A5079620688- Gene Regulatory Network Analysis
- Bioinformatics and Genomic Networks
- Gut microbiota and health
- Microbial Metabolic Engineering and Bioproduction
- Cancer-related molecular mechanisms research
- Gene expression and cancer classification
- Cancer Cells and Metastasis
- Diet and metabolism studies
- Infant Nutrition and Health
- MicroRNA in disease regulation
- Digestive system and related health
- RNA modifications and cancer
- Computational Drug Discovery Methods
- Genomics and Phylogenetic Studies
- Evolution and Genetic Dynamics
- Molecular Biology Techniques and Applications
- Inflammatory mediators and NSAID effects
- Cancer, Lipids, and Metabolism
- Probiotics and Fermented Foods
- Epigenetics and DNA Methylation
- Single-cell and spatial transcriptomics
- Metabolism, Diabetes, and Cancer
- Circular RNAs in diseases
- Clostridium difficile and Clostridium perfringens research
- Cancer, Hypoxia, and Metabolism
Texas A&M University
2015-2024
Mitchell Institute
2012-2024
Center for Environmental Health
2009-2023
National Center of Infectious and Parasitic Diseases
2019-2023
University of Warwick
2018
College Station Medical Center
2016
Translational Genomics Research Institute
2010-2012
Cambridge University Press
2011
New York University Press
2011
University of South Florida
2010
Antimicrobial resistance (AMR) is a serious threat to global public health, but obtaining representative data on AMR for healthy human populations difficult. Here, we use metagenomic analysis of untreated sewage characterize the bacterial resistome from 79 sites in 60 countries. We find systematic differences abundance and diversity genes between Europe/North-America/Oceania Africa/Asia/South-America. taxonomy only explains minor part variation that observe. no evidence cross-selection...
Background Recent molecular studies have revealed a highly complex bacterial assembly in the canine intestinal tract. There is mounting evidence that microbes play an important role pathogenesis of acute and chronic enteropathies dogs, including idiopathic inflammatory bowel disease (IBD). The aim this study was to characterize microbiota dogs with various gastrointestinal disorders. Methodology/Principal Findings Fecal samples from healthy (n = 32), non-hemorrhagic diarrhea (NHD; n 12),...
Gut microbiota and the host exist in a mutualistic relationship, with functional composition of strongly affecting health well-being host. Thus, it is important to develop synthetic approach study transcriptome microbiome simultaneously. Early microbial colonization infants critically for directing neonatal intestinal immune development, especially attractive studying development human-commensal interactions. Here we report results from simultaneous gut epithelial three-month-old exclusively...
ABSTRACT Objectives: This study tested the hypothesis that fecal bacterial genera of breast‐fed (BF) and formula‐fed (FF) infants differ human milk oligosaccharides (HMOs) modulate microbiota BF infants. Methods: Fecal samples were obtained from (n = 16) or FF 6) at 3‐month postpartum. Human collected on same day when feces collected. The was assessed by pyrosequencing 16S ribosomal RNA genes. HMOs measured high‐performance liquid chromatography–chip time‐of‐flight mass spectrometry....
Abstract Antimicrobial resistance (AMR) is a major threat to global health. Understanding the emergence, evolution, and transmission of individual antibiotic genes (ARGs) essential develop sustainable strategies combatting this threat. Here, we use metagenomic sequencing analyse ARGs in 757 sewage samples from 243 cities 101 countries, collected 2016 2019. We find regional patterns resistomes, these differ between subsets corresponding drug classes are partly driven by taxonomic variation....
We have hypothesized that dietary modulation of intestinal non-coding RNA [microRNA (miRNA)] expression may contribute to the chemoprotective effects nutritional bioactives (fish oil and pectin). To fully understand these agents on miRNAs, Sprague–Dawley rats were fed diets containing corn or fish with pectin cellulose injected azoxymethane (AOM, a colon-specific carcinogen) saline (control). Real-time polymerase chain reaction using miRNA-specific primers Taq Man™ probes was carried out...
Motivation: Dynamical modeling of gene regulation via network models constitutes a key problem for genomics. The long-run characteristics dynamical system are critical and their determination is primary aspect analysis. In the other direction, synthesis involves constructing possessing given set properties. This inverse problem. Generally, ill-posed, meaning there will be many networks, or perhaps none, desired Relative to behavior, we may wish construct networks desirable steady-state...
With the increasing use of nanomaterials incorporated into consumer products, there is a need for developing approaches to establish "quantitative structure-activity relationships" (QSARs). These relationships could be used predict various biological responses after exposure purposes risk analysis. This analysis applicable manufacturers in an effort determine potential hazards. Because metal oxide materials are some most widely and studied nanoparticle types incorporation cosmetics, food...
