A5009844736- Bacterial Genetics and Biotechnology
- Genomics and Phylogenetic Studies
- Bacteriophages and microbial interactions
- Bacterial biofilms and quorum sensing
- Vibrio bacteria research studies
- Cell Image Analysis Techniques
- RNA and protein synthesis mechanisms
- Protist diversity and phylogeny
- Microbial infections and disease research
- Microbial Community Ecology and Physiology
- Cellular Mechanics and Interactions
- Microbial Metabolic Engineering and Bioproduction
- Metabolism and Genetic Disorders
- Bioinformatics and Genomic Networks
- Biocrusts and Microbial Ecology
- Slime Mold and Myxomycetes Research
- Metabolomics and Mass Spectrometry Studies
- Microfluidic and Bio-sensing Technologies
- Evolution and Genetic Dynamics
- Estrogen and related hormone effects
- Force Microscopy Techniques and Applications
- Gene Regulatory Network Analysis
- Innovative Microfluidic and Catalytic Techniques Innovation
- Polar Research and Ecology
- Digital Holography and Microscopy
Syracuse University
2013-2025
Bolton NHS Foundation Trust
2017
The Christie Hospital
2017
Stanford University
2001-2004
University of California, Berkeley
2001-2004
University of California, Davis
2001
The University of Texas Southwestern Medical Center
2001
University of Wisconsin–Madison
1992-1999
Yale University
1989-1991
Madigan Army Medical Center
1984
The genus Sorangium synthesizes approximately half of the secondary metabolites isolated from myxobacteria, including anti-cancer metabolite epothilone. We report complete genome sequence model strain S. cellulosum So ce56, which produces several natural products and has morphological physiological properties typical genus. circular genome, comprising 13,033,779 base pairs, is largest bacterial sequenced to date. No global synteny with Myxococcus xanthus apparent, revealing an unanticipated...
ABSTRACT The family Rhizobiaceae contains plant-associated bacteria with critical roles in ecology and agriculture. Within this family, many Rhizobium Sinorhizobium strains are nitrogen-fixing plant mutualists, while designated as Agrobacterium pathogens. These contrasting lifestyles primarily dependent on the transmissible plasmids each strain harbors. Members of also have diverse genome architectures that include single chromosomes, multiple various sizes. been divided into three biovars,...
Members of the genus Xenorhabdus are entomopathogenic bacteria that associate with nematodes. The nematode-bacteria pair infects and kills insects, both partners contributing to insect pathogenesis providing nutrition nematode from available insect-derived nutrients. provides protection predators, access nutrients, a mechanism dispersal. bacterial Photorhabdus also nematodes kill genera provide similar services their different hosts through unique physiological metabolic mechanisms. We...
Combining high-resolution single cell tracking experiments with numerical simulations, we show that starvation-induced fruiting body (FB) formation in Myxococcus xanthus is a phase separation driven by cells tune their motility over time. The can be understood terms of density and dimensionless Peclet number captures through speed reversal frequency. Our work suggests M. take advantage self-driven non-equilibrium transition controlled at the level.
Cells in the early stages of starvation-induced fruiting body development migrate a highly organized periodic pattern equispaced accumulations that move as traveling waves. Two sets waves are observed moving opposite directions with same wavelength and speed. To learn how behavior individual cells contributes to wave pattern, fluorescent were tracked within rippling population. These exhibit at least three types behavior. First, most cell movement occurs along axis movement. Second, there is...
Recent experiments have provided new quantitative measurements of the rippling phenomenon in fields developing myxobacteria cells. These enabled us to develop a mathematical model for ripple on basis biochemistry C-signaling system, whereby individuals signal by direct cell contact. The quantitatively reproduces all experimental observations and illustrates how intracellular dynamics, contact-mediated intercellular communication, motility can coordinate produce collective behavior. This...
Under starvation conditions, a population of myxobacteria aggregates to build fruiting body whose shape is species-specific and within which the cells sporulate. Early in this process, often pass through “ripple phase” characterized by traveling linear, concentric, spiral waves. These waves are different from observed during slime mold aggregation that depend on diffusible morphogens, because communicate direct contact. The difference most dramatic when collide: rather than annihilating one...
When converting a serial program to parallel that can run on Graphics Processing Unit (GPU) the developer must choose what functions will GPU. For each function chooses, he or she needs manually write code to: 1) serialize state GPU memory, 2) define kernel execute, 3) control launch and 4) deserialize back CPU memory. Rootbeer is project allows developers simply in Java (de)serialization, generation done automatically. This contrast language bindings for CUDA OpenCL where still has do these...
The National Institute for Health and Clinical Excellence (NICE) recommended the Oncotype DX® Breast Recurrence Score® (RS) assay as an option informing adjuvant chemotherapy decisions in node-negative, oestrogen receptor (ER)+, human epidermal growth factor 2 (HER2)-negative early breast cancer assessed to be at intermediate risk of recurrence based on clinicopathological factors. We evaluated impact RS testing decision-making routine clinical practice a UK Cancer Network.RS was performed...
The ability of bacteria to colonize and grow on different surfaces is an essential process for biofilm development. Here, we report the use synthetic hydrogels with tunable stiffness porosity assess physical effects substrate Using time-lapse microscopy track growth expanding Serratia marcescens colonies, find that colony can increase increasing stiffness, unlike what found traditional agar substrates. traction force microscopy-based techniques, biofilms exert transient stresses correlated...
