: bioRxiv
#12
David Martino, Nikki Schultz, Ravinder Kaur, Simon D Haren, Nina Kresoje, Annmarie Hoch, Joann Diray-Arce, Jessica Lasky Su, Ofer Levy, Michael Pichichero
Background Infants with frequent viral and bacterial respiratory infections exhibit compromised immunity to routine immunisations. They are also more likely to develop chronic respiratory diseases in later childhood. This study investigated the feasibility of epigenetic profiling to reveal endotype-specific molecular pathways with potential for early identification and immuno-modulation. Peripharal immune cells from respiratory infection allergy/asthma prone (IAP) infants were retrospectively selected for genome-wide DNA methylation and single nucleotide polymorphism analysis...
April 3, 2024: Research Square
#13
JOURNAL ARTICLE
Sebastiaan P van Doornik, Marlotte B M Pijnenburg, Krista I Janssen, Yijin Ren, Anne Marie Kuijpers-Jagtman
BACKGROUND: External apical root resorption (EARR) is a frequently observed adverse event in patients undergoing fixed appliance therapy. Assessing the patients' risk during treatment is important, as certain factors are assumed to be associated with an increased likelihood of occurrence. However, their predictive value remains limited, making evidence-based clinical decision-making challenging for orthodontists. To address this issue, the Dutch Association of Orthodontists (NvVO) developed a clinical practice guideline (CPG) for EARR in accordance with the AGREE II instrument (Appraisal of Guidelines for Research and Evaluation II) in 2018...
April 22, 2024: Progress in Orthodontics
#14
JOURNAL ARTICLE
Yuriko Ozeki, Akira Yokoyama, Akihito Nishiyama, Yutaka Yoshida, Yukiko Ohara, Tsukasa Mashima, Chikako Tomiyama, Amina K Shaban, Atsuki Takeishi, Mayuko Osada-Oka, Takehiro Yamaguchi, Yoshitaka Tateishi, Jun-Ichi Maeyama, Mariko Hakamata, Hiroshi Moro, Toshiaki Kikuchi, Daisuke Hayashi, Fumiko Suzuki, Toshiko Yamamoto, Sumiko Iho, Masato Katahira, Saburo Yamamoto, Sohkichi Matsumoto
Tuberculosis remains a large health threat, despite the availability of the tuberculosis vaccine, BCG. As BCG efficacy gradually decreases from adolescence, BCG-Prime and antigen-booster may be an efficient strategy to confer vaccine efficacy. Mycobacterial DNA-binding protein 1 (MDP1, namely Rv2986c, hupB or HU) is a major Mycobacterium tuberculosis protein that induces vaccine-efficacy by co-administration with CpG DNA. To produce MDP1 for booster-vaccine use, we have created recombinant MDP1 produced in both Escherichia coli (eMDP1) and Mycolicibacterium smegmatis (mMDP1), an avirulent rapid-growing mycobacteria...
April 21, 2024: Scientific Reports
#15
JOURNAL ARTICLE
Katarina Mandić, Nina Milutin Gašperov, Ksenija Božinović, Emil Dediol, Jure Krasić, Nino Sinčić, Magdalena Grce, Ivan Sabol, Anja Barešić
Head and neck cancer is the sixth most common malignancy worldwide, with the relatively low 5-year survival rate, mainly because it is diagnosed at a late stage. Infection with HPV is a well known aetiology, which affects the nature of these cancers and patients' survival. Besides, it is considered that the main driving force for this type of cancer could be epigenetics. In this study we aimed to find potential epigenetic biomarkers, by integrating miRNome, methylome, and transcriptome analyses. From the fresh head and neck cancer tissue samples, we chose a group for miRNome, methylome and transcriptome profiling, in comparison to adequate control samples...
