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Bertin, M. J.

Publications and source records attributed to Bertin, M. J..

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Shared biosynthetic architectures generate diverse β-amino polyketide residues in cyanobacterial peptides

Cyanobacteria generate structurally complex peptides with diverse biological functions and vast chemical diversity, yet the enzymatic logic that produces their many documented unusual {beta}-amino acid-containing polyketide units remains incompletely understood. Here we show that the recently described genus Floridanema harbors biosynthetic systems that unify the production of tychonamides and pahayokolide-like peptides, including the assembly of the signature residues 3-amino-2,5,7-trihydroxy-8-phenyloctanoic acid (Atpoa) and 3-amino-2,5,7,8-tetrahydroxy-10-methylundecanoic acid (Athmu). Using an integrated "pathways-to-products" strategy combining comparative genomics, bioinformatics analyses, and structure elucidation by NMR and MS, we link previously cryptic gene clusters to new metabolites and define shared architectural features across these pathways. Furthermore, we identified a ketoreductase in multiple pathways predicted to reduce -keto acids and generate the starting unit in the Athmu moiety. These results support a common evolutionary origin or convergent phenomenon for constructing {beta}-amino polyketide building blocks within cyanobacterial hybrid assembly lines. Together, our findings reposition Floridanema as a central source organism for these peptide families and establish biosynthetic principles that can be leveraged to predict, discover, and engineer related natural products. Significance StatementCyanobacteria produce unusually complex peptides, but the enzymatic logic that builds their signature {beta}-amino polyketide residues is poorly understood. By linking gene clusters identified in the genomes of members of the recently described Floridanema genus to the production of tychonamides, pahayokolide-like peptides, and other metabolites, we reveal shared biosynthetic architectures and suggest evolutionary strategies that drive peptide diversification.

biochemistry↗

Expanding CyanoHAB Monitoring: New Micropeptins and Generalizable MS/MS Workflows for the Annotation of Cyanopeptide Classes

Cyanobacterial harmful algal blooms (cyanoHABs) are a major ecological and public health concern, commonly monitored for hepatotoxic microcystins and cylindrospermopsins and neurotoxic anatoxins and saxitoxins. However, the broader suite of bioactive metabolites produced during blooms remains under characterized. Here, we interrogated a chromatography fraction library generated from a cyanoHAB in Muskegon, Michigan. From this library, we isolated two new micropeptins (1 and 2), including an analog bearing a bishomologated tyrosine residue, and we confirmed the structure of ferintoic acid C (3). Structures were established using complementary spectrometric and spectroscopic methods. To expand chemical space coverage beyond isolated compounds, we analyzed LC-MS/MS data using the GNPS2 Analysis Hub query language for product ion searching, enabling annotation of cyanopeptide classes and class-specific modifications across the fraction set, which provided a practical and user-friendly approach for identifying cyanopeptide classes. One of the new micropeptins (1) exhibited moderate inhibition of neutrophil elastase, consistent with roles in ecological interactions and potential relevance to human exposure. Analysis of field samples from ongoing Lake Erie blooms showed recurring micropeptins but no evidence of microcystins. Together, these results challenge microcystin-centric assessments of bloom hazard and support expanded monitoring of non-microcystin cyanopeptides. SYNOPSISRoutine cyanoHAB monitoring targets few regulated toxins; we reveal abundant, under characterized cyanopeptides and enable rapid class-level annotation across datasets with a new LC-MS/MS analysis pipeline. GRAPHICAL ABSTRACT O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=114 SRC="FIGDIR/small/704577v1_ufig1.gif" ALT="Figure 1"> View larger version (23K): org.highwire.dtl.DTLVardef@1849d1eorg.highwire.dtl.DTLVardef@16729a8org.highwire.dtl.DTLVardef@1dffe58org.highwire.dtl.DTLVardef@b36a52_HPS_FORMAT_FIGEXP M_FIG C_FIG

biochemistry↗

Temporal Dynamics of Cyanobacterial Bloom Community Composition and Toxin Production from Urban Lakes

