A5076756596- Genomics and Phylogenetic Studies
- Genetics, Bioinformatics, and Biomedical Research
- Chromosomal and Genetic Variations
- Cancer Genomics and Diagnostics
- RNA and protein synthesis mechanisms
- Hepatitis C virus research
- Sirtuins and Resveratrol in Medicine
- Antibiotic Resistance in Bacteria
- Bacterial Genetics and Biotechnology
- Hepatitis B Virus Studies
- Microbial Community Ecology and Physiology
- Genomics and Rare Diseases
- Genetic Mapping and Diversity in Plants and Animals
- CRISPR and Genetic Engineering
- Bioinformatics and Genomic Networks
- Aquaculture disease management and microbiota
- Bacterial Identification and Susceptibility Testing
- Tea Polyphenols and Effects
- Autophagy in Disease and Therapy
- Antimicrobial Resistance in Staphylococcus
- Genetic Associations and Epidemiology
- Bacteriophages and microbial interactions
- Pharmaceutical and Antibiotic Environmental Impacts
- HIV/AIDS drug development and treatment
- Genetic diversity and population structure
European Molecular Biology Laboratory
2022
European Bioinformatics Institute
2016-2021
Wellcome Trust
2017
GlaxoSmithKline (United Kingdom)
2011-2015
Wellcome Sanger Institute
2009-2010
University College London
2007-2008
Stanford University
2001-2005
Duke Medical Center
2005
Center for Genomic Science
2005
Genome British Columbia
2005
Here we determine the complete genomic sequence of Gram negative, γ-Proteobacterium Vibrio cholerae El Tor N16961 to be 4,033,460 base pairs (bp). The genome consists two circular chromosomes 2,961,146 bp and 1,072,314 that together encode 3,885 open reading frames. vast majority recognizable genes for essential cell functions (such as DNA replication, transcription, translation cell-wall biosynthesis) pathogenicity (for example, toxins, surface antigens adhesins) are located on large...
The 2,272,351-base pair genome of Neisseria meningitidis strain MC58 (serogroup B), a causative agent meningitis and septicemia, contains 2158 predicted coding regions, 1158 (53.7%) which were assigned biological role. Three major islands horizontal DNA transfer identified; two these contain genes encoding proteins involved in pathogenicity, the third island sequences only for hypothetical proteins. Insights into commensal virulence behavior N. can be gleaned from genome, structural pilus...
ABSTRACT Staphylococcus aureus is an opportunistic pathogen and the major causative agent of numerous hospital- community-acquired infections. epidermidis has emerged as a infections often associated with implanted medical devices. We have sequenced ∼2.8-Mb genome S. COL, early methicillin-resistant isolate, ∼2.6-Mb RP62a, biofilm isolate. Comparative analysis these other staphylococcal genomes was used to explore evolution virulence resistance between two species. The are syntenic...
The complete genome sequence of the radiation-resistant bacterium Deinococcus radiodurans R1 is composed two chromosomes (2,648,638 and 412,348 base pairs), a megaplasmid (177,466 small plasmid (45,704 yielding total 3,284,156 pairs. Multiple components distributed on that contribute to ability D. survive under conditions starvation, oxidative stress, high amounts DNA damage were identified. represents an organism in which all systems for repair, export, desiccation starvation recovery,...
The complete genome sequence of Enterococcus faecalis V583, a vancomycin-resistant clinical isolate, revealed that more than quarter the consists probable mobile or foreign DNA. One predicted elements is previously unknown vanB vancomycin-resistance conjugative transposon. Three plasmids were identified, including two pheromone-sensing plasmids, one encoding undescribed pheromone inhibitor. apparent propensity for incorporation probably contributed to rapid acquisition and dissemination drug...
The complete sequence of the 1,267,782 bp genome Wolbachia pipientis wMel, an obligate intracellular bacteria Drosophila melanogaster, has been determined. Wolbachia, which are found in a variety invertebrate species, great interest due to their diverse interactions with different hosts, range from many forms reproductive parasitism mutualistic symbioses. Analysis wMel genome, particular phylogenomic comparisons other bacteria, revealed insights into biology and evolution general. For...
Shewanella oneidensis is an important model organism for bioremediation studies because of its diverse respiratory capabilities, conferred in part by multicomponent, branched electron transport systems. Here we report the sequencing S. genome, which consists a 4,969,803–base pair circular chromosome with 4,758 predicted protein-encoding open reading frames (CDS) and 161,613–base plasmid 173 CDSs. We identified first lambda-like phage, providing potential tool further genome engineering....
Cryptococcus neoformans is a basidiomycetous yeast ubiquitous in the environment, model for fungal pathogenesis, and an opportunistic human pathogen of global importance. We have sequenced its approximately 20-megabase genome, which contains 6500 intron-rich gene structures encodes transcriptome abundant alternatively spliced antisense messages. The genome rich transposons, many cluster at candidate centromeric regions. presence these transposons may drive karyotype instability phenotypic...
