Paul R. Jensen
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View article: Diversification of diterpene biosynthesis occurred early in octocoral evolution
Diversification of diterpene biosynthesis occurred early in octocoral evolution Open
Octocorals are the major source of marine-derived bioactive terpenoids. However, the vast majority of explored chemistry is known from shallow-water species, leaving deep-sea octocorals largely unexplored. Recent genomic work uncovered ter…
View article: IDBac: an open-access web platform and compendium for the identification of bacteria by MALDI-TOF mass spectrometry
IDBac: an open-access web platform and compendium for the identification of bacteria by MALDI-TOF mass spectrometry Open
The identification of bacteria is central to the microbiological sciences. While gene sequencing methods have been the standard to identify bacteria, use of MALDI-TOF mass spectrometry (MS) in clinical microbiology provides high-throughput…
View article: Extremophile hotspots linked to containerized industrial waste dumping in a deep-sea basin
Extremophile hotspots linked to containerized industrial waste dumping in a deep-sea basin Open
Decaying barrels on the seafloor linked to DDT contamination have raised concerns about the public health implications of decades old industrial waste dumped off the coast of Los Angeles. To explore their contents, we collected sediment co…
View article: Structure Elucidation, Biosynthetic Gene Cluster Distribution, and Biological Activities of Ketomemicin Analogs in Salinispora
Structure Elucidation, Biosynthetic Gene Cluster Distribution, and Biological Activities of Ketomemicin Analogs in Salinispora Open
Pseudopeptides are attractive agents for protease inhibition due to their structural similarities to the natural substrates of these enzymes, as well as their enhanced stability and resistance to enzymatic degradation. We report three new …
View article: Soil microbiome interventions for carbon sequestration and climate mitigation
Soil microbiome interventions for carbon sequestration and climate mitigation Open
Mitigating climate change in soil ecosystems involves complex plant and microbial processes regulating carbon pools and flows. Here, we advocate for the use of soil microbiome interventions to help increase soil carbon stocks and curb gree…
View article: Pattern-Based Genome Mining Guides Discovery of the Antibiotic Indanopyrrole A from a Marine Streptomycete
Pattern-Based Genome Mining Guides Discovery of the Antibiotic Indanopyrrole A from a Marine Streptomycete Open
Terrestrial actinomycetes in the genus Streptomyces have long been recognized as prolific producers of small-molecule natural products, including many clinically important antibiotics and cytotoxic agents. Although Streptomyces
View article: Structure elucidation, biosynthetic gene cluster distribution, and biological activities of ketomemicin analogs in<i>Salinispora</i>
Structure elucidation, biosynthetic gene cluster distribution, and biological activities of ketomemicin analogs in<i>Salinispora</i> Open
We report three new ketomemicin pseudopeptides ( 1 – 3 ) from extracts of the marine actinomycete Salinispora pacifica strain CNY-498. Their constitution and relative configuration were elucidated using NMR, mass spectrometry, and quantum …
View article: Pattern-based genome mining guides discovery of the antibiotic indanopyrrole A from a marine streptomycete
Pattern-based genome mining guides discovery of the antibiotic indanopyrrole A from a marine streptomycete Open
Terrestrial actinomycetes in the genus Streptomyces have long been recognized as prolific producers of small molecule natural products, including many clinically important antibiotics and cytotoxic agents. Although Streptomyces can also be…
View article: Small molecule in situ resin capture provides a compound first approach to natural product discovery
Small molecule in situ resin capture provides a compound first approach to natural product discovery Open
View article: Identification of DDT+ in Deep Ocean Sediment and Biota in the Southern California Bight
Identification of DDT+ in Deep Ocean Sediment and Biota in the Southern California Bight Open
The recent rediscovery of offshore DDT waste dumping in the Southern California Bight (SCB) has led to questions about the extent and type of pollution in deep ocean environments. We used a nontargeted analysis to identify halogenated orga…
View article: MAR4 <i>Streptomyces</i>: A Unique Resource for Natural Product Discovery
MAR4 <i>Streptomyces</i>: A Unique Resource for Natural Product Discovery Open
Marine-derived Streptomyces have long been recognized as a source of novel, pharmaceutically relevant natural products. Among these bacteria, the MAR4 clade within the genus Streptomyces has been identified as metabolically r…
View article: Soil microbial strategies for climate mitigation—report from a climate action workshop in Las Vegas, Nevada, February 2024
Soil microbial strategies for climate mitigation—report from a climate action workshop in Las Vegas, Nevada, February 2024 Open
Life on Earth faces an existential crisis due to the enduring repercussions of unsustainable human activities since the beginning of the Industrial Revolution. Among the most pressing issues are greenhouse gas emissions, primarily from fos…
View article: Metagenomic data reveals type I polyketide synthase distributions across biomes
Metagenomic data reveals type I polyketide synthase distributions across biomes Open
Microbial polyketide synthase (PKS) genes encode the biosynthesis of many biomedically or otherwise commercially important natural products. Despite extensive discovery efforts, metagenomic analyses suggest that only a small fraction of na…
View article: Biogeographic patterns of biosynthetic potential and specialized metabolites in marine sediments
Biogeographic patterns of biosynthetic potential and specialized metabolites in marine sediments Open
While the field of microbial biogeography has largely focused on the contributions of abiotic factors to community patterns, the potential influence of biotic interactions in structuring microbial communities, such as those mediated by the…
View article: Small Molecule<i>in situ</i>Resin Capture – A Compound First Approach to Natural Product Discovery
Small Molecule<i>in situ</i>Resin Capture – A Compound First Approach to Natural Product Discovery Open
Microbial natural products remain an important resource for drug discovery. Yet, commonly employed discovery techniques are plagued by the rediscovery of known compounds, the relatively few microbes that can be cultured, and laboratory gro…
View article: Metagenomic Data Reveal Type I Polyketide Synthase Distributions Across Biomes
Metagenomic Data Reveal Type I Polyketide Synthase Distributions Across Biomes Open
Microbial polyketide synthase (PKS) genes encode the biosynthesis of many biomedically important natural products, yet only a small fraction of nature’s polyketide biosynthetic potential has been realized. Much of this potential originates…
View article: Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity
Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity Open
View article: The Natural Product Domain Seeker version 2 (NaPDoS2) webtool relates ketosynthase phylogeny to biosynthetic function
The Natural Product Domain Seeker version 2 (NaPDoS2) webtool relates ketosynthase phylogeny to biosynthetic function Open
The Natural Product Domain Seeker (NaPDoS) webtool detects and classifies ketosynthase (KS) and condensation domains from genomic, metagenomic, and amplicon sequence data. Unlike other tools, a phylogeny-based classification scheme is used…
View article: A simple transcriptomic library prep for prokaryotes using SplintR ligase and padlock probes.