Scope Tannin‐rich fruits have been evaluated as alternative prevention strategies for colorectal cancer based on their anti‐inflammatory properties. This study compared tannin‐rich preparations from mango (rich in gallotannins) and pomegranate ellagitannins) the dextran sodium sulfate‐induced colitis model. Methods results In rats, beverages decreased intestinal inflammation levels of pro‐inflammatory cytokines mucosa serum. The beverage suppressed ratio phosphorylated/total protein...
Abstract The rapid development of megacities, and their growing connectedness across the world is becoming a distinct driver for emerging disease outbreaks. Early detection unusual emergence spread should therefore include such cities as part risk-based surveillance. A catch-all metagenomic sequencing approach urban sewage could potentially provide an unbiased insight into dynamics viral pathogens circulating in community irrespective access to care, potential which already has been proven...
Abstract Motivation: We have hypothesized that the construction of transcriptional regulatory networks using a method optimizes connectivity would lead to regulation consistent with biological expectations. A key expectation is hypothetical should produce few, very strong attractors, highly similar original observations, mimicking state stability and determinism. Another central that, since it expected control distributed mutually reinforcing, interpretation observations small number...
We have developed a novel molecular methodology that utilizes stool samples containing intact sloughed epithelial cells to quantify intestinal gene expression profiles in the developing human neonate. Since nutrition exerts major role regulating neonatal development and function, our goal was identify sets (combinations) are differentially regulated response infant feeding. For this purpose, fecal mRNA isolated from exclusively breast-fed (n = 12) formula-fed 10) infants at 3 mo of age....
We have recently demonstrated that nutritional bioactives (fish oil and pectin) modulate microRNA molecular switches in the colon. Since integrated analysis of mRNA expression at an early stage colon cancer development is lacking, this study, four computational approaches were utilized to test hypothesis microRNAs their posttranscriptionally regulated targets, i.e., both total mRNAs actively translated transcripts, are differentially modulated by carcinogen diet treatment. Sprague-Dawley...
Early diagnosis of risks heart disease can be critical to fight cardiovascular diseases (CVD) associated with obesity and diabetes for the implementation nutritional interventions. The objective this study was investigate cardioprotective effects red raspberry consumption in obese diabetic (db/db) mice using proteomic analysis as a tool. Hearts harvested from db/db fed an isocaloric diet (AIN-93G, control group) or AIN-93G supplemented freeze-dried (raspberry eight weeks were analyzed...
The digestive tract of mammals and other animals is colonized by trillions metabolically-active microorganisms. Changes in the gut microbiota have been associated with obesity both humans laboratory animals. Dietary modifications can often modulate obese microbial ecosystem towards a more healthy state. This phenomenon should preferably be studied using dietary ingredients that are relevant to human nutrition. study was designed evaluate influence whole-wheat, food ingredient several...
Abstract The mutational genetic landscape of colorectal cancer has been extensively characterized; however, the ability “cooperation response genes” to modulate function “driver” genes remains largely unknown. In this study, we investigate role aryl hydrocarbon receptor (AhR), a ligand-activated transcription factor, in modulating oncogenic cues colon. We show that intestinal epithelial cell–targeted AhR knockout (KO) promotes expansion and clonogenic capacity colonic stem/progenitor cells...
Both fish oil (FO) and curcumin have potential as anti-tumour anti-inflammatory agents. To further explore their combined effects on dextran sodium sulphate (DSS)-induced colitis, C57BL/6 mice were randomised to four diets (2 × 2 design) differing in fatty acid content with or without supplementation (FO, FO+2 % curcumin, maize (control, MO) MO+2 curcumin). Mice exposed one two cycles of DSS the drinking-water induce either acute chronic intestinal inflammation, respectively. FO-fed...
Significant developments have taken place over the past few years in area of vehicular communication systems ITS environment.It is vital that, these environments, security considered design and implementation since compromised vulnerabilities one vehicle can be propagated to other vehicles, especially given that V2X through an ad-hoc type network.Recently, many standardisation organisations been working on creating international standards related so-called Internet Vehicles (IoV).This paper...
Among all racial/ethnic groups, people who identify as African American/Blacks have the second highest colorectal cancer (CRC) incidence in USA. This disparity may exist because American/Blacks, compared to other a higher prevalence of risk factors for CRC, including obesity, low fiber consumption, and intakes fat animal protein. One unexplored, underlying mechanism this relationship is bile acid-gut microbiome axis. High saturated fat, diets, obesity lead increases tumor promoting secondary...
The state and development of the intestinal epithelium is vital for infant health, increased understanding in this area has been limited by an inability to directly assess epithelial cell biology healthy newborn intestine. To that end, we have developed a novel, noninvasive, molecular approach utilizes next generation RNA sequencing on stool samples containing intact cells purpose quantifying gene expression. We then applied technique compare host expression term extremely preterm infants....