The complete genome sequence of Caulobacter crescentus was determined to be 4,016,942 base pairs in a single circular chromosome encoding 3,767 genes. This organism, which grows dilute aquatic environment, coordinates the cell division cycle and multiple differentiation events. With annotated sequence, full description genetic network that controls bacterial differentiation, growth, progression is within reach. Two-component signal transduction proteins are known play significant role...
We have designed and developed a data integration visualization platform that provides evidence about the association of known potential drug targets with diseases. The is to support identification prioritization biological for follow-up. Each target linked disease using integrated genome-wide from broad range sources. either target-centric workflow identify diseases may be associated specific target, or disease-centric disease. Users can easily transition between these target- workflows....
The complete genome of the green-sulfur eubacterium Chlorobium tepidum TLS was determined to be a single circular chromosome 2,154,946 bp. This represents first sequence from phylum Chlorobia, whose members perform anoxygenic photosynthesis by reductive tricarboxylic acid cycle. Genome comparisons have identified genes in C. that are highly conserved among photosynthetic species. Many these no assigned function and may play novel roles or photobiology. Phylogenomic analysis reveals likely...
Arthrobacter sp. strains are among the most frequently isolated, indigenous, aerobic bacterial genera found in soils. Member of genus metabolically and ecologically diverse have ability to survive environmentally harsh conditions for extended periods time. The genome aurescens strain TC1, which was originally isolated from soil at an atrazine spill site, is composed a single 4,597,686 basepair (bp) circular chromosome two plasmids, pTC1 pTC2, 408,237 bp 300,725 bp, respectively. Over 66%...
ABSTRACT There is a global emergence of multidrug-resistant (MDR) strains Klebsiella pneumoniae , Gram-negative enteric bacterium that causes nosocomial and urinary tract infections. While the epidemiology K. occurrences specific antibiotic resistance genes, such as plasmid-borne extended-spectrum β-lactamases (ESBLs), have been extensively studied, only four complete genomes are available. To better understand multidrug factors in we determined by pyrosequencing nearly genome DNA sequences...
Abstract The Global Alliance for Genomics and Health (GA4GH), the standards-setting body in genomics healthcare, aims to accelerate biomedical advancement globally. We describe differences between healthcare- research-driven genomics, discuss implications of global, population-scale collections human data research, outline mission-critical considerations ethics, regulation, technology, protection, society. present a crude model estimating rate healthcare-funded genomes worldwide that...
Abstract Background Related species, such as humans and chimpanzees, often experience the same disease with varying degrees of pathology, seen in cases Alzheimer's disease, or differing symptomatology AIDS. Furthermore, certain diseases schizophrenia, epithelial cancers autoimmune disorders are far more frequent than other species for reasons not associated lifestyle. Genes that have undergone positive selection during evolution indicative functional adaptations drive differences. Thus we...
<ns4:p>Next-Generation Sequencing (NGS) technologies are expected to play a crucial role in the surveillance of infectious diseases, with their unprecedented capabilities for characterisation genetic information underlying virulence and antimicrobial resistance (AMR) properties microorganisms. In implementation any novel technology regulatory purposes, important considerations such as harmonisation, validation quality assurance need be addressed. NGS pose unique challenges these regards,...
The genetic relatedness of the Bacillus anthracis typing phages Gamma and Cherry was determined by nucleotide sequencing comparative analysis. genomes these two were identical except at three variable loci, which showed heterogeneity within individual lysates among Cherry, Wbeta, Fah, four bacteriophage sequences.
<ns4:p>Next-Generation Sequencing (NGS) technologies are expected to play a crucial role in the surveillance of infectious diseases, with their unprecedented capabilities for characterisation genetic information underlying virulence and antimicrobial resistance (AMR) properties microorganisms. In implementation any novel technology regulatory purposes, important considerations such as harmonisation, validation quality assurance need be addressed. NGS pose unique challenges these regards,...
SIRT6 is involved in inflammation, aging and metabolism potentially by modulating the functions of both NFκB HIF1α. Since it possible to make small molecule activators inhibitors Sirtuins we wished establish biochemical cellular assays assist drug discovery efforts validate whether represents a valid target for these indications. We confirmed that can deacetylate acetylated-histone H3 lysine 9 (H3K9Ac), however this deacetylase activity unusually low assays. In an effort develop alternative...
GSK2336805 is an inhibitor of hepatitis C virus (HCV) with picomolar activity on the standard genotype 1a, 1b, and 2a subgenomic replicons exhibits a modest serum shift. was not active 22 RNA DNA viruses that were profiled. We have identified changes in N-terminal region NS5A cause decrease GSK2336805. These mutations 1b replicon showed shifts compound (<13-fold), while 1a had more dramatic impact potency. retained chimeric containing patient sequences from 1 consensus for genotypes 4 5 part...