Irina Koester
A5046633037- Metabolomics and Mass Spectrometry Studies
- Advanced Chemical Sensor Technologies
- Microbial Community Ecology and Physiology
- Analytical Chemistry and Chromatography
- Coral and Marine Ecosystems Studies
- Marine and coastal ecosystems
- Isotope Analysis in Ecology
- Ocean Acidification Effects and Responses
- Microbial Metabolic Engineering and Bioproduction
- Scientific Computing and Data Management
- Marine Biology and Ecology Research
- Marine and fisheries research
- Marine Sponges and Natural Products
- Computational Drug Discovery Methods
- Genetics, Bioinformatics, and Biomedical Research
- Wastewater Treatment and Nitrogen Removal
- Cell Image Analysis Techniques
- Machine Learning in Bioinformatics
- Marine Toxins and Detection Methods
- Gene expression and cancer classification
- Pesticide Residue Analysis and Safety
- Coastal wetland ecosystem dynamics
- Marine animal studies overview
- Methane Hydrates and Related Phenomena
- Lichen and fungal ecology
University of California, San Diego
2016-2025
Scripps Institution of Oceanography
2016-2025
University of Montana
2018-2019
Scripps (United States)
2018
Carl von Ossietzky Universität Oldenburg
2016
Oceanography Society
2016
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.
beaches along the central and southern coast of California.Bluefin tuna appeared in record numbers California waters.Such shifts migration this scale had not been previously observed for nektonic species (Table 1).The consequences WWA were far-reaching, may presage future ecological as global temperatures rise.FIGURE 1. Sea surface temperature (SST) anomalies showing progression warm water anomaly (WWA) from December 2013 through January 2016 northeastern Pacific Ocean.
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.
Abstract Molecular networking connects mass spectra of molecules based on the similarity their fragmentation patterns. However, during ionization, commonly form multiple ion species with different behavior. As a result, these often remain unconnected in tandem spectrometry-based molecular networks, leading to redundant and disconnected sub-networks same compound classes. To overcome this bottleneck, we develop Ion Identity Networking (IIMN) that integrates chromatographic peak shape...
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.
Dissolved organic matter (DOM) is arguably one of the most complex exometabolomes on earth, and comprised thousands compounds, that together contribute more than 600×1015 g carbon. This reservoir primarily product interactions between upper ocean's microbial food web, yet abiotic processes occur over millennia have also modified many its molecules. The compounds within this play important roles in determining rate extent element exchange inorganic reservoirs marine biosphere, while mediating...
Genomics and metabolomics are widely used to explore specialized metabolite diversity. The Paired Omics Data Platform is a community initiative systematically document links between metabolome (meta)genome data, aiding identification of natural product biosynthetic origins structures.
Abstract Molecular networking has become a key method used to visualize and annotate the chemical space in non-targeted mass spectrometry-based experiments. However, distinguishing isomeric compounds quantitative interpretation are currently limited. Therefore, we created Feature-based Networking (FBMN) as new analysis Global Natural Products Social (GNPS) infrastructure. FBMN leverages feature detection alignment tools enhance analyses isomer distinction, including from ion-mobility...
Significance Marine dissolved organic matter (DOM) is one of the most complex and abundant chemical mixtures on earth, comprising thousands different molecules. The molecular structure these compounds factor structuring community microorganisms that metabolize them; in turn, this microbial metabolism mediates composition DOM. Decades coral reef research has established fundamental importance biogeochemistry ecosystem function. This study unveils DOM by identifying a myriad specific...
Remineralization and transformation of dissolved organic matter (DOM) by marine microbes shape the DOM composition thus, have large impact on global carbon nutrient cycling. However, information bacterioplankton-DOM interactions a molecular level is limited. We examined variation bacterial community (BCC) at Helgoland Roads (North Sea) in relation to various environmental parameters short-time scales. Surface water samples were taken daily over period 20 days. Bacterial assessed via 16S rRNA...
The cars we drive, the homes live in, restaurants visit, and laboratories offices work in are all a part of modern human habitat. Remarkably, little is known about diversity chemicals present these environments to what degree molecules from our bodies influence built environment that surrounds us vice versa. We therefore set out visualize chemical five habitats together with their occupants, provide snapshot various which humans exposed on daily basis. molecular inventory was obtained...
Dissolved organic matter (DOM) is an ultracomplex mixture that plays a central role in global biogeochemical cycles. Despite its importance, DOM remains poorly understood at the molecular level. Over last decades, significant efforts have been made to decipher chemical composition of by high-resolution mass spectrometry (HR-MS) and liquid chromatography (LC) coupled with tandem (MS/MS). Yet, complexity high degree nonresolved isomers still hamper full structural analysis DOM. To address this...
Abstract Oceanic oxygen minimum zones (OMZs) are globally significant sites of biogeochemical cycling where microorganisms deplete dissolved (DO) to concentrations <20 µM. Amid intense competition for DO in these metabolically challenging environments, aerobic nitrite oxidation may consume amounts and help maintain low concentrations, but this remains unquantified. Using parallel measurements consumption rates 15 N-nitrite applied both water column profiles manipulation experiments, we...
The exchange of metabolites mediates algal and bacterial interactions that maintain ecosystem function. Yet, while thousands are produced, only a few molecules have been identified in these associations. Using the ubiquitous microalgae Pseudo-nitzschia sp., as model, we employed an untargeted metabolomics strategy to assign structural characteristics distinguished specific diatom-microbiome We cultured five species Pseudo-nitzschia, including two produced toxin domoic acid, examined their...
Recent developments in molecular networking have expanded our ability to characterize the metabolome of diverse samples that contain a significant proportion ion features with no mass spectral match known compounds. Manual and tool-assisted natural annotation propagation is readily used classify networks; however, currently tools leverage consensus confidence strategies enabled by hierarchical chemical ontologies or enable use new silico without modification. Herein we present ConCISE...
Abstract The >5,000‐year radiocarbon age ( 14 C‐age) of much the 630 ± 30 Pg C oceanic dissolved organic carbon (DOC) reservoir remains an enigma in marine cycle. fact that DOC is significantly older than inorganic at every depth ocean forms basis our current framing cycle, where some component persists over multiple cycles mixing. As a result, C‐depleted, aged hypothesized to be present as uniform with constant signature and concentration throughout water column. However, key...
Dissolved organic matter (DOM) comprises diverse compounds with variable bioavailability across aquatic ecosystems. The sources and quantities of DOM can influence microbial growth community structure effects on biogeochemical processes. To investigate the chemodiversity labile in tropical reef waters, we tracked utilisation over 3000 untargeted mass spectrometry ion features exuded from two coral three algal species. Roughly half these clustered into 500 biologically spectral subnetworks...
Abstract Coral reef community composition and ecosystem function may change in response to anthropogenic ocean acidification. However, the magnitude of acidification on reefs will be modified by natural spatial temporal variability seawater CO 2 chemistry. Consequently, it is necessary quantify ecological, biogeochemical, physical drivers this before making robust predictions future reefs. In study, we measured physiochemical a flat Kāne‘ohe Bay, O‘ahu, Hawai‘i, using autonomous sensors at...
Abstract Coral bleaching is a well-documented and increasingly widespread phenomenon in reefs across the globe, yet there has been relatively little research on implications for reef water column microbiology biogeochemistry. A mesocosm heating experiment bottle incubation compared how unbleached bleached corals alter dissolved organic matter (DOM) exudation response to thermal stress subsequent effects microbial growth community structure column. Thermal of healthy tripled DOM flux relative...