April 20, 2024: Scientific Reports
#16
JOURNAL ARTICLE
Ting Geng, Qigang Sun, Jingliang He, Yulu Chen, Wenhao Cheng, Jing Shen, Bin Liu, Meiqi Zhang, Sen Wang, Kadirya Asan, Mengwei Song, Qi Gao, Yizhuo Song, Ruotong Liu, Xing Liu, Yuanyuan Ding, Aixin Jing, Xiaoqing Ye, Hongyu Ren, Kaile Zeng, Ying Zhou, Boyu Zhang, Shaojie Ma, Wei Liu, Shunfang Liu, Jing Ji
CXXC5, a zinc-finger protein, is known for its role in epigenetic regulation via binding to unmethylated CpG islands in gene promoters. As a transcription factor and epigenetic regulator, CXXC5 modulates various signaling processes and acts as a key coordinator. Altered expression or activity of CXXC5 has been linked to various pathological conditions, including tumorigenesis. Despite its known role in cancer, CXXC5's function and mechanism in ovarian cancer are unclear. We analyzed multiple public databases and found that CXXC5 is highly expressed in ovarian cancer, with high expression correlating with poor patient prognosis...
April 18, 2024: Cellular Signalling
#17
JOURNAL ARTICLE
Jia-Wen Li, Zheng-Kai Shen, Yu-Shuang Lin, Zhi-Yue Wang, Mei-Lin Li, Hui-Xian Sun, Quan Wang, Can Zhao, Jin-Shui Xu, Xiang Lu, Wei Gao
BACKGROUND: Sarcopenia is characterized by progressive loss of muscle mass and function due to aging. DNA methylation has been identified to play important roles in the dysfunction of skeletal muscle. The aim of our present study was to explore the whole blood sample-based methylation changes of skeletal muscle function-related factors in patients with sarcopenia. METHODS: The overall DNA methylation levels were analysed by using MethlTarget™ DNA Methylation Analysis platform in a discovery set consistent of 50 sarcopenic older adults (aged ≥65 years) and 50 age- and sex-matched non-sarcopenic individuals...
April 20, 2024: Journal of Cachexia, Sarcopenia and Muscle
#18
JOURNAL ARTICLE
Marghuretta D Bland, Jennifer L Moore, Elizabeth Anderl, Megan Eikenberry, Arlene McCarthy, Geneviève N Olivier, Tracy Rice, Amelia Siles, Hallie Zeleznik, Wendy Romney
BACKGROUND: As part of the 2018 Clinical Practice Guideline (CPG): A Core Set of Outcome Measures for Adults with Neurologic Conditions Undergoing Rehabilitation, a Knowledge Translation (KT) Task Force was convened. The purpose of this short report was to (1) demonstrate the potential impact of a CPG KT Task Force through a practical example of efforts to implement a CPG into neurologic physical therapy practice and (2) describe the process to convene a KT Task Force and develop products (KT Toolkit) to facilitate implementation of the CPG...
April 19, 2024: Implementation science communications
#19
JOURNAL ARTICLE
Martina Gyimesi, Lotta E Oikari, Chieh Yu, Heidi G Sutherland, Dale R Nyholt, Lyn R Griffiths, Andre J Van Wijnen, Rachel K Okolicsanyi, Larisa M Haupt
Stem cell therapies hold promise in addressing the burden of neurodegenerative diseases with human embryonic neural stem cells (hNSC-H9s) and bone marrow-derived human mesenchymal stem cells (hMSCs) as viable candidates. The induction of hMSC neurospheres (hMSC-IN) generate a more lineage-restricted common neural progenitor-like cell population, potentially tunable by heparan sulfate proteoglycans (HSPGs). We examined CpG (5mC) site methylation patterns using Illumina Infinium 850K EPIC arrays in hNSC-H9, hMSCs and hMSC-IN cultures with HSPG agonist heparin at early and late phases of growth...
April 17, 2024: Biochimie
#20
JOURNAL ARTICLE
Zaka Wing-Sze Yuen, Somasundhari Shanmuganandam, Maurice Stanley, Simon Jiang, Nadine Hein, Runa Daniel, Dennis McNevin, Cameron Jack, Eduardo Eyras
DNA methylation plays essential roles in regulating physiological processes, from tissue and organ development to gene expression and aging processes and has emerged as a widely used biomarker for the identification of body fluids and age prediction. Currently, methylation markers are targeted independently at specific CpG sites as part of a multiplexed assay rather than through a unified assay. Methylation detection is also dependent on divergent methodologies, ranging from enzyme digestion and affinity enrichment to bisulfite treatment, alongside various technologies for high-throughput profiling, including microarray and sequencing...
April 15, 2024: Forensic Science International. Genetics
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