A5045545557- Marine Biology and Ecology Research
- Marine and coastal ecosystems
- Microbial Community Ecology and Physiology
- Diatoms and Algae Research
- Maritime Navigation and Safety
- Protist diversity and phylogeny
- Genomics and Phylogenetic Studies
- Marine and fisheries research
- Algal biology and biofuel production
- Polar Research and Ecology
- Methane Hydrates and Related Phenomena
- Salmonella and Campylobacter epidemiology
- Plant Molecular Biology Research
- Aquatic Ecosystems and Phytoplankton Dynamics
- Wastewater Treatment and Nitrogen Removal
- Isotope Analysis in Ecology
- Plant Reproductive Biology
- Ocean Acidification Effects and Responses
- Underwater Vehicles and Communication Systems
- Photoreceptor and optogenetics research
- Vibrio bacteria research studies
- Plant Gene Expression Analysis
- Aquaculture disease management and microbiota
University of Washington
2012-2024
Ecosystems are shaped by complex communities of mostly unculturable microbes. Metagenomes provide a fragmented view such communities, but the ecosystem functions major groups organisms remain mysterious. To better characterize members these we developed methods to reconstruct genomes directly from mate-paired short-read metagenomes. We closed genome representing as-yet uncultured marine group II Euryarchaeota, assembled de novo 1.7% metagenome sequenced surface seawater. The describes...
Growth of plant organs relies on coordinated cell proliferation followed by growth, but the nature cell-cell signal that specifies organ size remains elusive. The Arabidopsis receptor-like kinase (RLK) ERECTA regulates inflorescence architecture. Our previous study using a dominant-negative fragment revealed presence redundancy in ERECTA-mediated transduction pathway. Here, we report ERL1 and ERL2, two functional paralogs ERECTA, play redundant unique roles part signaling pathway,...
In vast expanses of the oceans, growth large phytoplankton such as diatoms is limited by iron availability. Diatoms respond almost immediately to delivery and rapidly compose majority biomass. The molecular bases underlying subsistence in iron-poor waters plankton community dynamics that follow resupply remain largely unknown. Here we use comparative metatranscriptomics identify changes gene expression associated with iron-stimulated other eukaryotic plankton. A microcosm iron-enrichment...
Formation of complex inorganic structures is widespread in nature. Diatoms create intricately patterned cell walls silicon that are a biomimetic model for design and generation three-dimensional silica nanostructures. To date, only relatively simple can be generated vitro through manipulation known diatom phosphoproteins (silaffins) long-chain polyamines. Here, we report the use genome-wide transcriptome analyses marine Thalassiosira pseudonana to identify additional candidate gene products...
Diatoms are among the most diverse groups of phytoplankton in ocean. Despite their widely recognized influence on ocean ecosystems and global biogeochemistry, little is known about impact this diversity large-scale processes. Here, we examined ramifications between-species by documenting transcriptional response three diatoms - Thalassiosira pseudonana, Fragilariopsis cylindrus, Pseudo-nitzschia multiseries to onset nitrate limitation growth, a common limiting nutrient The species shared...
SeaFlow is an underway flow cytometer that provides continuous shipboard observations of the abundance and optical properties small phytoplankton (<5 μm in equivalent spherical diameter, ESD). Here we present data sets consisting SeaFlow-based cell abundance, forward light scatter, pigment fluorescence individual cells, as well derived estimates ESD cellular carbon content picophytoplankton, which includes cyanobacteria Prochlorococcus, Synechococcus small-sized Crocosphaera ESD),...
Newly formed sea ice is a vast and biogeochemically active environment. Recently, we reported an unusual microbial community dominated by members of the Rhizobiales in frost flowers at surface Arctic young based on presence 16S gene sequences related to these strains. Here, use metagenomic analysis two samples, from field underlying ice, explore metabolic potential this community. The links genes for key biogeochemical processes Rhizobiales, including dimethylsulfide uptake, betaine glycine...
Abstract Sexual reproduction roots the eukaryotic tree of life, although its loss occurs across diverse taxa. Asexual and clonal lineages persist in these taxa despite theoretical arguments suggesting that individual clones should be evolutionarily short-lived due to limited phenotypic diversity. Here, we present quantitative evidence an obligate asexual lineage emerged from a sexual population marine diatom Thalassiosira pseudonana rapidly expanded throughout world’s oceans. Whole genome...
Iron (Fe) is an important growth factor for diatoms and its availability further restricted by changes in the carbonate chemistry of seawater. We investigated physiological attributes transcriptional profiles diatom Thalassiosira pseudonana grown on a day: night cycle under different CO2/pH iron concentrations, that combination generated available (Fe') concentrations 1160, 233, 58 12 pM. found light-dark conditions to be main driver patterns, followed Fe' concentration CO2 availability,...
Abstract The ubiquitous marine bacterium Vibrio parahaemolyticus is a leading cause of illness associated with seafood consumption. emergence two genetically distinct ecotypes (ST3 and ST36) has led to an alarming increase in the size frequency disease outbreaks. We conducted genomic comparison 30 V. genomes that represent diverse collection 15 ecotypes, including newly sequenced representatives ST3 ST36, isolated from both clinical environmental sources. A multistep evolutionary analysis...
Abstract The Hawaii Ocean Time‐series (HOT) at Station ALOHA (22.75°N, 158°W) in the North Pacific Subtropical Gyre (NPSG) serves as a critical vantage point for observing plankton biomass production and its ecological implications. However, HOT program's near‐monthly sampling frequency does not capture shorter time scale variability phytoplankton populations. To address this gap, we deployed SeaFlow flow cytometer continuous monitoring during cruises from 2014 to 2021. This approach allowed...