A5075435627- Microbial Community Ecology and Physiology
- Marine and coastal ecosystems
- Methane Hydrates and Related Phenomena
- Marine and fisheries research
- Protist diversity and phylogeny
- Marine Biology and Ecology Research
- Genomics and Phylogenetic Studies
- Isotope Analysis in Ecology
- Marine animal studies overview
- Environmental DNA in Biodiversity Studies
- Arctic and Antarctic ice dynamics
- Polar Research and Ecology
- Geology and Paleoclimatology Research
- Marine Bivalve and Aquaculture Studies
- Atmospheric and Environmental Gas Dynamics
- Coral and Marine Ecosystems Studies
- Gut microbiota and health
- Algal biology and biofuel production
- Diatoms and Algae Research
- Amphibian and Reptile Biology
- Oceanographic and Atmospheric Processes
- Epigenetics and DNA Methylation
- Analytical chemistry methods development
- Rabies epidemiology and control
- Biosensors and Analytical Detection
Duke University
2015-2025
Texas A&M University – Corpus Christi
2022-2025
Duke Kunshan University
2021-2023
Laboratoire des Sciences de l'Environnement Marin
2017-2023
Shanghai Veterinary Research Institute
2023
Chinese Academy of Agricultural Sciences
2023
Institut Universitaire Européen de la Mer
2017-2023
Université de Bretagne Occidentale
2018-2022
Centre National de la Recherche Scientifique
2018-2022
Institut de Recherche pour le Développement
2018-2022
ABSTRACT Marine microbial communities are complex and dynamic, their ecology impacts biogeochemical cycles in pelagic ecosystems. Yet, little is known about the relative activities of different populations within genetically diverse communities. We used rRNA as a proxy for activity to quantify specific (rRNA/ribosomal DNA [rDNA or genes]) eubacterial identify locations clades which there uncouplings between abundance. After analyzing 1.6 million sequences from 16S rDNA (cDNA) libraries two...
Significance The cyanobacterium Prochlorococcus is the most abundant photosynthetic organism in oceans, driving marine food webs and biogeochemistry. Estimates of cell mortality production are critical to determine how organic matter transferred into web. Using novel high-resolution sampling methods on two winter-time cruises, we show that daily cells surface waters subtropical Pacific gyre consistently balanced by their nightly consumption other organisms. These synchronized loss processes...
High-throughput-sequencing-based marine microbiome profiling is rapidly expanding and changing how we study the oceans. Although powerful, technique not fully quantitative; it provides taxon counts only in relative abundances. In order to address this issue, present a method quantitatively estimate microbial abundances per unit volume of seawater filtered by spiking known amounts internal DNA standards into each sample. We validated comparing calculated other independent estimates, including...
Since the middle of past century, Western Antarctic Peninsula has warmed rapidly with a significant loss sea ice but impacts on plankton biodiversity and carbon cycling remain an open question. Here, using 5-year dataset eukaryotic DNA metabarcoding, we assess changes in net community production this region. Our results show that sea-ice extent is dominant factor influencing composition, biodiversity, production. Species richness evenness decline increase surface temperature (SST). In...
Abstract The Tara Pacific expedition (2016–2018) sampled coral ecosystems around 32 islands in the Ocean and ocean surface waters at 249 locations, resulting collection of nearly 58 000 samples. was designed to systematically study warm-water reefs included corals, fish, plankton, seawater samples for advanced biogeochemical, molecular, imaging analysis. Here we provide a complete description sampling methodology, explain how explore access different datasets generated by expedition....
Interactions between the ocean and atmosphere occur at air-sea interface through transfer of momentum, heat, gases particulate matter impact upper-ocean biology on composition radiative properties this boundary layer. The Tara Pacific expedition, launched in May 2016 aboard schooner Tara, was a 29-month exploration with dual goals to study ecology coral systems along ecological gradients Ocean assess inter-island open surface plankton neuston community structures. In addition, key...
<title>Abstract</title> The Southern Ocean (SO) plays a key role in regulating global biogeochemical cycles and climate, yet microbial genes sustaining its biological activity remain poorly characterized. We introduce comprehensive SO collection from 218 metagenomes sampled during the Antarctic Circumnavigation Expedition, majority of which are missing functional databases. 38% even lack homologs current reference marine gene catalogs, defining singular genetic seascape. show that...
