Summary of Study ST001156
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 PR000775. The data can be accessed directly via it's Project DOI: 10.21228/M8H98P 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 | ST001156 |
| Study Title | Comparative Metabolomic Profiling of Two Contrasting Date Palm Genotypes under Salinity Stress |
| Study Summary | Since metabolites are the net products of the central dogma of cellular biology, this study was aimed to decipher salinity tolerance depends on the information encoded by the metabolomic profiles of the salt tolerant ‘Umsila’ and susceptible ‘Zabad’ cultivars when grown under salinity. Changes in the metabolomic profiles of the leaf and root tissues were determined using hydrophilic interaction liquid chromatography (HILIC) and reverse phase liquid (RPLC) mass spectrometry. |
| Institute | Sultan Qaboos University |
| Last Name | Yaish |
| First Name | Mahmoud |
| Address | Department of Biology, College of Science, Sultan Qaboos University |
| mack.yaish@gmail.com | |
| Phone | 968 24146823 |
| Submit Date | 2019-03-18 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | metdb |
| Analysis Type Detail | LC-MS |
| Release Date | 2020-03-18 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000775 |
| Project DOI: | doi: 10.21228/M8H98P |
| Project Title: | The Effect of Silicon on Salinity Tolerance and the Associated Metabolomics Profile Changes in Date Palm |
| Project Summary: | Since metabolites are the net products of the central dogma of cellular biology, this study was aimed to decipher salinity tolerance depends on the information encoded by the metabolomic profiles of the salt tolerant ‘Umsila’ and susceptible ‘Zabad’ cultivars when grown under salinity. Changes in the metabolomic profiles of the leaf and root tissues were determined using hydrophilic interaction liquid chromatography (HILIC) and reverse phase liquid (RPLC) mass spectrometery. |
| Institute: | Sultan Qaboos University |
| Department: | Biology |
| Laboratory: | Plant Molecular Biology |
| Last Name: | Yaish |
| First Name: | Mahmoud |
| Address: | Department of Biology, College of Science, Sultan Qaboos University |
| Email: | mack.yaish@gmail.com |
| Phone: | 96824146823 |
Subject:
| Subject ID: | SU001221 |
| Subject Type: | Plant |
| Subject Species: | Phoenix dactylifera |
| Taxonomy ID: | 42345 |
Factors:
Subject type: Plant; Subject species: Phoenix dactylifera (Factor headings shown in green)
| mb_sample_id | local_sample_id | Factor |
|---|---|---|
| SA080312 | MCLU-2 | control leaf Umsila |
| SA080313 | MCLU-3 | control leaf Umsila |
| SA080314 | MCLU-1 | control leaf Umsila |
| SA080315 | MCLZ-3 | control leaf Zabad |
| SA080316 | MCLZ-1 | control leaf Zabad |
| SA080317 | MCLZ-2 | control leaf Zabad |
| SA080294 | MCRU-1 | Control root Umsila |
| SA080295 | MCRU-2 | Control root Umsila |
| SA080296 | MCRU-3 | Control root Umsila |
| SA080297 | MCRZ-2 | Control root Zabad |
| SA080298 | MCRZ-3 | Control root Zabad |
| SA080299 | MCRZ-1 | Control root Zabad |
| SA080300 | MTLU-3 | Treated leaf Umsila |
| SA080301 | MTLU-2 | Treated leaf Umsila |
| SA080302 | MTLU-1 | Treated leaf Umsila |
| SA080303 | MTLZ-2 | Treated leaf Zabad |
| SA080304 | MTLZ-1 | Treated leaf Zabad |
| SA080305 | MTLZ-3 | Treated leaf Zabad |
| SA080306 | MTRU-3 | Treated root Umsila |
| SA080307 | MTRU-2 | Treated root Umsila |
| SA080308 | MTRU-1 | Treated root Umsila |
| SA080309 | MTRZ-3 | Treated root Zabad |
| SA080310 | MTRZ-1 | Treated root Zabad |
| SA080311 | MTRZ-2 | Treated root Zabad |
| Showing results 1 to 24 of 24 |
Collection:
| Collection ID: | CO001215 |
| Collection Summary: | Leaf and root tissues of Umsila and Zabad cultivars were collected after irrigation either with water or NaCl solution. |
| Sample Type: | Plant |
Treatment:
| Treatment ID: | TR001236 |
| Treatment Summary: | Seedlings were either irrigated with water or NaCl solution for about 2 months. |
Sample Preparation:
| Sampleprep ID: | SP001229 |
| Sampleprep Summary: | Metabolomics and basic data analysis were carried out for service charges at proteomics and mass spectrometry facility, Donald Danforth Plant Science Centre, Sant Louis, USA, using liquid chromatography mass spectrometry. Briefly, a total of 24 samples were analyzed for polar metabolites using hydrophilic interaction liquid chromatography (HILIC) and nonpolar metabolites using reverse phase liquid chromatography (RPLC). The Samples were extracted in 80% methanol at a tissue concentration of 100 mg/mL by a vortex for 10 minutes. The solids were collected by centrifugation, and then the supernatant was filtered through a 0.8 μm spin filter. The extracts were injected into the LC-MS and the data was acquired in polarity switching mode with data dependent acquisition of MS/MS spectra. |
Combined analysis:
| Analysis ID | AN001913 | AN001914 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | HILIC | Reversed phase |
| Chromatography system | Thermo Q-Exactive | Thermo Q-Exactive |
| Column | chromatography on a 0.5 x 150mm | 0.5 x 100 mm PLRPS column |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
| Ion Mode | UNSPECIFIED | UNSPECIFIED |
| Units | log10(peak area) | log10(peak area) |
Chromatography:
| Chromatography ID: | CH001386 |
| Instrument Name: | Thermo Q-Exactive |
| Column Name: | chromatography on a 0.5 x 150mm |
| Chromatography Type: | HILIC |
| Chromatography ID: | CH001387 |
| Instrument Name: | Thermo Q-Exactive |
| Column Name: | 0.5 x 100 mm PLRPS column |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001769 |
| Analysis ID: | AN001913 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | The ion mode is polarity-switching, which means it scans in positive and negative ion mode during the sample run, switching between the two modes about every 20 milliseconds. |
| Ion Mode: | UNSPECIFIED |
| MS ID: | MS001770 |
| Analysis ID: | AN001914 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | The ion mode is polarity-switching, which means it scans in positive and negative ion mode during the sample run, switching between the two modes about every 20 milliseconds. |
| Ion Mode: | UNSPECIFIED |
