Summary of Study ST003016
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001877. The data can be accessed directly via it's Project DOI: 10.21228/M83F09 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST003016 |
| Study Title | Metabolomics analysis of Cormus domestica (L.) fruits and the valorisation of an ethnobotanical heritage of culinary and medicinal uses in Italy |
| Study Type | Untargeted MS-based metabolomics |
| Study Summary | Cormus domestica (L.) is a monophyletic wild fruit tree belonging to the Rosaceae family, with well-documented use in the Mediterranean region. Traditionally, these fruits are harvested and stored for at least 2 weeks before consumption. During this period, the fruit reaches its well-known and peculiar organoleptic and texture characteristics. However, the spread of more profitable fruit tree species, resulted in its progressive erosion. In this work we performed proteomic and metabolomic fruit analyses at three times after harvesting to provide data on its chemical composition and nutritional and nutraceutical properties. |
| Institute | Università degli Studi del Sannio (Benevento, Italy) and University of Córdoba (Spain) |
| Department | University of Sannio, Department of Science and Technology, via de Sanctis, Benevento 82100 Italy AND University of Córdoba, Department of Biochemistry and Molecular Biology, Spain |
| Laboratory | Integrated Laboratory of Animal and Plant Biology for Environment and Health (Italy) AND Agroforestry and Plant Biochemistry, Proteomics and Systems Biology (Spain) |
| Last Name | Tienda |
| First Name | Marta |
| Address | Campus de Rabanales, Córdoba, Córdoba, 14014, Spain |
| b72tipam@uco.es | |
| Phone | 634925272 |
| Submit Date | 2023-12-18 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzXML |
| Analysis Type Detail | Other |
| Release Date | 2024-01-10 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001877 |
| Project DOI: | doi: 10.21228/M83F09 |
| Project Title: | Metabolomics analysis of Cormus domestica (L.) fruits and the valorisation of an ethnobotanical heritage of culinary and medicinal uses in Italy |
| Project Type: | LC-MS analysis |
| Project Summary: | Cormus domestica (L.) is a monophyletic wild fruit tree belonging to the Rosaceae family, with well-documented use in the Mediterranean region. Traditionally, these fruits are harvested and stored for at least 2 weeks before consumption. During this period, the fruit reaches its well-known and peculiar organoleptic and texture characteristics. However, the spread of more profitable fruit tree species, resulted in its progressive erosion. In this work we performed proteomic and metabolomic fruit analyses at three times after harvesting to provide data on its chemical composition and nutritional and nutraceutical properties. |
| Institute: | Università degli Studi del Sannio (Benevento, Italy) |
| Department: | University of Sannio, Department of Science and Technology, via de Sanctis, Benevento 82100 Italy AND University of Córdoba, Department of Biochemistry and Molecular Biology, Spain |
| Laboratory: | Integrated Laboratory of Animal and Plant Biology for Environment and Health (Italy) AND Agroforestry and Plant Biochemistry, Proteomics and Systems Biology (Spain) |
| Last Name: | Tienda |
| First Name: | Marta |
| Address: | Pz/ Escultor Ruiz Olmos 2, 5-3 |
| Email: | b72tipam@uco.es |
| Phone: | 634925272 |
| Funding Source: | This research was funded by Progetto DICOVALE (CUP B24I19000440009), Programma di Sviluppo Rurale 2014-2020. SOTTOMISURA 10.2.1 “Conservazione delle risorse generiche autoctone a tutela della biodiversità – RGV Risorse Genetiche Vegetali” |
Subject:
| Subject ID: | SU003130 |
| Subject Type: | Plant |
| Subject Species: | Cormus domestica (L.) |
| Taxonomy ID: | 36606 |
Factors:
Subject type: Plant; Subject species: Cormus domestica (L.) (Factor headings shown in green)
| mb_sample_id | local_sample_id | Time |
|---|---|---|
| SA327571 | 1_FS | T1 |
| SA327572 | 3_FS | T1 |
| SA327573 | 2_FS | T1 |
| SA327574 | 6_FS | T2 |
| SA327575 | 5_FS | T2 |
| SA327576 | 4_FS | T2 |
| SA327577 | 9_FS | T3 |
| SA327578 | 8_FS | T3 |
| SA327579 | 7_FS | T3 |
| Showing results 1 to 9 of 9 |
Collection:
| Collection ID: | CO003123 |
