A5071880594- Telomeres, Telomerase, and Senescence
- RNA Research and Splicing
- MicroRNA in disease regulation
- RNA modifications and cancer
- RNA Interference and Gene Delivery
- RNA and protein synthesis mechanisms
- Extracellular vesicles in disease
- Cancer-related molecular mechanisms research
- Single-cell and spatial transcriptomics
- Genetics, Aging, and Longevity in Model Organisms
- CAR-T cell therapy research
- CRISPR and Genetic Engineering
- Circular RNAs in diseases
- Gene expression and cancer classification
- Xenotransplantation and immune response
- Chromosomal and Genetic Variations
- Reproductive Biology and Fertility
- Genetics, Bioinformatics, and Biomedical Research
- Molecular Biology Techniques and Applications
- Viral Infectious Diseases and Gene Expression in Insects
- Streptococcal Infections and Treatments
- Neuroendocrine regulation and behavior
- Amoebic Infections and Treatments
- Inflammasome and immune disorders
- Cell Image Analysis Techniques
Cincinnati Children's Hospital Medical Center
2022-2025
University of Michigan
2018-2023
Michigan United
2023
University of Louisville
2016-2022
Southwestern Medical Center
2014-2022
The University of Texas Southwestern Medical Center
2014-2022
Washtenaw Community College
2018
University of Louisville Hospital
2018
Highlights•Plant exosome-like nanoparticles (ELNs) are taken up by gut bacteria•The lipid composition of ELNs determines uptake specific bacteria•ELN RNAs affect bacterial genes, notably affecting Lactobacillus production I3A•ELN-mediated I3A alterations IL-22 production, resulting in ameliorated colitisSummaryThe microbiota can be altered dietary interventions to prevent and treat various diseases. However, the mechanisms which food products modulate commensals remain largely unknown. We...
Lung inflammation is a hallmark of coronavirus disease 2019 (COVID-19). In this study, we show that mice develop inflamed lung tissue after being administered exosomes released from the epithelial cells exposed to severe acute respiratory syndrome 2 (SARS-CoV-2) Nsp12 and Nsp13 (exosomesNsp12Nsp13). Mechanistically, exosomesNsp12Nsp13 are taken up by macrophages, leading activation nuclear factor κB (NF-κB) subsequent induction an array inflammatory cytokines. Induction tumor necrosis...
Plant exosomes protect plants against infection; however, whether edible plant can mammalian hosts infection is not known. In this study, we show that ginger exosome-like nanoparticles (GELNs) are selectively taken up by the periodontal pathogen Porphyromonas gingivalis in a GELN phosphatidic acid (PA) dependent manner via interactions with hemin-binding protein 35 (HBP35) on surface of P. gingivalis. Compared PA (34:2), (34:1) did interact HBP35, indicating degree unsaturation plays...
The telomere repeat amplification protocol (TRAP) for the human reverse transcriptase, telomerase, is a PCR-based assay developed two decades ago and still used routine determination of telomerase activity. TRAP can only reproducibly detect ∼2-fold differences quantitative when compared to internal standards reference cell lines. method generally involves laborious radioactive gel electrophoresis not conducive high-throughput analyzes. Recently droplet digital PCR (ddPCR) technologies have...
Diet and bile play critical roles in shaping gut microbiota, but the molecular mechanism underlying interplay with intestinal microbiota is unclear. Here, we showed that lemon-derived exosome-like nanoparticles (LELNs) enhance lactobacilli toleration to bile. To decipher mechanism, used Lactobacillus rhamnosus GG (LGG) as proof of concept show LELNs LGG resistance via limiting production Msp1 Msp3, resulting decrease accessibility cell membrane. Furthermore, found decline Msps protein levels...
Alternative splicing is dysregulated in cancer and the reactivation of telomerase involves TERT transcripts to produce full-length (FL) TERT. Knowledge about factors that enhance or silence FL hTERT lacking. We identified reduced activity shortened telomeres using a siRNA minigene reporter screen lung cell bioinformatics approach. A lead candidate, NOVA1, when knocked down resulted shift non-catalytic isoforms, activity, progressive telomere shortening. NOVA1 knockdown also significantly...
Alternative splicing is dysregulated in cancer cells, driving the production of isoforms that allow tumor cells to survive and continuously proliferate. Part reactivation telomerase involves hTERT transcripts produce full-length (FL) TERT. Very few factors date have been described interact with promote FL We recently one such factor, NOVA1, acts as an enhancer splicing, increases activity, promotes telomere maintenance cells. NOVA1 expressed primarily neurons involved neurogenesis. In...
Background: Chronic arsenic exposure via drinking water is associated with an increased risk of developing cancer and noncancer chronic diseases. Pre-mRNAs are often subject to alternative splicing, generating mRNA isoforms encoding functionally distinct protein isoforms. The resulting imbalance in isoform species can result pathogenic changes critical signaling pathways. Alternative splicing as a mechanism arsenic-induced toxicity carcinogenicity understudied. Objective: This study aimed...
