Epigenetic Research Papers 2/19/24 - 2/23/24

Song Y et. al. (February 2024). Biphasic regulation of epigenetic state by matrix stiffness during cell reprogramming Sci Adv. 10(7):eadk0639.
The study examines how matrix stiffness impacts chromatin reorganization and cell reprogramming, revealing a biphasic effect where an intermediate stiffness of 20 kPa maximizes the efficiency of fibroblast-to-neuron conversion and histone acetylation. Matrix stiffness influences the nuclear transport of histone acetyltransferase (HAT) through changes in G-actin, cofilin, and importin-9 levels, highlighting a mechanistic link between mechanical cues and epigenetic regulation with implications for cell engineering and regenerative medicine.
Products Used: EpiQuik Nuclear Extraction Kit, MethylFlash Global DNA Methylation (5-mC) ELISA Easy Kit (Colorimetric), EpiQuik HAT Activity/Inhibition Assay Kit, Epigenase HDAC Activity/Inhibition Direct Assay Kit (Colorimetric)

Song Y et. al. (February 2024). A loss-of-function variant in ZCWPW1 causes human male infertility with sperm head defect and high DNA fragmentation Reprod Health. 21(1):18.
This study identifies a novel homozygous missense mutation in ZCWPW1 associated with human male infertility, characterized by sperm head defects and high DNA fragmentation. This finding expands the understanding of the genetic variants underlying oligoasthenoteratozoospermia, highlighting the role of ZCWPW1 in human reproduction.
Products Used: FitAmp Plasma/Serum DNA Isolation Kit

De Feo A et. al. (January 2024). CD99 Modulates the Proteomic Landscape of Ewing Sarcoma Cells and Related Extracellular Vesicles Int J Mol Sci. 25(3)
The study explores how CD99, a key surface molecule in Ewing sarcoma (EWS), affects the proteomic landscape of EWS cells and their extracellular vesicles (EVs). CD99 expression influences cell dissemination, differentiation, and death, and its silencing leads to significant changes in the proteomic profiles of EWS cells and EVs, impacting processes like cell migration and immune modulation. This research provides potential protein biomarkers associated with CD99 that could be further validated for their role in EWS malignancy and as disease markers.
Products Used: XAGE1A Polyclonal Antibody

Schaack B et. al. (February 2024). Rapid Biodistribution of Fluorescent Outer-Membrane Vesicles from the Intestine to Distant Organs via the Blood in Mice Int J Mol Sci. 25(3)
The article investigates the rapid biodistribution of fluorescent outer membrane vesicles (OMVs) from the intestine to distant organs via the blood in mice. OMVs are specific types of extracellular vesicles produced by Gram-negative bacteria, and their ability to travel from the intestine to other organs suggests a potential means of communication between the microbiota and the host. The study uses a fluorescent protein to track the movement of OMVs and demonstrates their stability in circulation for up to 3 days, highlighting their potential role in microbiota-host communication.
Products Used: ompA Polyclonal Antibody

Ramasamy D et. al. (February 2024). Transcriptome-wide profiling identifies colon cancer-associated m6A transcripts and potential RNA methyl modifiers Mol Biol Rep. 51(1):299.
The study examines the distribution of N6-methyladenosine (m6A) RNA methylation modifications across altered gene expression in colon cancer using MeRIP sequencing. Results show that m6A levels in colon cancer are associated with specific m6A modifiers, and differential methylation analysis reveals enrichment in last exonic regions and 3' untranslated regions of mRNA transcripts. The study highlights the potential role of m6A in post-transcriptional events and emphasizes the importance of further research in understanding its role in colon cancer.
Products Used: EpiQuik m6A RNA Methylation Quantification Kit (Colorimetric)

Cong X et. al. (February 2024). HIF-1α/m6A/NF-κB/CCL3 axis-mediated immunosurveillance participates in low level benzene-related erythrohematopoietic development toxicity Environ Int. 184:108493.
This article explores the immunosurveillance mechanisms involved in low-level benzene-related erythrohematopoietic toxicity. Using multiple omics and experimental approaches, the study shows that benzene exposure affects erythropoiesis through the HIF-1α/m6A/NF-κB/CCL3 axis, leading to DNA damage, senescence, and apoptosis in bone marrow cells and hematopoietic stem cells. The findings suggest potential therapeutic targets for preventing benzene-associated anemia and leukemia
Products Used: EpiQuik m6A RNA Methylation Quantification Kit (Colorimetric)