| Collection Summary: | The fruits of Cormus domestica (L.) were collected in Campania, Italy in September 2021 from three different trees located in the same area with slightly alkaline, sandy and well drained soils (Figure 5). The climate in this area is typically Mediterranean, with average minimum winter temperatures of 8°C and 24°C in summer and average annual rainfall of around 900 mm. The harvested fruits (T0) were transported to the laboratory where the traditional post-harvest ripening procedure for these fruits was applied, which involves staying in a ventilated, cool and dry place in the dark for a period of about 2 weeks (T1). Ripening continued for a further 2 weeks until the fruit had completely turned brown (T2). |
| Sample Type: | Plant |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR003139 |
| Treatment Summary: | The harvested fruits (T1) were transported to the laboratory where the traditional post-harvest ripening procedure for these fruits was applied, which involves staying in a ventilated, cool and dry place in the dark for a period of about 2 weeks (T2). Ripening continued for a further 2 weeks until the fruit had completely turned brown (T3). |
| Plant Growth Location: | Campania, Italy in September 2021 from three different trees located in the same area with slightly alkaline, sandy and well drained soils |
| Plant Metab Quench Method: | Liquid N2 |
| Plant Storage: | Freeze-dried |
Sample Preparation:
| Sampleprep ID: | SP003136 |
| Sampleprep Summary: | For metabolite extraction, three replicates were taken for each ripening stage considered (T1-T2-T3). Fruits were washed in deionised water, freeze-dried and pulverised in liquid nitrogen. Metabolites were then extracted from 30 milligrams of sample using 600 microlitres of cold ethanol:water (4:1) extraction solution while stirring for 10 s. The mixture was sonicated (40 kHZ for 10 min) and centrifuged (20,000 g, 4°C, 4 min), the supernatant thus obtained was transferred to a new tube and the extraction was repeated on the pellet with a further 600 microlitres of ethanol:water (4:1). |
| Processing Method: | Ethanol:Water |
| Processing Storage Conditions: | On ice |
| Extraction Method: | Ethanol:Water |
| Extract Cleanup: | Centrifugation |
| Extract Storage: | -80℃ |
| Sample Resuspension: | Methanol |
| Sample Derivatization: | NO |
| Sample Spiking: | NO |
Combined analysis:
| Analysis ID | AN004949 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Waters Acquity |
| Column | Waters ACQUITY UPLC BEH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI |
| MS instrument type | QTRAP |
| MS instrument name | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE |
| Units | Peak Area |
Chromatography:
| Chromatography ID: | CH003734 |
| Chromatography Summary: | Chromatographic separations were performed using an Acquity UPLC BEH C18 column (2.1 x 100 mm, 1.7 µm) (Waters). The column was maintained at 40 °C and eluted under the following conditions: 5% B for 1 min, linear gradient from 5% to 100% in solvent B for 9 min, isocratic at 100% B for 2 min, and return to initial conditions, 5% B for 3 min. A flow rate of 0.5 mL/min was used. Eluent A was 0.1% formic acid in water and eluent B was 0.1% formic acid in methanol. Injection volume was 5 µl. |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC BEH C18 (100 x 2.1mm,1.7um) |
| Column Temperature: | 40ºC |
| Flow Gradient: | 5% B for 1 min, linear gradient from 5% to 100% in solvent B for 9 min, isocratic at 100% B for 2 min, and return to initial conditions, 5% B for 3 min. |
| Flow Rate: | 0.5 mL/min |
| Solvent A: | 0.1 % formic acid in water |
| Solvent B: | 0.1 % formic acid in methanol |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS004689 |
| Analysis ID: | AN004949 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | QTRAP |
| MS Type: | ESI |
| MS Comments: | POS Instrument control and data acquisition was carried out using Xcalibur v.4.3 software. Data treatment, alignment (with a maximum shift of 0.1 min and a mass tolerance of 5 ppm), peak selection, deconvolution, normalization and annotation were performed using Compound Discoverer v3.1 (Thermo Fisher Scientific, Bremen, Germany). |
| Ion Mode: | POSITIVE |