With a long evolutionary history and a need to adapt to a changing environment, cyanobacteria in freshwater systems use specialized metabolites for communication, defense, and physiological processes. However, the role that these metabolites play in differentiating species, maintaining microbial communities, and generating niche persistence and expansion is poorly understood. Furthermore, many cyanobacterial specialized metabolites and toxins present significant human health concerns due to their liver toxicity and their potential impact to drinking water. Gaps in knowledge exist with respect to changes in species diversity and toxin production during a cyanobacterial bloom (cyanoHAB) event; addressing these gaps will improve understanding of impacts to public and ecological health. In the current project, we utilized a multi-omics strategy (DNA metabarcoding and metabolomics) to determine the cyanobacterial community composition, toxin profile, and the specialized metabolite pool at three freshwater lakes in Providence, RI during summer-fall cyanoHABs. Species diversity decreased at all study sites over the course of the bloom event, and toxin production reached a maximum at the midpoint of the event. Additionally, LC-MS/MS-based molecular networking identified new toxin congeners. This work provokes intriguing questions with respect to the use of allelopathy by organisms in these systems and the presence of emerging toxic compounds that can impact public health. SYNOPSISThis study reports on cyanobacterial community succession and toxin dynamics during cyanobacterial bloom events. Results show relationships and temporal dynamics that are relevant to public health.

pharmacology and toxicology↗

Spatial and Temporal Resolution of Cyanobacterial Bloom Chemistry Reveals an Open-Ocean Trichodesmium thiebautii as a Talented Producer of Specialized Metabolites

While the ecological role that Trichodesmium sp. play in nitrogen fixation has been widely studied, little information is available on potential specialized metabolites that are associated with blooms and standing stock Trichodesmium colonies. While a collection of biological material from a T. thiebautii bloom event from North Padre Island, TX in 2014 indicated that this species was a prolific producer of chlorinated specialized metabolites, additional spatial and temporal resolution was needed. We have completed these metabolite comparison studies, detailed in the current report, utilizing LC-MS/MS-based molecular networking to visualize and annotate the specialized metabolite composition of these Trichodesmium blooms and colonies in the Gulf of Mexico (GoM) and other waters. Our results showed that T. thiebautii blooms and colonies found in the GoM have a remarkably consistent specialized metabolome. Additionally, we isolated and characterized one new macrocyclic compound from T. thiebautii, trichothilone A (1), which was also detected in three independent cultures of T. erythraeum. Genome mining identified genes predicted to synthesize certain functional groups in the T. thiebautii metabolites. These results provoke intriguing questions of how these specialized metabolites affect Trichodesmium ecophysiology, symbioses with marine invertebrates, and niche development in the global oligotrophic ocean. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=140 SRC="FIGDIR/small/569781v1_ufig1.gif" ALT="Figure 1"> View larger version (52K): org.highwire.dtl.DTLVardef@7bce53org.highwire.dtl.DTLVardef@26d052org.highwire.dtl.DTLVardef@36d44aorg.highwire.dtl.DTLVardef@1ab85fb_HPS_FORMAT_FIGEXP M_FIG C_FIG

microbiology↗

Investigating and Identifying Traditional Medicinal Plant Antioxidants: New Frontiers in Treating Age-related Maladies Associated with Oxidative Stress

