Summary of Study ST003298
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 PR002049. The data can be accessed directly via it's Project DOI: 10.21228/M8RN7X This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST003298 |
| Study Title | Annual changes on metabolomics profile in latex |
| Study Summary | Natural rubber (NR) is an important material with excellent physical properties. Unlike synthetic rubber from petroleum, NR contains non-rubber components such as proteins, lipids, and metal ions. The non-rubber components are known to affect the properties of NR. In this study, latex samples of Hevea brasiliensis were collected for nine months and their metabolites were comprehensively analyzed by mass spectrometry. NR was made from the same latex samples used for the mass spectrometry, and their vulcanization, tensile and thermal-aging properties were assessed. These results suggest that the metabolite composition in the latex and the NR properties changed seasonally. Correlation analysis between the metabolites and the properties of NR indicated that different metabolites affected different properties. A regression model of NR properties using metabolites as the explanatory variables suggests that about five metabolites need to be considered when examining the relationship between properties and metabolites. This method, which combines comprehensive analysis and characterization of NR, contributes to studies aimed at elucidating how the superior properties of NR are brought about. |
| Institute | Sumitomo Riko Co., Ltd. |
| Department | Fundamental Material Development Laboratory |
| Last Name | Nobuyuki |
| First Name | Hiraoka |
| Address | 1, Higashi 3-chome, Komaki-shi, Aichi 485-8550, Japan |
| nobuyuki.hiraoka@jp.sumitomoriko.com | |
| Phone | +81-568-77-2132 |
| Submit Date | 2024-05-09 |
| Analysis Type Detail | LC-MS |
| Release Date | 2024-07-28 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002049 |
| Project DOI: | doi: 10.21228/M8RN7X |
| Project Title: | Annual changes on metabolomics profile in latex |
| Project Summary: | To clarify seasonal changes in metabolites contained in latex, we determine the metabolomics profile in latex of Hevea brasiliensis throughout the year. As a result, a total of more than 400 metabolites had difference not only in amount, but also in existence. |
| Institute: | Sumitomo Riko Co., Ltd. |
| Department: | Fundamental Material Development Laboratory |
| Last Name: | HIRAOKA |
| First Name: | Nobuyuki |
| Address: | 1, Higashi 3-chome, Komaki-shi, Aichi, 485-8550, Japan |
| Email: | nobuyuki.hiraoka@jp.sumitomoriko.com |
| Phone: | 0568-77-2132 |
Subject:
| Subject ID: | SU003419 |
| Subject Type: | Plant |
| Subject Species: | Hevea brasiliensis |
Factors:
Subject type: Plant; Subject species: Hevea brasiliensis (Factor headings shown in green)
| mb_sample_id | local_sample_id | Sample source | collected month |
|---|---|---|---|
| SA358061 | TFL278 | latex | Aug-22 |
| SA358062 | TFL290 | latex | Dec-22 |
| SA358063 | TFL293 | latex | Jan-23 |
| SA358064 | TFL275 | latex | Jul-22 |
| SA358065 | TFL272 | latex | Jun-22 |
| SA358066 | TFL269 | latex | May-22 |
| SA358067 | TFL287 | latex | Nov-22 |
| SA358068 | TFL284 | latex | Oct-22 |
| SA358069 | TFL281 | latex | Sep-22 |
| Showing results 1 to 9 of 9 |
Collection:
| Collection ID: | CO003412 |
| Collection Summary: | Latex was collected and combined from multiple trees (Hevea brasiliensis) within the same plantation on the same day. With this as one sample, one sample was collected every month from May 2022 to January 2023. |
| Sample Type: | Latex |
| Storage Conditions: | 4℃ |
Treatment:
| Treatment ID: | TR003428 |
| Treatment Summary: | Compared to the normal growing environment on the farm, the trees from which the latex was collected are not subjected to any special treatment. Ammonia was added to the latex to prevent coagulation. |
Sample Preparation:
| Sampleprep ID: | SP003426 |
| Sampleprep Summary: | For CE-TOFMS, the latex was plunged into methanol containing internal standards. The latex sample was homogenized thrice, and then centrifuged. The upper aqueous layer was centrifugally filtered to remove the proteins. The filtrate was then centrifugally concentrated and re-suspended in Milli-Q water for CE-MS analysis. For LC-TOFMS, the latex was plunged into 1% formic acid/acetonitrile containing the internal standard solution. The latex sample was homogenized thrice, and the mixture was yet again homogenized after adding Milli-Q water and then centrifuged. The supernatant was collected and 1% formic acid/acetonitrile and Milli-Q water were added to the precipitate. Homogenization and centrifugation were performed as described previously, and the supernatant was mixed with previously collected one. The mixed supernatant was filtrated to remove the proteins and phospholipids. The filtrate was then desiccated and dissolved in 1% isopropanol/Milli-Q water for LC-MS analysis. |
| Processing Storage Conditions: | Room temperature |
| Extract Storage: | -80℃ |
Combined analysis:
| Analysis ID | AN005402 | AN005403 | AN005404 | AN005405 |
|---|---|---|---|---|
| Analysis type | MS | MS | MS | MS |