A simple transcriptomic library prep for prokaryotes using SplintR ligase and padlock probes. Open
View article: Antibiotic Activity Altered by Competitive Interactions Between Two Coral Reef–Associated Bacteria
Antibiotic Activity Altered by Competitive Interactions Between Two Coral Reef–Associated Bacteria Open
View article: Microbe Profile: Salinispora tropica: natural products and the evolution of a unique marine bacterium
Microbe Profile: Salinispora tropica: natural products and the evolution of a unique marine bacterium Open
Salinispora tropica was originally cultured from tropical marine sediments and described as the first obligate marine actinomycete genus. Soon after its discovery, it yielded the potent proteasome inhibitor salinosporamide A, a structurall…
View article: Structure and Candidate Biosynthetic Gene Cluster of a Manumycin-Type Metabolite from <i>Salinispora pacifica</i>
Structure and Candidate Biosynthetic Gene Cluster of a Manumycin-Type Metabolite from <i>Salinispora pacifica</i> Open
A new manumycin-type natural product named pacificamide (1) and its candidate biosynthetic gene cluster (pac) were discovered from the marine actinobacterium Salinispora pacifica CNT-855. The structure of the compound …
View article: Specialized Metabolite-Mediated Predation Defense in the Marine Actinobacterium<i>Salinispora</i>
Specialized Metabolite-Mediated Predation Defense in the Marine Actinobacterium<i>Salinispora</i> Open
Bacteria inhabiting marine sediments are subject to predation by bacterivorous eukaryotes. Here, we test the hypothesis that sediment-derived bacteria in the genus Salinispora produce biologically active natural products that function as a…
View article: Microbial diversity in tropical marine sediments assessed using culture‐dependent and culture‐independent techniques
Microbial diversity in tropical marine sediments assessed using culture‐dependent and culture‐independent techniques Open
Summary The microbial communities associated with marine sediments are critical for ecosystem function yet remain poorly characterized. While culture‐independent (CI) techniques capture the broadest perspective on community composition, cu…
View article: Platform for Single-Cell Dual RNA Sequencing of Host-Pathogen Interactions
Platform for Single-Cell Dual RNA Sequencing of Host-Pathogen Interactions Open
The aim of this project was to advance single-cell RNA-Seq methods toward the establishment of a platform that may be used to simultaneously interrogate the gene expression profiles of mammalian host cells and bacterial pathogens. Existing…
View article: Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signalling-molecule diversity
Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signalling-molecule diversity Open
Bacteria communicate by small-molecule chemicals that facilitate intra- and inter-species interactions. These extracellular signalling molecules mediate diverse processes including virulence, bioluminescence, biofilm formation, motility an…
View article: Grincamycins P–T: Rearranged Angucyclines from the Marine Sediment-Derived <i>Streptomyces</i> sp. CNZ-748 Inhibit Cell Lines of the Rare Cancer Pseudomyxoma Peritonei
Grincamycins P–T: Rearranged Angucyclines from the Marine Sediment-Derived <i>Streptomyces</i> sp. CNZ-748 Inhibit Cell Lines of the Rare Cancer Pseudomyxoma Peritonei Open
While marine natural products have been investigated for anticancer drug discovery, they are barely screened against rare cancers. Thus, in our effort to discover potential drug leads against the rare cancer pseudomyxoma peritonei (PMP), w…
View article: Microbial diversity in tropical marine sediments assessed using culture-dependent and culture-independent techniques
Microbial diversity in tropical marine sediments assessed using culture-dependent and culture-independent techniques Open
The microbial communities associated with marine sediments are critical for ecosystem function yet remain poorly characterized. While culture-independent (CI) approaches capture the broadest perspective on community composition, culture-de…
View article: A community resource for paired genomic and metabolomic data mining
A community resource for paired genomic and metabolomic data mining Open
View article: Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signaling-molecule diversity
Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signaling-molecule diversity Open
Supplementary Material for ‘Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signaling-molecule diversity’ as published in Microbial Genomics.