One important factor that contributes to human cancers is accumulated damage to cells' DNA due to the oxidative stress caused by free radicals. In this study, the authors investigate the effects of several different tea leaf extracts on oxidative stress in cultured human prostate cells to see if antioxidants in the tea leaves could help protect cells from this type of DNA damage. They found that all four types of tea extract (as well as direct application of the antioxidant EGCG) improved the outcomes for the cultured cells, with white tea extract having the strongest effect. This research suggests that tea extracts and the antioxidants that they contain may have applications in the treatment of the many diseases associated with cellular DNA damage, including cancer.
In order to determine whether unmarked soybeans in the market were genetically modified crops, the authors developed a polymerase chain reaction (PCR) screen for DNA lectin.
The sequence of nitrogenous bases that make up the DNA of organisms can contain hidden mathematical sequences. Here the authors used BioPython, a programming tool, to find an organism that displays Gijswijt’s Sequence in its genome. In this manner they found that the common carp best displays Gijswijt’s Sequence in its genome.
Recent declines in the brook trout population of the Lake Champlain Basin have made the genetic screening of this and other trout species of utmost importance. In this study, the authors collected and analyzed 21 DNA samples from Lake Champlain Basin trout populations and performed a phylogenetic analysis on these samples using the cytochrome b gene. The findings presented in this study may influence future habitat decisions in this region.
The authors found that treatment with AS20 suppressed phorbol 12-myristate 13-acetate (PMA) and 5-flurouracil (5-FU) induction of COX2 expression. We also observed AS20 treated cells showed DNA fragmentation in HeLa cells.
Advancement in DNA sequencing technology has greatly increased our understanding about the role of bacteria in soil. The authors of this study examine the microbial content of soil samples taken from three locations in southern New Hampshire with varying pH and plant composition.
With climate change and rising sea levels, south Brooklyn is exposed to massive flooding and intense precipitation. Previous research discovered that flooding shifts plant species distribution, decreases soil pH, and increases salt concentration, nitrogen, phosphorus, and potassium levels. The authors predicted a decreasing trend from Zone 1 to 6: high-pH, high-salt, and high-nutrients in more flood-prone areas to low-pH, low-salt, and low-nutrient in less flood-prone regions. They performed DNA barcoding to identify plant species inhabiting flood zones with expectations of decreasing salt tolerance and moisture uptake by plants' soil from Zones 1-6. Furthermore, they predicted an increase in invasive species, ultimately resulting in a decrease in biodiversity. After barcoding, they researched existing information regarding invasiveness, ideal soil, pH tolerance, and salt tolerance. They performed soil analyses to identify pH, nitrogen (N), phosphorus (P), and potassium (K) levels. For N and P levels, we discovered a general decreasing trend from Zone 1 to 6 with low and moderate statistical significance respectively. Previous studies found that soil moisture can increase N and P uptake, helping plants adopt efficient resource-use strategies and reduce water stress from flooding. Although characteristics of plants were distributed throughout all zones, demonstrating overall diversity, the soil analyses hinted at the possibility of a rising trend of plants adapting to the increase in flooding. Future expansive research is needed to comprehensively map these trends. Ultimately, investigating trends between flood zones and the prevalence of different species will assist in guiding solutions to weathering climate change and protecting biodiversity in Brooklyn.
The authors looked at biomarkers in glioblastoma patients they hypothesized to be correlated with survival rate. Ultimately they did not find hMSH2 or hMSH6, genes involved in mismatch repair, to be significantly associated with outcomes related to increased survival.
Berberine is a natural product isoquinoline alkaloid derived from plants of the genus Berberis. When exposed to photoirradiation, it produces singlet oxygen through photosensitization of triplet oxygen. Through qNMR analysis of 1H NMR spectra gathered through kinetic experiments, we were able to track the generation of a product between singlet oxygen and alpha terpinene, allowing us to quantitatively measure the photosensitizing properties of our scaffolds.
Glioblastoma Multiforme (GBM) is the most malignant brain tumor with the highest fraction of genome alterations (FGA), manifesting poor disease-free status (DFS) and overall survival (OS). We explored The Cancer Genome Atlas (TCGA) and cBioportal public dataset- Firehose legacy GBM to study DNA repair genes Activating Signal Cointegrator 1 Complex Subunit 3 (ASCC3) and Alpha-Ketoglutarate-Dependent Dioxygenase AlkB Homolog 3 (ALKBH3). To test our hypothesis that these genes have correlations with FGA and can better determine prognosis and survival, we sorted the dataset to arrive at 254 patients. Analyzing using RStudio, both ASCC3 and ALKBH3 demonstrated hypomethylation in 82.3% and 61.8% of patients, respectively. Interestingly, low mRNA expression was observed in both these genes. We further conducted correlation tests between both methylation and mRNA expression of these genes with FGA. ASCC3 was found to be negatively correlated, while ALKBH3 was found to be positively correlated, potentially indicating contrasting dysregulation of these two genes. Prognostic analysis showed the following: ASCC3 hypomethylation is significant with DFS and high ASCC3 mRNA expression to be significant with OS, demonstrating ASCC3’s potential as disease prediction marker.
