A5024294799- Metabolomics and Mass Spectrometry Studies
- Mass Spectrometry Techniques and Applications
- Microbial Natural Products and Biosynthesis
- Bacterial Identification and Susceptibility Testing
- Genomics and Phylogenetic Studies
- Bacterial biofilms and quorum sensing
- Advanced Proteomics Techniques and Applications
- Cancer, Lipids, and Metabolism
- Marine Sponges and Natural Products
- Gut microbiota and health
- Microbial Community Ecology and Physiology
- Analytical Chemistry and Chromatography
- Aquaculture disease management and microbiota
- Ovarian cancer diagnosis and treatment
- Vibrio bacteria research studies
- Microbial Metabolism and Applications
- Nutrition, Genetics, and Disease
- Plant-Microbe Interactions and Immunity
- Chemical Synthesis and Analysis
- Biosensors and Analytical Detection
- Antibiotic Resistance in Bacteria
- Molecular Biology Techniques and Applications
- Cancer, Stress, Anesthesia, and Immune Response
- Mycorrhizal Fungi and Plant Interactions
- Identification and Quantification in Food
University of California, Santa Cruz
2011-2025
University of California, Berkeley
2023
University of Illinois Chicago
2016-2021
University of Illinois Urbana-Champaign
2019
University of Wisconsin–Madison
2018
University of Montana
2013-2016
University of California, San Diego
2013-2016
University of the Pacific
2011
Pacific University
2011
Consejo Superior de Investigaciones Científicas
2007
A major goal in natural product discovery programs is to rapidly dereplicate known entities from complex biological extracts. We demonstrate here that molecular networking, an approach organizes MS/MS data based on chemical similarity, a powerful complement traditional dereplication strategies. Successful with networks requires spectra of the mixture along standards, synthetic compounds, or well-characterized organisms, preferably organized into robust databases. This can accommodate...
Despite rapid evolution in the area of microbial natural products chemistry, there is currently no open access database containing all microbially produced product structures. Lack availability these data preventing implementation new technologies science. Specifically, development computational strategies for compound characterization and identification are being hampered by lack a comprehensive known compounds against which to compare experimental data. The creation an access,...
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.
Ralstonia solanacearum is a globally distributed soil-borne plant pathogenic bacterium, which shares broad ecological range with many plant- and soil-associated fungi. We sought to determine if R. chemical communication directs symbiotic development of polymicrobial consortia. produced diffusible metabolite that induced conserved morphological differentiation in 34 species fungi across three diverse taxa (Ascomycetes, Basidiomycetes Zygomycetes). Fungi exposed this formed chlamydospores,...
Significance Mass spectrometry is a powerful technique that has been used to identify bacteria by their protein content and assess bacterial functional traits through analysis of specialized metabolites. However, until now these analyses have operated independently, which resulted in the inability rapidly connect phylogenetic identity with potential environmental function. To bridge this gap, we designed MALDI-TOF mass data acquisition bioinformatics pipeline (IDBac) integrate from both...
Small-molecule signaling is one major mode of communication within the polymicrobial consortium soil and rhizosphere. While microbial secondary metabolite (SM) production responses individual species have been studied extensively, little known about potentially conserved roles SM signals in multilayered symbiotic or antagonistic relationships. Here, we characterize SM-mediated interaction between plant-pathogenic bacterium Ralstonia solanacearum two fungi Fusarium fujikuroi Botrytis cinerea...
Leishmaniasis is a debilitating disease caused by protozoan parasites of the genus Leishmania, which affects an estimated 12 million people worldwide. The discovery new lead compounds for leishmaniasis therefore pressing concern global health programs. organic extract Panamanian collection marine cyanobacterium Lyngbya majuscula showed strong in vitro activity two complementary screens against tropical parasite Leishmania donovani, causative agent visceral leishmaniasis. Chromatographic...
Historically, marine invertebrates have been a prolific source of unique natural products, with diverse array biological activities. Recent studies invertebrate-associated microbial communities are revealing microorganisms as the true producers many these compounds. Inspired by human microbiome project, which has highlighted intestine microenvironment in terms diversity, we elected to examine bacterial fish intestines (which termed microbiome) new and biosynthetic diversity for products...
Microorganisms are a rich source of bioactives; however, chemical identification is major bottleneck. Strategies that can prioritize the most prolific microbial strains and novel compounds great interest. Here, we present an integrated approach to evaluate biosynthetic richness in bacteria mine associated diversity. Thirteen closely related Pseudoalteromonas luteoviolacea isolated from all over Earth were analyzed using untargeted metabolomics strategy, metabolomic profiles correlated with...
Abstract Even though raw mass spectrometry data is information rich, the vast majority of underutilized. The ability to interrogate these rich datasets handicapped by limited capability and flexibility existing software. We introduce Mass Spec Query Language (MassQL) that addresses issues enabling an expressive set patterns be queried directly from data. MassQL open-source query language for flexible spectrometer manufacturer-independent mining MS envision flexibility, scalability, ease use...
High-grade serous carcinoma (HGSC) is the most lethal gynecological malignancy in United States. Late diagnosis and emergence of chemoresistance have prompted studies into how tumor microenvironment, more recently innervation, may be leveraged for HGSC prevention interception. In addition to stess-induced sources, concentrations sympathetic neurotransmitter norepinephrine (NE) ovary increase during ovulation after menopause. Importantly, NE exacerbates advanced progression. However, little...
Coral reefs are intricate ecosystems that harbor diverse organisms, including 25% of all marine fish. Healthy corals exhibit a complex symbiosis between coral polyps, endosymbiotic alga, and an array microorganisms, called the holobiont. Secretion specialized metabolites by microbiota is thought to contribute defense this sessile organism against harmful biotic abiotic factors. While few causative agents diseases have been unequivocally identified, fungi implicated in massive destruction...
Microbial communities of fermented food microbiomes typically exhibit predictable patterns microbial succession. However, the biochemical mechanisms that control diversity and dynamics these are not well described. Interactions between bacteria fungi may be one mechanism controlling development cheese rind microbiomes. This study characterizes a specific bacterium-fungus interaction previously discovered on rinds bacterium Glutamicibacter arilaitensis (formerly Arthrobacter arilaitensis)...
Ovarian cancer, a leading cause of cancer-related deaths among women, has been notoriously difficult to screen for and diagnose early, as early detection significantly improves survival. Researchers clinicians seek routinely usable noninvasive screening methods; however, available methods (i.e., biomarker screening) lack desirable sensitivity/specificity. The most fatal form, high-grade serous ovarian often originate in the fallopian tube; therefore, sampling from vaginal environment...
<p>Figure S7. LC-MS data from amino acids quantified using aTRAQ kit (Sciex).</p>
Microbes are commonly studied as individual species, but they exist mixed assemblages in nature. At present, we know very little about the spatial organization of molecules, including natural products that produced within these microbial networks. Lichens represent a particularly specialized type symbiotic assemblage which component microorganisms together. These composite typically comprised several types representing phylogenetically diverse life forms, fungi, photosymbionts, bacteria, and...