Many cellular functions depend on the physical properties of cell's environment. bacteria have different types surface appendages to enable adhesion and motion various surfaces. Myxococcus xanthus is a social soil bacterium with two distinctly regulated modes motility, termed motility mode, driven by type IV pili, adventurous based focal complexes. How sense surfaces subsequently coordinate their collective remains largely unclear. Using polyacrylamide hydrogels tunable stiffness, we found...
ABSTRACT The multicellular developmental cycle of Myxococcus xanthus requires large-scale changes in gene transcription, and recent findings indicate that NtrC-like activators play a prominent role regulating these changes. In this study, we made insertions 28 uncharacterized ntrC -like activator ( nla ) genes found eight cause defects. Hence, results are consistent with the idea M. uses series different during fruiting body development. Four mutants identified have motility nla1 , nla19...
Aromatase catalyzes the synthesis of estrogen from its androgen precursors. Estrogen is known to be important in regulating long bone growth and epiphyseal plate closure. To assess whether there may plate-specific production estrogen, we performed reverse transcriptase polymerase chain reaction (RT-PCR) determine aromatase transcripts are present human plate. Immunohistochemistry was also employed identify specific sites expression. Growth plates were obtained an adolescent male female...
ABSTRACT Myxobacteria build their species-specific fruiting bodies by cell movement and then differentiate spores in specific places within that multicellular structure. New steps the developmental aggregation of Myxococcus xanthus were discovered through a frame-by-frame analysis motion picture. The formation fate 18 aggregates captured time-lapse movie. Still photographs 600 other also analyzed. M. has two engines propel gliding its rod-shaped cells: slime-secreting jets at rear retractile...
ABSTRACT A search of the M1genome sequence, which includes 97% Myxococcus xanthus genes, identified 53 sequence homologs σ 54 -dependent enhancer binding proteins (EBPs). DNA microarray was constructed from that those and 318 other M. genes for comparison. To screen developmental program with this array, an RNA extract growing cells compared one prepared developing at 12 h. Previous reporter studies had shown has initiated development begun to express many developmentally regulated by The...
Microcinematography was used to examine fruiting body development of Myxococcus xanthus. Wild-type cells progress through three distinct phases: a quiescent phase with some motility but little aggregation (0 8 h), period vigorous leading raised bodies (8 16 and maturation during which sporulation is initiated (16 48 h). Fruiting are extended vertically in series tiers, each involving the addition cell monolayer on top uppermost layer. A pilA (MXAN_5783) mutant produced less extracellular...
ABSTRACT Two groups independently sequenced the Agrobacterium tumefaciens C58 genome in 2001. We report here consolidation of these sequences, updated annotation, and additional analysis evolutionary history linear chromosome, which is apparently limited to biovar I group .
The ability of DNA to allosterically alter the conformation estrogen receptor's (ER) steroid binding domain was investigated. Using dissociation kinetics we observed that when bound rat uterine ER rate from increased almost 2-fold. This change in depended on concentration used and correlated with thermodynamic affinities (Kd) for two different sequences. We were unable detect a DNA-induced trypsin cleavage pattern amino terminal end ER. whole cell kinetic assay MCF-7 breast cancer cells...
Automated DNA sequencing technology is so rapid that analysis has become the rate-limiting step. Hundreds of prokaryotic genome sequences are publicly available, with new genomes uploaded at rate approximately 20 per month. As a result, this growing body will include microorganisms not previously identified, isolated, or observed. We hypothesize evolutionary pressure exerted by an ecological niche selects for similar genetic repertoire in those prokaryotes occupy same niche, and due to both...
Under starvation conditions, a swarm of Myxococcus xanthus cells will undergo development, multicellular process culminating in the formation many aggregates called fruiting bodies, each which contains up to 100,000 spores. The mechanics symmetry breaking and self-organization into bodies is an active area research. Here we use microcinematography automated image processing quantify several transient features developmental dynamics. An analysis experimental data indicates that aggregation...
When starved, a swarm of millions Myxococcus xanthus cells coordinate their movement from outward swarming to inward coalescence. The then execute synchronous program multicellular development, arranging themselves into dome shaped aggregates. Over the course about half initial aggregates disappear, while others persist and mature fruiting bodies. This work seeks develop quantitative model for aggregation that accurately simulates which will disappear persist. We analyzed time-lapse movies...
A series of metabolic changes within the immature rat uterus begins minutes after administration microgram quantities estradiol (E2). One earliest effects that has been measured is an increase in rate at which takes up glucose. To characterize effect E2 on glucose transport stimulation, whole protein preparations were examined for presence mammalian proteins Glut1 through Glut5. E2-stimulated steady state levels messenger RNA (mRNA) and Glut4 by quantitative competitive RT-PCR Western blots....
We describe a gas chromatographic/mass spectrometric method for the accurate determination of n-hexanoylglycine, 3-phenylpropionylglycine and suberylglycine in urine diagnosis hereditary medium-chain acyl-CoA dehydrogenase (MCAD) deficiency. These acylglycines had previously been detected from patients with MCAD deficiency, but their diagnostic values were unknown because lack appropriate analytical methods. n-Hexanoyl(1,2-13C)glycine, 3-phenylpropionyl(2-13C,15N)glycine...