Abstract Background The thin descending limb (DTL) of the loop Henle is crucial for urine concentration, as it facilitates passive water reabsorption. Despite its importance, little known about how DTL cells form during kidney development. Single-cell RNA sequencing (scRNA-seq) studies have not definitively identified in developing mouse kidney. Methods We assembled a large scRNA-seq dataset by integrating multiple datasets non-mutant kidneys to identify cells. To test whether originate from...
MicroRNAs (miRNAs) are small non-coding RNAs that known for their role in the post-transcriptional regulation of target genes. Typically, functions predicted by first identifying genes and then finding biological processes enriched these targets. Current tools miRNA functional analysis use only with physical binding sites as targets exclude other indirectly targeted transcriptionally through transcription factors. Here, we introduce a method to predict gene ontology (GO) annotations...
Abstract Single-cell technology opened up a new avenue to delineate cellular status at single-cell resolution and has become an essential tool for studying human diseases. Multiplexing allows cost-effective experiments by combining multiple samples effectively mitigates batch effects. It starts giving each sample unique tag then pooling them together library preparation sequencing. After sequencing, demultiplexing is performed based on detection, where cells belonging one are expected have...
Part of the regulation telomerase activity includes alternative splicing (AS) catalytic subunit reverse transcriptase (TERT). Although a therapeutic window for telomerase/TERT inhibition exists between cancer cells and somatic cells, stem express TERT rely on physiological replacement cells. Therefore, identifying differences in is essential developing inhibition-based therapies that reduce damage to In this study, we measured splice variant expression induced pluripotent (iPSCs), neural...
The telomere repeat amplification protocol (TRAP) is the most widely used assay to detect telomerase activity within a given sample. polymerase chain reaction (PCR)-based method allows for robust measurements of enzyme from cell lysates. gel-based TRAP with fluorescently labeled primers limits sample throughput, and ability differences in samples restricted two fold or greater changes activity. droplet digital TRAP, ddTRAP, highly sensitive approach that has been modified traditional assay,...
This data article contains the proteomic and transcriptomic of amygdala adolescent rats involved in social play compared to non-behavioural animals. Social was performed on male Sprague Dawley postnatal day 38 protein gene expression determined following behavioural testing. The measured by analysing trypsin digested samples using a LTQ Orbitrap Velos mass spectrometer equipped with an Advion nanomate ESI source. obtained tandem spectra were extracted Thermo Proteome Discoverer 1.3 displayed...
Abstract MicroRNAs are small non-coding RNAs that known for their role in post-transcriptional regulation of target genes. Typically, functions predicted by first identifying genes and then finding biological processes enriched these targets. Current tools miRNA functional analysis use only with physical binding sites as targets exclude other indirectly targeted transcriptionally through transcription factors. Here, we introduce a method to predict gene ontology (GO) annotations microRNAs....
I1 Proceedings of the Fifteenth Annual UT- KBRIN Bioinformatics Summit 2016 Eric C. Rouchka, Julia H. Chariker, Benjamin J. Harrison, Juw Won Park P1 CC-PROMISE: Projection onto Most Interesting Statistical Evidence (PROMISE) with Canonical Correlation to integrate gene expression and methylation data multiple pharmacologic clinical endpoints Xueyuan Cao, Stanley Pounds, Susana Raimondi, James Downing, Raul Ribeiro, Jeffery Rubnitz, Jatinder Lamba P2 Integration microRNA-mRNA interaction...
Abstract Introduction: Chimeric antigen receptor T-cells (CAR T-cells) and in general, remain a quiescent state when unstimulated, showing no proliferative activity. In contrast, upon specific antigenic stimulation, CAR rapidly divide kill their target cancer cells. However, one of the immunologic changes with aging is progressive impairment T-cell responses. This physiologic immunosenescence associated shortening telomeres. The telomerase enzyme transiently upregulated stimulated preventing...
The telomere repeat amplification protocol (TRAP) is the most widely used assay to detect telomerase activity within a given sample. polymerase chain reaction (PCR)-based method allows for robust measurements of enzyme from cell lysates. gel-based TRAP with fluorescently labeled primers limits sample throughput, and ability differences in samples restricted two fold or greater changes activity. droplet digital TRAP, ddTRAP, highly sensitive approach that has been modified traditional assay,...
Over the past two decades, researchers have shown an increasing interest in a special form of alternative splicing (AS) that produces circular RNA distinct from canonical linear RNA. Although several detection tools been developed, achieving both high sensitivity and precision has quite challenging this area. Homologous coding sequences (exons) same transcript can lead to incorrect assignment read back-splicing junction instead linear-splicing junction, producing source false-positives...
ABSTRACT Human telomerase functions in maintaining genome stability by adding telomeric repeats to the termini of linear chromosomes. Past studies have revealed profound insights into functions. However, low abundance functional and difficulty quantifying its activity leave partially characterized thermodynamic kinetic properties. Using a newly developed method count individual extension products, we demonstrate that human holoenzymes contain fast- slow-acting catalytic sites. Surprisingly,...