Dataset Information

LCMS-Metabolomic Profiling and Genome Mining of Delftia lacustris DSMZ 21246 Revealed Four New Delftibactin Metallophores

ABSTRACT: This dataset encompasses the metabolomic profile of Delftia lacustris DSMZ 21246 cultivated on DMS (iron-limited defined medium). Additionally, as a duplicate, 50% ACN SPE fractions obtained from both high and low supplementation experiments have been incorporated. The dataset also comprises the HPLC-purified fractions of the bacterium grown under identical conditions. Lastly, the 50% ACN SPE fractions resulting from the interaction of compound 1 with iron, gold, and copper have been included.

INSTRUMENT(S): 6530C Q-TOF LC/MS (Agilent instrument model)

ORGANISM(S): Delftia Lacustris (ncbitaxon:558537)

SUBMITTER: Paul Boudreau

PROVIDER: MSV000093629 | MassIVE | Mon Dec 11 07:43:00 GMT 2023

REPOSITORIES: MassIVE

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LCMS-Metabolomic Profiling and Genome Mining of <i>Delftia lacustris</i> DSM 21246 Revealed Lipophilic Delftibactin Metallophores.

Ahmed Mohammed M A MMA Boudreau Paul D PD

Journal of natural products 20240513 5

Bacteria have evolved various strategies to combat heavy metal stress, including the secretion of small molecules, known as metallophores. These molecules hold a potential role in the mitigation of toxic metal contamination from the environment (bioremediation). Herein, we employed combined comparative metabolomic and genomic analyses to study the metallophores excreted by <i>Delftia lacustris</i> DSM 21246. LCMS-metabolomic analysis of this bacterium cultured under iron limitation led to a suit ...[more]

PMID: 38739531

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Project description:Copper and iron are essential micronutrients for most living organisms because they participate as cofactors in biological processes including respiration, photosynthesis and oxidative stress protection. In many eukaryotic organisms, including yeast and mammals, copper and iron homeostases are highly interconnected; however such interdependence is not well established in higher plants. Here we propose that COPT2, a high-affinity copper transport protein, functions under copper and iron deficiencies in Arabidopsis thaliana. COPT2 is a plasma membrane protein that functions in copper acquisition and distribution. Characterization of the COPT2 expression pattern indicates a synergic response to copper and iron limitation in roots. We have characterized a knockout of COPT2, copt2-1, that leads to increased resistance to simultaneous copper and iron deficiencies, measured as reduced leaf chlorosis and improved maintenance of the photosynthetic apparatus. We propose that COPT2 expression could play a dual role under Fe deficiency. First, COPT2 participates in the attenuation of copper deficiency responses driven by iron limitation maybe aimed to minimize further iron consume. On the other hand, global expression analyses of copt2-1 mutants versus wild type Arabidopsis plants indicate that low phosphate responses are increased in copt2-1 plants. In this sense, COPT2 function under Fe deficiency counteracts low phosphate responses. These results open up new biotechnological approaches to fight iron deficiency in crops. Four biological replicates of Arabidopsis seedlings were generated for 2 genotypes, Col-0 and copt2-1 mutant; and 3 growth condictions; first one an iron(Fe) and copper(Cu) sufficient medium (+Fe + Cu), second one an Fe deficient and Cu sufficient medium (-Fe+Cu) and third one an Fe and Cu deficient medium (-Fe-Cu). For each growth one comparasion was made, copt2-1 mutant versus Col-0; in each comparasion four biological replicates were made, two replicas were labeled with Cy5 for the mutant sample and Cy3 for the Col-0 sample, while the other two replicas were reversed-labeled.

Project description:Gene expression along the crypt-villus (C-V) axis was analyzed using cryostat sectioning to isolate fractions representing the crypts (bottom) and villus tops (top). These fractions were used for analyzing gene expression in iron replete Wistar rats (++), iron deficient Wistar rats (low iron), and in iron deficient Wistar rats fed iron for 3 and 6 days (iron-fed). Differences were observed between the crypts and villus tops in the expression of genes associated with Wnt and BNP signaling, cell proliferation and apoptosis, lipid and iron transport and metabolism. Gene expression in villus crypts and tops was also compared between Wistar and Belgrade rats (bb) and Belgrade rats fed iron (iron-fed) particularly as related to iron absorption and metabolism to define the affects of the mutation in DMT1 in the Belgrade rat on the expression of genes related to iron absorption and metabolism and the response to iron feeding. Keywords: iron stress response A colony of Wistar strain rats (++) and Belgrade (bb) rats on a Wistar background maintained in our animal quarters was used for this study. Twelve one-month old ++ rats were separated into 3 groups of four rats each. Group 1 rats (samples 1-8) were fed a normal diet and served as control animals. Group 2 (samples 9-16) and Group 3 rats (samples 17-22) were fed a low iron diet and bled 2-3 ml every three days for 4 weeks and served as iron deficient rats (low-iron). Group 3 rats, of which one rat died during anesthesia while undergoing phlebotomy, were fed iron supplementation in drinking water (50 ÂµM Ferric ammonium citrate) for the three days before sacrifice (iron-fed). Rats were fasted overnight, killed by injection of pentobarbital sodium and a 1-cm duodenal segment 1 cm distal from the pylorus was cryostat sectioned at the right angle to the crypt-villus axis and the sections representing the top one-third of villus (top) and the bottom one-third of the villus were pooled for RNA isolation. For the study of Belgrade rats, eleven bb rats were divided into 3 groups with the 4 rats in Group 1 (samples 23-30) maintained on a normal diet, the 4 rats in Group 2 (samples 31-38) fed iron for 3 days prior to sacrifice, and the 3 rats in Group 3 (samples 39-44) fed iron for 6 days prior to sacrifice. All procedures for the bb rats were the same as described above for the ++ rats. An additional ++ rat (samples 45-46) was similarly analyzed in a separate experiment.

Dataset Information

LCMS-Metabolomic Profiling and Genome Mining of Delftia lacustris DSMZ 21246 Revealed Four New Delftibactin Metallophores

Dataset's files

Publications

LCMS-Metabolomic Profiling and Genome Mining of <i>Delftia lacustris</i> DSM 21246 Revealed Lipophilic Delftibactin Metallophores.

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Dataset Information

LCMS-Metabolomic Profiling and Genome Mining of Delftia lacustris DSMZ 21246 Revealed Four New Delftibactin Metallophores

Dataset's files

Publications

LCMS-Metabolomic Profiling and Genome Mining of &lt;i&gt;Delftia lacustris&lt;/i&gt; DSM 21246 Revealed Lipophilic Delftibactin Metallophores.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

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LCMS-Metabolomic Profiling and Genome Mining of <i>Delftia lacustris</i> DSM 21246 Revealed Lipophilic Delftibactin Metallophores.