Oxidative stress is regarded as an imbalance between pro-oxidant and antioxidant species that can result in cellular inflammation associated with illnesses including cancers and cognitive decline. This study investigated medicinal plant extracts for the presence of natural bioactive compounds to explore their antioxidant properties and potential therapeutic relevance in conditions related to oxidative stress. Extracts were created using water as a solvent and compared in triplicate to the positive control quercetin (1 mg/mL) in a 2,2-diphenyl-1-picrylhydrazyl (DPPH) assay; all extracts were serially diluted from 10 mg/mL creating 8 distinct concentrations. Absorbance readings were compared before and after DPPH administration. At the highest concentration, all extracts demonstrated absorbance change factors <10% relative to the DPPH negative control. This result clearly demonstrated antioxidant activity, as lesser relative absorbance changes indicated greater neutralization of violet DPPH into lighter diphenylpicryl hydrazine via free radical scavenging. Most notably, at lowest concentration, Averrhoa carambola and Psidium guajava represented the least relative absorbance changes at 14.17% and 10.39%, rivaling quercetins antioxidant activity- a statistically significant result (p < 0.05). LC-MS/MS analysis of these most potent extracts identified quercetin and kaempferol in Psidium guajava and vitexin-2-O-rhamnoside, isovitexin, saponarin, and an additional flavonoid glycoside in Averrhoa carambola. Such compounds may offer potential pharmacological effects, for example, vitexin-2-O-rhamnoside and isovitexin have demonstrated anticancer, antidiabetic, neuroprotective, and cardioprotective properties in part through oxidative stress reduction. Future research should corroborate compound effects in human cell culture models, as prior studies are often limited to non-human tissues. INTRODUCTIONA medicinal plant is a plant that "contains substances that can be used for therapeutic purposes or which are precursors for the synthesis of useful drugs."1 Medicinal plants contain different classes of potentially bioactive compounds, including, but not limited to peptides, alkaloids, phenylpropanoids, polyketides, and terpenoids.2 Such compounds have alleged and in certain cases documented anticancer, anti-inflammatory, antioxidant, antibacterial, antipyretic, vasodilatory, stimulant, and/or more properties that have been historically used in traditional medicine.1,3 Evidence suggests that medicinal plants have been used for at least 60,000 years in places including what would be modern-day Iraq.4 Medicinal plants are still used all around the world today; Dr. Tedros Adhanom Ghebreyesus of the WHO says "For many millions of people around the world, traditional medicine is the first port of call to treat many diseases."5 In addition, the prevalence of medicinal plants is evident in developed countries too, with the medicinal plant trade between India and China accounting for two to five billion dollars annually.1 However, many of these traditional treatments receive significant scrutiny from modern medicine and societys decreasing reliance on plant-derived drugs. While such scrutiny proves accurate in many cases, several traditional medicinal plants have been shown to offer bioactive compounds that are used as a standard medical practice. This includes morphine, "a natural alkaloid that is derived from resin extracts from the seeds of the opium poppy,"3 which is utilized in clinical settings for its profound analgesic effects,3 and quinine, an antimalarial drug derived from Cinchona officinalis bark.6 The current research project presented herein will serve to test traditional medicinal plant compounds to determine if their claims of relevance can be substantiated and to explore their potential effects on biological organisms, specifically regarding their antioxidant properties and ability to eliminate free radicals. Free radicals are unstable molecular species with unpaired electrons,7 and can contribute to oxidative stress in organisms. Oxidative stress "is considered as an imbalance between pro- and antioxidant species, which results in molecular and cellular damage."8 Examples of known antioxidants include the polyphenol quercetin, which is often used as a positive control for its relative strength in reducing free radicals.9 Demonstrated efficacy of these medicinal plants could provide potential preventative therapies for age-related illnesses and other maladies associated with oxidative stress, including cancers and cognitive decline.8,9 RESEARCH QUESTIONS AND PURPOSEDo the traditional medicinal plants under investigation contain bioactive compounds with antioxidant properties capable of neutralizing free radicals in a 2,2-diphenyl-1-picrylhydrazyl (DPPH) assay? How does the efficacy of the plant extracts compare to the positive control, quercetin, and the associated samples in terms of antioxidant activity as measured by the DPPH assay? Do the extract compounds identified via LC-MS/MS analysis offer potential therapeutic relevance in modern medicine? With our research, we aimed to identify bioactive compounds within medicinal plants, determine if such medicinal plants and their bioactive compounds have applications in modern medical treatments, and ensure medicinal plants are being used safely and accurately under the support of sound scientific evidence.

