A5085207643- Bacteriophages and microbial interactions
- Vibrio bacteria research studies
- Genomics and Phylogenetic Studies
- Aquaculture disease management and microbiota
- Microbial infections and disease research
- Plant Virus Research Studies
- Oral microbiology and periodontitis research
- Respiratory viral infections research
- Microbial Community Ecology and Physiology
- Evolution and Genetic Dynamics
- Salmonella and Campylobacter epidemiology
- SARS-CoV-2 detection and testing
- SARS-CoV-2 and COVID-19 Research
- Viral gastroenteritis research and epidemiology
- RNA modifications and cancer
- Marine and coastal ecosystems
- RNA and protein synthesis mechanisms
- HIV/AIDS oral health manifestations
- Marine Biology and Ecology Research
- COVID-19 diagnosis using AI
- Coral and Marine Ecosystems Studies
- Agricultural pest management studies
- Invertebrate Immune Response Mechanisms
- Animal Virus Infections Studies
- Gut microbiota and health
University at Buffalo, State University of New York
2020-2024
Massachusetts Institute of Technology
2011-2022
Woods Hole Oceanographic Institution
2010-2014
Old Dominion University
2007
Wastewater surveillance represents a complementary approach to clinical measure the presence and prevalence of emerging infectious diseases like novel coronavirus SARS-CoV-2. This innovative data source can improve precision epidemiological modeling understand penetrance SARS-CoV-2 in specific vulnerable communities. Here, we tested wastewater collected at major urban treatment facility Massachusetts detected RNA from N gene significant titers (57 303 copies per ml sewage) period 18 25 March...
Summary Ocean viruses alter ecosystems through host mortality, horizontal gene transfer and by facilitating remineralization of limiting nutrients. However, the study wild viral populations is limited inefficient unreliable concentration techniques. Here, we develop a new technique to recover from natural waters using iron‐based flocculation large‐pore‐size filtration, followed resuspension virus‐containing precipitates in pH 6 buffer. Recovered are amenable sequencing, variable proportion...
Abstract Wastewater surveillance may represent a complementary approach to measure the presence and even prevalence of infectious diseases when capacity for clinical testing is limited. Moreover, aggregate, population-wide data can help inform modeling efforts. We tested wastewater collected at major urban treatment facility in Massachusetts found SARS-CoV-2 high titers period from March 18 - 25 using RT-qPCR. then confirmed identity PCR product by direct DNA sequencing. Viral observed were...
Wild phage evolution Bacteria possess a diversity of highly specific defense mechanisms that evolve rapidly and account for large proportion bacterial genomes. These dynamics must be understood if therapy is to seriously considered clinical use. Hussain et al . studied set nearly clonal wild-caught Vibrio lentus hosts their found the segregated into two groups infected by different viruses (see Perspective Meaden Fineran). Puzzlingly, both host have same surface receptors. This apparent...
Microbial communities are shaped by viral predators. Yet, resolving which viruses (phages) and bacteria interacting is a major challenge in the context of natural levels microbial diversity. Thus, fundamental features how phage-bacteria interactions structured evolve wild remain poorly resolved. Here we use large-scale isolation environmental marine Vibrio their phages to obtain estimates strain-level phage predator loads, all-by-all host range assays discover genomic diversity shape...
Because microbial plankton in the ocean comprise diverse bacteria, algae, and protists that are subject to environmental forcing on multiple spatial temporal scales, a fundamental open question is what extent these organisms form ecologically cohesive communities. Here we show although all taxa undergo large, near daily fluctuations abundance, organized into clearly defined communities whose turnover rapid sharp. We analyze time series of 93 consecutive days coastal using technique allows...
Abstract Prophages are known to encode important virulence factors in the human pathogen Vibrio cholerae . However, little is about occurrence and composition of prophage-encoded traits environmental vibrios. A database 5,674 prophage-like elements constructed from 1,874 genome sequences, covering sixty-four species, revealed that encoding possible properties such as antibiotic resistance widely distributed among vibrios, including strains classified non-pathogenic. Moreover, we found 45%...
Significance Bacterial viruses (bacteriophages) append a variety of molecules, including sugars, amino acids, and polyamines, to the nucleobases their genomic DNA circumvent endonuclease-based defenses hosts. These hypermodifications are formed through bacteriophage-encoded biosynthetic pathways, with steps occurring before after replication bacteriophage DNA. We report here discovery two thymidine hypermodifications: 5-(2-aminoethoxy)methyluridine replacing 40% nucleotides in Salmonella...
