A5103021108- Insect symbiosis and bacterial influences
- Genomics and Phylogenetic Studies
- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- RNA Research and Splicing
- Nematode management and characterization studies
- Parasitic Diseases Research and Treatment
- Bacteriophages and microbial interactions
- Molecular Biology Techniques and Applications
- Immune Response and Inflammation
- Vitamin C and Antioxidants Research
- Metabolomics and Mass Spectrometry Studies
- Health, Environment, Cognitive Aging
- Adipose Tissue and Metabolism
- Spaceflight effects on biology
- Carbohydrate Chemistry and Synthesis
- Genetics, Aging, and Longevity in Model Organisms
- CRISPR and Genetic Engineering
- Vector-borne infectious diseases
- Light effects on plants
- Legume Nitrogen Fixing Symbiosis
- Peroxisome Proliferator-Activated Receptors
- Parasite Biology and Host Interactions
- Plant Parasitism and Resistance
- Circadian rhythm and melatonin
University of Maryland, College Park
2024
University of Maryland, Baltimore
2019-2024
Rutgers, The State University of New Jersey
2011-2014
Abstract Sex determination mechanisms often differ even between related species yet the evolution of sex chromosomes remains poorly understood in all but a few model organisms. Some nematodes such as Caenorhabditis elegans have an XO system while others, filarial parasite Brugia malayi , XY mechanism. We present complete B. genome assembly and define Nigon elements shared with C. which we then map to genomes other more distantly nematodes. find remarkable plasticity chromosome several...
Most currently available quantification tools for transcriptomics analyses have been designed human data sets, in which full-length transcript sequences, including the untranslated regions, are well annotated. In most prokaryotic systems, sequences yet to be characterized, leading being performed based on only coding sequences.
Lymphatic filariasis affects ∼120 million people and can result in elephantiasis hydrocele. Here, we report the nearly complete genome sequence of best-studied causative agent lymphatic filariasis, Brugia malayi . The assembly contains four autosomes, an X chromosome, only eight gaps but lacks a contiguous for known Y chromosome.
The circadian clock is a critical regulator of biological functions controlling behavioral, physiological and biochemical processes. Because the liver primary metabolites within mammalian body disruption rhythms in associated with severe illness, regulators would play strong role maintaining function. However, regulatory structure that governs dynamics at transcriptional level remains unknown. To explore this aspect, we analyzed hepatic Sprague-Dawley rats over period 24 hours to assess...
Eukaryotic genomes can acquire bacterial DNA via lateral gene transfer (LGT).1 A prominent source of LGT is Wolbachia,2 a widespread endosymbiont arthropods and nematodes that transmitted maternally through female germline cells.3,4 The from the Wolbachia wAna to Drosophila ananassae extensive5-7 has been localized chromosome 4, contributing expansion in this lineage.6 As happened frequently with claims bacteria-to-eukaryote LGT, contribution transfers expanded size D. 4 specifically...
Brugia pahangi is a zoonotic parasite that closely related to human-infecting filarial nematodes. Here, we report the nearly complete genome of pahangi, including assemblies four autosomes and an X chromosome, with only seven gaps. The Y chromosome still not completely assembled.
Transcripts are potential therapeutic targets, yet bacterial transcripts remain biological dark matter with uncharacterized biodiversity. We developed and applied an algorithm to predict for Escherichia coli K12 E2348/69 strains (Bacteria:gamma-Proteobacteria) newly generated ONT direct RNA sequencing data while predicting Listeria monocytogenes Scott A RO15 (Bacteria:Firmicute), Pseudomonas aeruginosa SG17M NN2 (Bacteria:gamma-Proteobacteria), Haloferax volcanii (Archaea:Halobacteria) using...
RNA transcripts are potential therapeutic targets, yet bacterial have uncharacterized biodiversity. We developed an algorithm for transcript prediction called tp.py using it to predict (mRNA and other RNAs) in
Abstract Ticks are important vectors of bacterial, viral and protozoan pathogens humans animals worldwide. Candidatus Midichloria mitochondrii (hereafter M. mitochondrii) is a highly abundant bacterial endosymbiont found in many tick species, including two medically ticks respectively Europe Australia, Ixodes ricinus holocyclus. The present study aimed to determine the symbiont's biological role by identifying lateral gene transfer (LGT) events, characterising transcriptome, performing...
A key attribute of eukaryotic genomes is the presence abundant spliceosomal introns that break up many protein-coding genes into multiple exons and must be spliced out during process gene expression. These are believed to evolutionarily derived from group II introns, which known widespread in bacteria. One prominent hypothesis intron arose after endosymbiotic origin mitochondrion, as a consequence transfer containing organelle nuclear genome; this model, ancestral genome set stage for...
Lymphatic filariasis is a devastating disease caused by filarial nematode roundworms, which contain obligate
The sequence diversity of natural and laboratory populations Brugia pahangi malayi was assessed with Illumina resequencing followed by mapping in order to identify single nucleotide variants insertions/deletions. In populations, there is a lack on chromosome X relative the autosomes (πX/πA = 0.2), which lower than expected 0.75). A reduction also observed other filarial nematodes neo-X fusions genera Onchocerca Wuchereria, but not those without Loa Dirofilaria. species fusions, abnormally...
Analysis of sequence read pairs can be essential for characterizing structural variation, including junction-spanning reads (JSPRs) suggesting recent lateral/horizontal gene transfer. TwinBLAST used to facilitate this analysis JSPRs by enabling the visualization and curation two BLAST reports side in a single interface.
As sequencing read length has increased, researchers have quickly adopted longer reads for their experiments. Here, we examine 14 pathogen or host–pathogen differential gene expression data sets to assess whether using is warranted. A variety of was used what genomic attributes might affect the outcome analysis including: density, operons, length, number introns/exons and intron length. No genome attribute found influence in principal components analysis, hierarchical clustering with...