| Chromatography type | CE | CE | Reversed phase | Reversed phase |
| Chromatography system | Agilent CE | Agilent CE | Agilent 1200 series RRLC system SL | Agilent 1200 series RRLC system SL |
| Column | Fused silica capillary i.d. 50 μm × 80 cm | Fused silica capillary i.d. 50 μm × 80 cm | Osaka Soda capcell pak c18 if (50 x 2mm,3um) | Osaka Soda capcell pak c18 if (50 x 2mm,3um) |
| MS Type | ESI | ESI | ESI | ESI |
| MS instrument type | Other | Other | Other | Other |
| MS instrument name | Agilent 6210 TOF | Agilent 6210 TOF | Agilent 6210 TOF | Agilent 6210 TOF |
| Ion Mode | POSITIVE | NEGATIVE | POSITIVE | NEGATIVE |
| Units | Relative Area | Relative Area | Relative Area | Relative Area |
Chromatography:
| Chromatography ID: | CH004095 |
| Instrument Name: | Agilent CE |
| Column Name: | Fused silica capillary i.d. 50 μm × 80 cm |
| Column Temperature: | 20°C |
| Flow Gradient: | not gradient |
| Flow Rate: | - |
| Solvent A: | Cation Buffer Solution (p/n : H3301-1001) |
| Solvent B: | Cation Buffer Solution (p/n : H3301-1001) |
| Chromatography Type: | CE |
| Chromatography ID: | CH004096 |
| Instrument Name: | Agilent CE |
| Column Name: | Fused silica capillary i.d. 50 μm × 80 cm |
| Column Temperature: | 20°C |
| Flow Gradient: | not gradient |
| Flow Rate: | - |
| Solvent A: | Anion Buffer Solution (p/n : I3302-1023) |
| Solvent B: | Anion Buffer Solution (p/n : I3302-1023) |
| Chromatography Type: | CE |
| Chromatography ID: | CH004097 |
| Chromatography Comments: | Link for columns : https://sub.osaka-soda.co.jp/HPLC/column/if_index.html |
| Instrument Name: | Agilent 1200 series RRLC system SL |
| Column Name: | Osaka Soda capcell pak c18 if (50 x 2mm,3um) |
| Column Temperature: | 40℃ |
| Flow Gradient: | 0-0.5 min: B 1%, 0.5-13.5 min: B 1-100%, 13.5-20 min: B 100% |
| Flow Rate: | 0.3 mL / min |
| Solvent A: | 100% Water; 0.1% Formic acid |
| Solvent B: | 65% Isopropanol, 30% Acetonitrile 5% Water; 0.1% Formic acid, 2 mM Ammonium formate |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH004098 |
| Chromatography Comments: | Link for columns : https://sub.osaka-soda.co.jp/HPLC/column/if_index.html |
| Instrument Name: | Agilent 1200 series RRLC system SL |
| Column Name: | Osaka Soda capcell pak c18 if (50 x 2mm,3um) |
| Column Temperature: | 40℃ |
| Flow Gradient: | 0-0.5 min: B 1%, 0.5-13.5 min: B 1-100%, 13.5-20 min: B 100% |
| Flow Rate: | 0.3 mL / min |
| Solvent A: | 100% Water; 0.1% Formic acid |
| Solvent B: | 65% Isopropanol, 30% Acetonitrile 5% Water; 0.1% Formic acid, 2 mM Ammonium formate |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS005129 |
| Analysis ID: | AN005402 |
| Instrument Name: | Agilent 6210 TOF |
| Instrument Type: | Other |
| MS Type: | ESI |
| MS Comments: | The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using automatic integration software MasterHands (Keio University, Tsuruoka, Japan). Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and the remaining peaks were annotated according to HMT’s metabolite database based on their m/z values and MTs. Areas of the annotated peaks were then normalized to internal standards and sample amount in order to obtain relative levels of each metabolite. |
| Ion Mode: | POSITIVE |
| MS ID: | MS005130 |
| Analysis ID: | AN005403 |
| Instrument Name: | Agilent 6210 TOF |
| Instrument Type: | Other |
| MS Type: | ESI |
| MS Comments: | The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using automatic integration software MasterHands (Keio University, Tsuruoka, Japan). Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and the remaining peaks were annotated according to HMT’s metabolite database based on their m/z values and MTs. Areas of the annotated peaks were then normalized to internal standards and sample amount in order to obtain relative levels of each metabolite. |
| Ion Mode: | NEGATIVE |
| MS ID: | MS005131 |
| Analysis ID: | AN005404 |
| Instrument Name: | Agilent 6210 TOF |
| Instrument Type: | Other |
| MS Type: | ESI |
| MS Comments: | The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using automatic integration software MasterHands (Keio University, Tsuruoka, Japan). Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and the remaining peaks were annotated according to HMT’s metabolite database based on their m/z values and RTs. Areas of the annotated peaks were then normalized to internal standards and sample amount in order to obtain relative levels of each metabolite. |
| Ion Mode: | POSITIVE |
| MS ID: | MS005132 |
| Analysis ID: | AN005405 |
| Instrument Name: | Agilent 6210 TOF |
| Instrument Type: | Other |
| MS Type: | ESI |
| MS Comments: | The spectrometer was scanned from m/z 50 to 1,000. Peaks were extracted using automatic integration software MasterHands (Keio University, Tsuruoka, Japan). Signal peaks corresponding to isotopomers, adduct ions, and other product ions of known metabolites were excluded, and the remaining peaks were annotated according to HMT’s metabolite database based on their m/z values and RTs. Areas of the annotated peaks were then normalized to internal standards and sample amount in order to obtain relative levels of each metabolite. |
| Ion Mode: | NEGATIVE |