Abstract While a rich history of patchiness research has explored spatial structure in the ocean, there is no consensus over controls on biological and how physical-ecological-biogeochemical processes relate. The prevailing thought that physics structures biology, but this not been tested at basin scale with consistent situ measurements. Here we use slope relationship between variance vs to quantify ~650,000 nearly continuous ( dx ~ 200 m) measurements - representing Atlantic, Pacific,...
Abstract. Prochlorococcus, the smallest but most abundant marine primary producer, plays an important role in carbon cycling of global ocean. As a phototroph, Prochlorococcus is thought to be confined euphotic zone, with commonly observed maximum depths ~ 150–200 m, here we show for first time substantial presence populations dark ocean ("deep Prochlorococcus" hereafter). Intensive studies at Luzon Strait western Pacific Ocean that deep are exported from zone. Multiple physical processes...
Summary The vast majority of the phytoplankton communities in surface mixed layer oligotrophic ocean are numerically dominated by one two ecotypes P rochlorococcus , eMIT9312 or eMED4 . In this study, we surveyed large latitudinal transects A tlantic and acific O cean to determine if these discretely partition niche, populations exist as a continuum along key environmental gradients, particularly temperature. Transitions dominance occurred at approximately 19–21°C, with ecotype dominating...
Abstract Despite our current realization of the tremendous diversity that exists in plankton communities, we have little understanding how this biodiversity influences biological carbon pump other than broad paradigms such as diatoms contributing disproportionally to export. Here combine high-resolution underway O 2 /Ar, which provides an estimate net community production, with high-throughput 18 S ribosomal DNA sequencing elucidate relationship between eukaryotic structure and export...
Abstract. The Southern Ocean is a critical component of Earth's climate system, but its remoteness makes it challenging to develop holistic understanding processes from the small scale large scale. As result, our knowledge this vast region remains largely incomplete. Antarctic Circumnavigation Expedition (ACE, austral summer 2016/2017) surveyed number variables describing state ocean and atmosphere, freshwater cycle, atmospheric chemistry, biogeochemistry microbiology. This circumpolar...
The West Antarctic Peninsula (henceforth “Peninsula”) is experiencing rapid warming and melting that impacting the regional marine food web. primary phytoplankton groups along are diatoms cryptophytes. Relative to diatoms, there has been little focus on cryptophytes, thus our understanding of their diversity ecology limited, especially at species level. This gap important, as cryptophytes play distinct roles in web biogeochemistry. Here, we use a phylogenetic placement approach with 18S rRNA...
Abstract Culture-independent 16S rRNA gene metabarcoding is a commonly used method for microbiome profiling. To achieve more quantitative cell fraction estimates, it important to account the copy number (hereafter GCN) of different community members. Currently, there are several bioinformatic tools available estimate GCN values, either based on taxonomy assignment or phylogeny. Here we present novel approach ANNA16, Artificial Neural Network Approximator number, deep learning-based that...
Marine phytoplankton have conserved elemental stoichiometry, but there can be significant deviations from this Redfield ratio. Moreover, allocate reduced carbon (C) to different biochemical pools based on nutritional status and light availability, adding complexity relationship. This allocation influences physiology, ecology, biogeochemistry. Here, we present results the physiological properties of two evolutionarily distinct model marine phytoplankton, a diatom (cf. Staurosira sp....
The Late Devonian (earliest Frasnian) plant Metacladophyton ziguinum sp. nov. is described from Hubei Province, south China. Sterile main axes and first‐ second‐order lateral possess linear spines that are sometimes dichotomous. Paired have a common base occur oppositely decussately on first‐order to form four vertical rows. With paired tips curving in opposite directions, sterile ultimate appendages dichotomous, attached irregularly alternately/suboppositely ones. Fertile bifurcate equally...
In the open ocean genetically diverse clades of unicellular cyanobacteria Prochlorococcus are biogeographically structured along environmental gradients, yet little is known about their in situ activity. To address this gap, here we use numerically dominant clade eHL-II (eMIT9312) as a model organism to develop and apply method examine activity using rRNA content cell size metrics cellular physiology. For two representative isolates (MIT9312 MIT9215) cell(-1) increases linearly with specific...