A universal tool in the culture-based study of bacterial viruses (bacteriophages, or phages) is agar overlay, which used isolation new viruses, and their quantification purification. Here, simple optimizations that increase efficiency throughput overlay based cultivation virus-host systems are presented. The streamlined to minimize steps materials. Serial purification from viral colonies (plaques) optimized eliminate by combining serial re-streaking with approach. Finally, recommendations...
DAO Diseases of Aquatic Organisms Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout JournalEditorsSpecials 76:1-6 (2007) - doi:10.3354/dao076001 Detection Panulirus argus Virus 1 in Caribbean spiny lobsters Megan M. Montgomery-Fullerton1, Roland A. Cooper1, Kathryn Kauffman1, Jeffrey D. Shields2, Robert E. Ratzlaff1,* 1Department Biological Sciences, MGB 110, Old Dominion University, Norfolk, Virginia 23529-0266, USA...
Porphyromonas gingivalis (hereafter "Pg") is an oral pathogen that has been hypothesized to act as a keystone driver of inflammation and periodontal disease. Although Pg most readily recovered from individuals with actively progressing disease, healthy those stable non-progressing disease are also colonized by Pg. Insights into the factors shaping striking strain-level variation in Pg, its variable associations needed achieve more mechanistic understanding progression. One key forces often...
Viruses are highly discriminating in their interactions with host cells and thought to play a major role maintaining diversity of environmental microbes. However, large-scale ecological genomic studies co-occurring virus-host pairs, required characterize the mechanistic foundations interactions, lacking. Here, we present largest dataset cultivated sequenced pairs that captures ecologically representative fine-scale diversity. Using ubiquitous diverse marine Vibrionaceae as platform, isolate...
Vibrio cholerae is a ubiquitous aquatic microbe in temperate and tropical coastal areas. It diverse species, with many isolates that are harmless to humans, while others highly pathogenic. Most notable among them strains belonging the pandemic O1/O139 serogroup lineage, which contains causative agents of cholera. The environmental selective regimes led this diversity key understanding how pathogens evolve reservoirs. A local population V. its close relative metoecus from pond lagoon system...
Populations of the bacterium Vibrio cholerae consist dozens distinct lineages, with primarily (but not exclusively) members pandemic generating lineage capable causing diarrhoeal disease cholera. Assessing composition and temporal dynamics such populations requires extensive isolation efforts thus only rarely covers large geographic areas or timeframes exhaustively. We developed a culture-independent amplicon sequencing strategy based on protein-coding gene viuB (vibriobactin utilization) to...
ABSTRACT Coevolution between bacteriophage (or phage) and their bacterial host is thought to be key for the coexistence of these antagonists. Recent studies have revealed major role mobile genetic elements in emergence phage resistant hosts but how escape defenses wild remained explored. Here we show a striking parallel evolving counter natural population. We established large collection phages explored structure interaction. find that clearly delineated genomic clusters are specific...
In our manuscript there were discrepancies between the recipes used in experiments, those cited text, and listed Table 2. All experiments for Figs 2, 3 4 that employed an ascorbic acid resuspension buffer following recipe [0.1 M Mg2EDTA, 0.2 acid, adjusted to pH ∼6 with 5 N NaOH]. contrast, preliminary earlier versions of as follows: Fig. 1a 1b Na2EDTA, MgCl2, 0.125 Tris, NaOH], while 1C a optimized facilitate adjustment [0.2 0.25 Tris HCl, either or oxalic acid]. We have since...
Abstract With the overuse of antibiotics, many pathogens including Vibrio cholerae and parahaemolyticus have evolved multidrug resistance making treatment more difficult. While understanding mechanisms that underlie pathogenesis is crucial, knowledge bacterial interactions V. could provide insight to their susceptibility outside human host. Based on previous work showing competition among environmental strains, we predict marine‐derived bacteria should inhibit may be a source unique...
Abstract Viral lysis accounts for much of microbial mortality in the ocean, and iron (Fe) is a critical micronutrient that can limit phytoplankton growth, yet interactions between Fe-nutrition viral are not well known. Here, we present infection dynamics under Fe-limited Fe-replete conditions three distinct marine microbes, photosynthetic picoeukaryote Ostreococcus lucimarinus , cyanobacterium Synechococcus two strains heterotrophic bacterium Vibrio . Iron limitation resulted slowed...