A5063015989- Microbial infections and disease research
- Streptococcal Infections and Treatments
- Aquaculture disease management and microbiota
- Bacteriophages and microbial interactions
- Genomics and Phylogenetic Studies
- Neonatal and Maternal Infections
- Insect symbiosis and bacterial influences
- Reproductive tract infections research
- Pneumonia and Respiratory Infections
- Gut microbiota and health
- Genomics and Rare Diseases
- Mycobacterium research and diagnosis
- Infective Endocarditis Diagnosis and Management
- Oral microbiology and periodontitis research
- Invertebrate Immune Response Mechanisms
- Microbial Metabolites in Food Biotechnology
- Gastric Cancer Management and Outcomes
- Phytoplasmas and Hemiptera pathogens
- Helicobacter pylori-related gastroenterology studies
- Yersinia bacterium, plague, ectoparasites research
- RNA and protein synthesis mechanisms
- Plant Pathogenic Bacteria Studies
- Glycosylation and Glycoproteins Research
- Mosquito-borne diseases and control
University of Maryland, Baltimore
2011-2017
Human Genome Sciences (United States)
2013-2016
University of Maryland, Baltimore County
2010
Next-generation sequencing of transposon-genome junctions from a saturated bacterial mutant library (Tn-seq) is powerful tool that permits genome-wide determination the contribution genes to fitness organism under wide range experimental conditions. We report development, testing, and results Tn-seq system for use in Streptococcus agalactiae (group B Streptococcus; GBS), an important cause neonatal sepsis. Our method uses Himar1 mini-transposon inserts at genomic TA dinucleotide sites,...
Abstract Summary: Domain mapping of disease mutations (DMDM) is a database in which each mutation can be displayed by its gene, protein or domain location. DMDM provides unique domain-level view where all human coding are mapped on the domain. To build DMDM, proteins were aligned to conserved domains using Hidden Markov Model-based sequence alignment tool (HMMer). The resulting protein-domain alignments used provide location for available and polymorphisms. number polymorphisms position...
Abstract Despite numerous advances in genomics and bioinformatics, technological hurdles remain to examine host-microbe transcriptomics. Sometimes the transcriptome of either or both can be ascertained merely by generating more sequencing reads. However, many cases exist where bacterial mRNA needs enriched further enable cost-effective pathogen endosymbiont. While a suitable method is commercially available for mammalian samples this type, development such methods has languished invertebrate...
Streptococcus agalactiae (group B [GBS]) causes serious infections in neonates. We previously reported a transposon sequencing (Tn-seq) system for performing genomewide assessment of gene fitness GBS. In order to identify molecular mechanisms required GBS transition from mucosal commensal lifestyle bloodstream invasion, we performed Tn-seq on strain A909 with human whole blood. Our analysis identified 16 genes conditionally essential survival blood, which 75% were members the capsular...
As sequencing technologies have evolved, the tools to analyze these sequences made similar advances. However, for multi-species samples, we observed important and adverse differences in alignment specificity computation time bwa- mem (Burrows-Wheeler aligner-maximum exact matches) relative bwa-aln. Therefore, sought optimize bwa-mem of data from samples order reduce increase alignments. In cases examined, there was one majority member (i.e. Plasmodium falciparum or Brugia malayi) minority...
Chlamydia psittaci is a highly prevalent avian pathogen and the cause of potentially lethal zoonosis, causing life-threatening pneumonia in humans. We report genome sequences C. 6BC, prototype strain species, Cal10, widely used laboratory strain.
ABSTRACT Phytoplasmas are bacterial plant pathogens with devastating impact on agricultural production worldwide. In eastern Africa, Napier grass stunt disease causes serious economic losses in the smallholder dairy industry. This draft genome sequence of “ Candidatus Phytoplasma oryzae” strain Mbita1 provides insight into its genomic organization and molecular basis pathogenicity.
Helicobacter pylori , inhabitant of the gastric mucosa over half world population, with decreasing prevalence in U.S., has been associated a variety pathologies. However, majority H. -infected individuals remain asymptomatic, and negative correlations between allergic diseases have reported. Comprehensive genome characterization populations from different human host backgrounds including healthy provides exciting potential to generate new insights into open question whether health outcome is...
Members of the Mycoplasma mycoides cluster' represent important livestock pathogens worldwide. subsp. is etiologic agent contagious bovine pleuropneumonia (CBPP), which still endemic in many parts Africa. We report genome sequences and annotation two frequently used challenge strains mycoides, Afadé B237. The information provided will enable downstream 'omics' applications such as proteomics, transcriptomics reverse vaccinology approaches. Despite absence pneumoniae like cyto-adhesion...
Members of the "Mycoplasma mycoides cluster" represent important livestock pathogens worldwide. We report genome sequence Mycoplasma feriruminatoris sp. nov., closest relative to and fastest-growing species described date.
Streptococcus intermedius is a human pathogen with propensity for abscess formation. We report high-quality draft genome sequence of S. strain BA1, an isolate from epidural abscess. This provides insight into the biology and will aid investigations pathogenicity.