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GNPS - Lacinutrix shetlandiensis sp. nov. WUR7 SPE-fractions DDA runs

ABSTRACT: The samples were analyzed by Dr. Ernest Oppong-Danquah, while molecular newtorking and chemoinformatic analysis were operated by Dr. Giovanni Andrea Vitale. The sample runs were executed in positive mode with the following conditions: capillary voltage: 3.0 kV, sample cone voltage: 30 V, source temperature: 150 C. A scan range from 50 to 1200 Da was used, MS2 fragmentation was achieved in DDA mode, with ramp collision energy: Low CE from 20_60 eV and a high CE of 40_80 eV.

INSTRUMENT(S): Xevo G2-XS QTof

ORGANISM(S): Lacinutrix Shetlandiensis Sp. Nov. Wur7

SUBMITTER: Deniz Tasdemir

PROVIDER: MSV000092278 | GNPS | Tue Jun 27 05:33:00 BST 2023

REPOSITORIES: GNPS

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Publications

A metabologenomics approach to unlock the metabolome of the novel Antarctic deep-sea isolate <i>Lacinutrix shetlandiensis</i> sp. nov. WUR7.

Vitale Giovanni A GA January Grant G GG Oppong-Danquah Ernest E Della Sala Gerardo G Palma Esposito Fortunato F Tasdemir Deniz D de Pascale Donatella D

PNAS nexus 20230706 7

The South Shetland Trough, Antarctica, is an underexplored region for microbiological and biotechnological exploitation. Herein, we describe the isolation and characterization of the novel bacterium <i>Lacinutrix shetlandiensis</i> sp. nov. WUR7 from a deep-sea environment. We explored its chemical diversity via a metabologenomics approach, wherein the OSMAC strategy was strategically employed to upregulate cryptic genes for secondary metabolite production. Based on hybrid de novo whole genome s ...[more]

PMID: 37448956

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Lacinutrix shetlandiensis sp. nov. WUR7 SPE-fractions DDA runs

Project description:The samples were analyzed by Dr. Ernest Oppong-Danquah, while molecular newtorking and chemoinformatic analysis were operated by Dr. Giovanni Andrea Vitale. The sample runs were executed in positive mode with the following conditions: capillary voltage: 3.0 kV, sample cone voltage: 30 V, source temperature: 150 C. A scan range from 50 to 1200 Da was used, MS2 fragmentation was achieved in DDA mode, with ramp collision energy: Low CE from 20_60 eV and a high CE of 40_80 eV.

2023-06-27 | MSV000092278 | MassIVE

Lacinutrix shetlandiensis sp. nov. WUR7 extracts profiling

Project description:The MS was recorded by Dr. Giovanni Andrea Vitale in positive mode for all the ions in the mass range 150-1500 m/z, MS2 spectra were recorded for the most intense 5 ions mass in the range 150-1500 m/z, using a collision energy (CE): 40 eV, a scan rate: 10,000 Da/s, capillary voltage: 4.5 kV, source temperature: 200 C, declustering potential:150 V.

2023-06-27 | MSV000092280 | MassIVE

Site-specific N-linked glycosylation analysis of human carcinoembryonic antigen

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GNPS - Lacinutrix shetlandiensis sp. nov. WUR7 extracts profiling

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On-capillary cell lysis enables top-down proteomic analysis of single HeLa cells by CE-MS/MS

Project description:Proteomic analysis of limited samples and single cells requires specialized methods that prioritize high sensitivity and minimize sample loss. Consequently, sample preparation is one of the most important steps in limited sample analysis workflows to prevent sample loss. In this work, we have eliminated sample handling and transfer steps by processing intact cells directly in the separation capillary, online with capillary electrophoresis coupled to tandem mass spectrometry (CE-MS/MS) for top-down proteomic (TDP) analysis of low numbers of mammalian cancer cells (<10) and single cells. We assessed spray voltage injection of intact cells from a droplet of cell suspension (~1,000 cells) and demonstrated 0-9 intact cells injected with a dependency on the duration of spray voltage application. Application of spray voltage for 2 min injected an average of 7±2 cells and resulted in 33-57 protein and 40-88 proteoform identifications (N=4). To analyze single cells, manual cell loading by hydrodynamic pressure was used. Replicates of single cells (N=4) lysed on the capillary and analyzed by CE-MS/MS demonstrated a range of 17-40 proteins and 23-50 proteoforms identified. Furthermore, an additional cell line, THP-1, was analyzed at the single-cell level and proteoform abundances were compared to show the capabilities of single-cell top-down proteomics (SC-TDP) for assessing cellular heterogeneity. This study demonstrates the initial application of TDP in single-cell proteome-level profiling. These results represent the highest reported identifications from TDP analysis of a single HeLa cell and prove the tremendous potential for CE-MS/MS on-capillary sample processing for high sensitivity analysis of single cells and limited samples.

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Collected mass spectrometry data on monoterpene indole alkaloids from natural product chemistry research

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