biochemistry↗

A Universal Language for Finding Mass Spectrometry Data Patterns

Even though raw mass spectrometry data is information rich, the vast majority of the data is underutilized. The ability to interrogate these rich datasets is handicapped by the limited capability and flexibility of existing software. We introduce the Mass Spec Query Language (MassQL) that addresses these issues by enabling an expressive set of mass spectrometry patterns to be queried directly from raw data. MassQL is an open-source mass spectrometry query language for flexible and mass spectrometer manufacturer-independent mining of MS data. We envision the flexibility, scalability, and ease of use of MassQL will empower the mass spectrometry community to take fuller advantage of their mass spectrometry data and accelerate discoveries.

bioinformatics↗

Screening the PRISM library against Staphylococcus aureus reveals a sesquiterpene lactone from Liriodendron tulipifera with inhibitory activity

Infections caused by the bacterium Staphylococcus aureus continue to pose threats to human health and put a financial burden on the healthcare system. The overuse of antibiotics has contributed to mutations leading to the emergence of methicillin-resistant Staphylococcus aureus, and there is a critical need for the discovery and development of new antibiotics to evade drug resistant bacteria. Medicinal plants have shown promise as sources of new small molecule therapeutics with potential uses against pathogenic infections. The Principal Rhode Island Secondary Metabolite (PRISM) library is a botanical extract library generated from specimens in the URI Heber W. Youngken Jr. Medicinal Garden by upper-division undergraduate students. PRISM extracts were screened for activity against strains of methicillin-susceptible S. aureus (MSSA). An extract generated from the tulip tree (Liriodendron tulipifera) demonstrated growth inhibition against MSSA, and a bioassay-guided approach identified a sesquiterpene lactone, laurenobiolide, as the active constituent. Intriguingly, its isomers tulipinolide and epi-tulipinolide lacked potent activity against MSSA. Laurenobiolide also proved to be more potent against MSSA than the structurally similar sesquiterpene lactones constunolide and dehydrocostus lactone. Laurenobioloide was most abundant in the twig bark of the tulip tree, supporting the historical and cultural usage of twig bark in poultices and teas. ABSTRACT GRAPHIC O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=94 SRC="FIGDIR/small/494747v1_ufig1.gif" ALT="Figure 1"> View larger version (18K): org.highwire.dtl.DTLVardef@952221org.highwire.dtl.DTLVardef@f3a5daorg.highwire.dtl.DTLVardef@d91daorg.highwire.dtl.DTLVardef@e2a845_HPS_FORMAT_FIGEXP M_FIG C_FIG

microbiology↗

Emerging harmful algal blooms caused by distinct seasonal assemblages of the toxic diatom Pseudo-nitzschia in Narragansett Bay, RI, USA

The diatom Pseudo-nitzschia produces the neurotoxin domoic acid (DA) that bioaccumulates in shellfish, causing illness in humans and marine animals upon ingestion. In 2017, high levels of DA in shellfish meat closed shellfish harvest in Narragansett Bay (NBay), Rhode Island for the first time in history, although abundant Pseudo-nitzschia have been observed for over 50 years. What caused these events is unknown: whether an environmental factor altered endemic Pseudo-nitzschia physiology or new DA-producing strain(s) were introduced. To investigate, we conducted weekly sampling from 2017-2019 to compare with 2016 precautionary closure and 2017 closure samples. Particulate DA was quantified by highly sensitive LC-MS/MS and correlated with environmental metadata. Pseudo-nitzschia were identified using high-throughput rDNA sequencing, yielding a detailed understanding of distinct seasonal multi-species assemblages. Low DA was detected throughout 2017-2019, except in recurring peaks in the fall and early summer. Fall DA peaks contained toxigenic species (P. pungens var. pungens, P. multiseries, P. calliantha, and P. subpacifica) as well as a novel P. americana taxon. Fewer species were present during summer DA peaks including toxigenic P. multiseries, P. plurisecta, and P. delicatissima. Most 2017 closure samples contained P. australis. Our data showed P. australis as infrequent but particularly concerning. Recurring Pseudo-nitzschia assemblages were driven by seasonal temperature changes and DA correlated with low dissolved inorganic nitrogen. Thus, the NBay closures were likely caused by resident assemblages dependent on nutrient status as well as the episodic introductions of species that may be a result of oceanographic and climactic shifts.

ecology↗