Zhang Y et. al. (February 2024). Exposure to bisphenol A affects transcriptome-wide N6-methyladenine methylation in ovarian granulosa cells Ecotoxicol Environ Saf. 272:116071.
This study investigates the effects of bisphenol A (BPA) exposure on transcriptome-wide N6-methyladenine (m6A) methylation in ovarian granulosa cells. After exposing granulosa cells to BPA, significant differences were observed in RNA methylation-related regulatory genes (METTL3, METTL14, ALKBH5, FTO) and global m6A levels. MERIP-seq analysis revealed 1595 differentially methylated mRNA transcripts and 50 differentially methylated lncRNA transcripts, suggesting a potential role for m6A modification in BPA's interference with female reproductive health.
Products Used: EpiQuik m6A RNA Methylation Quantification Kit (Colorimetric)

Xiong YW et. al. (February 2024). Multigenerational paternal obesity enhances the susceptibility to male subfertility in offspring via Wt1 N6-methyladenosine modification Nat Commun. 15(1):1353.
This study examines the effects of multigenerational paternal obesity on the susceptibility to male subfertility in offspring, focusing on the role of Wt1 N6-methyladenosine modification. The findings suggest that paternal obesity increases METTL3-mediated Wt1 N6-methyladenosine modification, leading to spermatogenesis disorders in offspring, which can be rescued by Wt1 gene therapy or METTL3 inhibition.
Products Used: EpiQuik m6A RNA Methylation Quantification Kit (Colorimetric)

Xu L et. al. (February 2024). Chromatin attachment to the nuclear matrix represses hypocotyl elongation in Arabidopsis thaliana Nat Commun. 15(1):1286.
The study investigates how the nuclear matrix influences epigenetic modifications and gene expression in plants, focusing on its role in regulating hypocotyl elongation in Arabidopsis thaliana. The researchers demonstrate that a nuclear matrix binding protein, AHL22, along with FRS7 and FRS12, represses the expression of SAUR genes by attaching them to the nuclear matrix, recruiting histone deacetylase HDA15 to remove H3 acetylation, and thus suppressing hypocotyl elongation.
Products Used: EpiQuik Total Histone Extraction Kit

Chaudhary V et. al. (February 2024). Global DNA Methylation Levels Viz-a-Viz Genetic and Biochemical Variations in One Carbon Metabolic Pathway: An Exploratory Study from North India Biochem Genet.
This article explores the relationship between global DNA methylation levels and genetic and biochemical markers related to the one carbon metabolic pathway (OCMP) in healthy North Indian adults. The findings indicate that the mutant MTRR A66G allele is positively associated with global DNA methylation levels, and the MTRR 66GG genotype group shows hypermethylation compared to other genotypes, particularly in folate replete and vitamin B12 deficient individuals, suggesting a potential selective advantage for the G allele in such conditions.
Products Used: MethylFlash Methylated DNA 5-mC Quantification Kit (Colorimetric)

Qian QH et. al. (February 2024). Gestational α-ketoglutarate supplementation ameliorates arsenic-induced hepatic lipid deposition via epigenetic reprogramming of β-oxidation process in female offspring Environ Int. 185:108488.
This study explores how gestational exposure to arsenic affects hepatic lipid deposition in female offspring and investigates the protective effects of α-ketoglutarate (α-KG) supplementation during gestation. It finds that arsenic exposure reduces α-KG levels in fetal livers, leading to hepatic lipid deposition in adulthood, especially in female offspring. However, α-KG supplementation during gestation partially restores the β-oxidation process, mitigating this effect and highlighting α-KG as a potential intervention to counteract arsenic-induced hepatic developmental toxicity.
Products Used: Epigenase 5mC-Hydroxylase TET Activity/Inhibition Assay Kit (Colorimetric)