A5044066644- RNA modifications and cancer
- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- Malaria Research and Control
- Trypanosoma species research and implications
- Plant Molecular Biology Research
- Genomics and Chromatin Dynamics
- Peptidase Inhibition and Analysis
- Fibroblast Growth Factor Research
- Epigenetics and DNA Methylation
- Cancer-related gene regulation
- Polyamine Metabolism and Applications
- Mosquito-borne diseases and control
- Cellular transport and secretion
- HIV Research and Treatment
- RNA Interference and Gene Delivery
- Invertebrate Immune Response Mechanisms
- Physiological and biochemical adaptations
- Genetics, Aging, and Longevity in Model Organisms
- Cannabis and Cannabinoid Research
- Machine Learning in Bioinformatics
- Fungal and yeast genetics research
- Nutrition, Genetics, and Disease
- Neurobiology and Insect Physiology Research
- Metabolomics and Mass Spectrometry Studies
University of Michigan
2015-2023
Ann Arbor Center for Independent Living
2022
University of Wisconsin–Madison
2011-2017
Princeton University
2008-2010
Igenbio (United States)
2009
Recent advances in high-throughput sequencing present a new opportunity to deeply probe an organism's transcriptome. In this study, we used Illumina-based massively parallel gain insight into the transcriptome (RNA-Seq) of human malaria parasite, Plasmodium falciparum. Using data collected at seven time points during intraerythrocytic developmental cycle, (i) detect novel gene transcripts; (ii) correct hundreds models; (iii) propose alternative splicing events; and (iv) predict 5' 3'...
Abstract Metabolites are active controllers of cellular physiology, but their role in complex behaviors is less clear. Here we report metabolic changes that occur during the transition between hunger and satiety Drosophila melanogaster . To analyze these data context fruit fly networks, developed Flyscape, an open-access tool. We show response to eating, profiles change quick, distinct ways heads bodies. Consumption a high sugar diet dulls behavioral differences fasted fed state, reshapes...
Polyamines are ubiquitous components of all living cells, and their depletion usually causes cytostasis, a strategy employed for treatment West African trypanosomiasis. To evaluate polyamine as an anti-malarial strategy, cytostasis caused by the co-inhibition <i>S</i>-adenosylmethionine decarboxylase/ornithine decarboxylase in <i>Plasmodium falciparum</i> was studied with comprehensive transcriptome, proteome, metabolome investigation. Highly synchronized cultures were sampled just before...
Abstract Proteins bind and control mRNAs, directing their localization, translation stability. Members of the PUF family RNA-binding proteins multiple mRNAs in a single cell, play key roles development, stem cell maintenance memory formation. Here we identified mRNA targets S. cerevisiae protein, Puf5p, by ultraviolet-crosslinking-affinity purification high-throughput sequencing (HITS-CLIP). The binding sites recognized Puf5p are diverse, with variable spacer lengths between two specific...
The genome of the malaria parasite Plasmodium falciparum contains several multicopy gene families, including var, rifin, stevor and Pfmc-2TM. These families undergo expression switching appear to play a role in antigenic variation. It has recently been shown that forcing parasites express high copy numbers transcriptionally active, episomal var promoters led gradual downregulation eventual silencing entire family, suggesting limiting titratable factor plays activation. Through similar...
Significance Regulatory networks change during evolution. A protein that controls many genes in one species may control a different set of another. We examined how mRNA evolve, focusing on the PUF (Pumilio and FBF) family RNA-binding proteins. These govern stability translation hundreds mRNAs enable coordinate regulation discrete biological outcomes. To understand RNA we used knowledge specificity each to predict its targets directly identified bound divergent fungi via biochemical methods....
A single protein can bind and regulate many mRNAs. Multiple proteins with similar specificities often control overlapping sets of Yet little is known about the architecture or dynamics overlapped networks. We focused on three structures related RNA-binding specificities-Puf3p, Puf4p, Puf5p S. cerevisiae Using RNA Tagging, we identified a "super-network" comprised four subnetworks: Puf3p, subnetworks, one controlled by both Puf4p Puf5p. The individual thus super-network, determined...
Diet profoundly influences brain physiology, but how metabolic information is transmuted into neural activity and behavior changes remains elusive. Here, we show that the enzyme O-GlcNAc Transferase (OGT) moonlights on chromatin of D. melanogaster gustatory neurons to instruct in accessibility transcription underlie sensory adaptations a high-sugar diet. OGT works synergistically with Mitogen Activated Kinase/Extracellular signal Regulated Kinase (MAPK/ERK) rolled its effector stripe (also...
ABSTRACT A single protein can bind and regulate many mRNAs. Multiple proteins with similar specificities often control overlapping sets of Yet, little is known about the architecture or dynamics overlapped networks. We focused on three structures related RNA-binding – Puf3p, Puf4p, Puf5p S. cerevisiae . Using RNA Tagging, we identified a “super-network” comprised four sub-networks: sub-networks, one controlled by both Puf4p Puf5p. The individual subnetworks, thus super-network, are...
Abstract Relatively little is known about the first step of insulin synthesis: translation mRNA. Here we show that D. melanogaster 2 mRNA ( dilp2 ) controlled by methylation N6-adenosine (m 6 A) in 3’ UTR. Mutations m A writer Mettl3 and methylated-residues 3’UTR decreased levels associated with polysomes, total amount protein produced. This resulted aberrant energy homeostasis diabetic-like phenotypes, consistent specific function adult metabolism. Conserved signatures were also identified...
Abstract Diet profoundly influences brain physiology, but how nutritional information is transmuted into neural activity and behavior changes remains elusive. Here we show that the metabolic enzyme O-GlcNAc Transferase (OGT) moonlights on chromatin of D. melanogaster gustatory neurons to instruct in accessibility transcription underlie sensory adaptations a high sugar diet. OGT works synergistically with Mitogen Activated Kinase/Extracellular signal Regulated Kinase (MAPK/ERK) rolled its...