A5013626144- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Marine and coastal ecosystems
- Protist diversity and phylogeny
- Marine Biology and Ecology Research
- Allergic Rhinitis and Sensitization
- Methane Hydrates and Related Phenomena
- Asthma and respiratory diseases
- Metabolomics and Mass Spectrometry Studies
- Contact Dermatitis and Allergies
- Food Allergy and Anaphylaxis Research
- Molecular Biology Techniques and Applications
- Urticaria and Related Conditions
- Diatoms and Algae Research
- Environmental DNA in Biodiversity Studies
- Drug-Induced Adverse Reactions
- Mycobacterium research and diagnosis
- Polyamine Metabolism and Applications
- Streptococcal Infections and Treatments
- Gene expression and cancer classification
- Wastewater Treatment and Nitrogen Removal
- Scientific Computing and Data Management
- Pneumonia and Respiratory Infections
- Aquatic Invertebrate Ecology and Behavior
- Mast cells and histamine
Woods Hole Oceanographic Institution
2016-2025
Bigelow Laboratory for Ocean Sciences
2024
GEOMAR Helmholtz Centre for Ocean Research Kiel
2024
Monterey Bay Aquarium Research Institute
2020
University of California, Davis
2016-2018
Lamont-Doherty Earth Observatory
2016-2017
Columbia University
2016-2017
Wellesley College
2016
University Hospital of Wales
2015
Massachusetts Institute of Technology
2015
We present QIIME 2, an open-source microbiome data science platform accessible to users spanning the research ecosystem, from scientists and engineers clinicians policy makers. 2 provides new features that will drive next generation of research. These include interactive spatial temporal analysis visualization tools, support for metabolomics shotgun metagenomics analysis, automated provenance tracking ensure reproducible, transparent science.
We present QIIME 2, an open-source microbiome data science platform accessible to users spanning the research ecosystem, from scientists and engineers clinicians policy makers. 2 provides new features that will drive next generation of research. These include interactive spatial temporal analysis visualization tools, support for metabolomics shotgun metagenomics analysis, automated provenance tracking ensure reproducible, transparent science.
Phosphorus (P) is a critical driver of phytoplankton growth and ecosystem function in the ocean. Diatoms are an abundant class marine that responsible for significant amounts primary production. With control they exert on oceanic carbon cycle, there have been number studies focused how diatoms respond to limiting macro micronutrients such as iron nitrogen. However, diatom physiological responses P deficiency poorly understood. Here, we couple deep sequencing transcript tags quantitative...
We present QIIME 2, an open-source microbiome data science platform accessible to users spanning the research ecosystem, from scientists and engineers clinicians policy makers. 2 provides new features that will drive next generation of research. These include interactive spatial temporal analysis visualization tools, support for metabolomics shotgun metagenomics analysis, automated provenance tracking ensure reproducible, transparent science.
Diverse communities of marine phytoplankton carry out half global primary production. The vast diversity the has long perplexed ecologists because these organisms coexist in an isotropic environment while competing for same basic resources (e.g., inorganic nutrients). Differential niche partitioning is one hypothesis to explain this "paradox plankton," but it difficult quantify and track variation metabolism situ. Here, we use quantitative metatranscriptome analyses examine pathways nitrogen...
A diverse microbial assemblage in the ocean is responsible for nearly half of global primary production. It has been hypothesized and experimentally demonstrated that nutrient loading can stimulate blooms large eukaryotic phytoplankton oligotrophic systems. Although central to balancing biogeochemical models, knowledge metabolic traits govern dynamics these bloom-forming limited. We used metatranscriptomic techniques identify basis functional group-specific may drive shift between net...
Abstract Establishing virus–host relationships has historically relied on culture-dependent approaches. Here we report the use of marine metatranscriptomics to probe relationships. Statistical co-occurrence analyses dsDNA, ssRNA and dsRNA viral markers polyadenylation-selected RNA sequences from microbial communities dominated by Aureococcus anophagefferens (Quantuck Bay, NY), diatoms (Narragansett RI) show active infections diverse giant viruses (NCLDVs) associated with algal nonalgal...
Abstract Background De novo transcriptome assemblies are required prior to analyzing RNA sequencing data from a species without an existing reference genome or transcriptome. Despite the prevalence of transcriptomic studies, effects using different workflows, “pipelines," on resulting poorly understood. Here, pipeline was programmatically automated and used assemble annotate raw short-read collected as part Marine Microbial Eukaryotic Transcriptome Sequencing Project. The were evaluated...
Single-celled eukaryotes play ecologically significant roles in the marine environment, yet fundamental questions about their biodiversity, ecological function, and interactions remain. Environmental sequencing enables researchers to document naturally occurring protistan communities, without culturing bias, metagenomic metatranscriptomic approaches cannot separate individual species from communities. To more completely capture genomic content of mixed populations, we can create bins...
The production and consumption of organic matter by marine organisms plays a central role in the carbon cycle. Labile compounds (metabolites) are major currency energetic demands organismal interaction, but these remain elusive because their rapid turnover concomitant minuscule concentrations dissolved pool. Organic osmolytes group small metabolites synthesized at high intracellular (mM) to regulate cellular osmolarity have potential be released as abundant substrates. Osmolytes may...
From the Department of Medicine, Washington University Medical School and Barnes Hospital, St. Louis, Missouri
Abstract Numerous efforts have been made to explain the underlying mechanism of bronchial asthma by attempts reproduce similar symptoms in guinea pigs. Almost invariably process has involved introduction antigenic substances into respiratory tract sensitized pigs whose symptomatic and immunological behavior then noted. The results these experiments, briefly summarized, are as follows: When normal were exposed suitable form vaporous sprays, they apparently could be readily sensitized, for if...
Author Posting. © The Oceanography Society, 2014. This article is posted here by permission of Society for personal use, not redistribution. definitive version was published in 27, no. 1 (2014): 222–235, doi:10.5670/oceanog.2014.26.
Much is known about how broad eukaryotic phytoplankton groups vary according to nutrient availability in marine ecosystems. However, genus- and species-level dynamics are generally unknown, although important given that adaptation acclimation processes differentiate at these levels. We examined communities across seasonal cycles the North Atlantic (BATS) under different trophic conditions eastern Pacific (ENP), using phylogenetic classification of plastid-encoded 16S rRNA amplicon sequence...
Abstract Metagenomics is a powerful method for interpreting the ecological roles and physiological capabilities of mixed microbial communities. Yet, many tools processing metagenomic data are not designed to consider eukaryotes, nor they built an increasing amount sequence data. EukHeist automated pipeline retrieve eukaryotic prokaryotic metagenome assembled genomes (MAGs) from large-scale datasets. We developed workflow specifically process large amounts both and/or metatranscriptomic in...
Article1 July 1931An Evaluation of the Skin Test in AllergyH. L. ALEXANDER, M.D.H. M.D.Search for more papers by this authorAuthor, Article, and Disclosure Informationhttps://doi.org/10.7326/0003-4819-5-1-52 SectionsAboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinkedInRedditEmail ExcerptThe word "allergy" as used these remarks, has do solely with clinical condition that is represented asthma-hay fevereczema group cases. The conception type...
Microeukaryotes are key contributors to marine carbon cycling. Their physiology, ecology, and interactions with the chemical environment poorly understood in offshore ecosystems, especially deep ocean. Using Autonomous Underwater Vehicle Clio, microbial communities along a 1050 km transect western North Atlantic Ocean were surveyed at 10–200 m vertical depth increments capture metabolic signatures spanning oligotrophic, continental margin, productive coastal ecosystems. examined using paired...
Got “Big Data”? Not sure how best to use it? Big Data is becoming an important facet of aquatic ecology, and researchers must learn harness it reap the rewards using it. The benefits are many, include advancements in scientific understanding at larger scales higher resolution, applications improving environmental management policy, public engagement. We aim demystify for individual scientists, provide some food thought ecology community on develop this sphere. To achieve this, we highlight...