Summary of Study ST004479
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 PR002826. The data can be accessed directly via it's Project DOI: 10.21228/M8CG38 This work is supported by NIH grant, U2C- DK119886. See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST004479 |
| Study Title | Metabolomics to decipher the impact of the adjunct culture Lactiplantibacillus plantarum NDF28B2 on yoghurt quality |
| Study Summary | This project employed untargeted metabolomics to decipher the impact of the adjunct culture Lactiplantibacillus plantarum NDF28B2 on yoghurt quality. Co-fermentation induced a profound metabolic reprogramming of the yoghurt metabolome. This was characterized by a marked enrichment of key flavor compounds, particularly 2,3-butanedione, which imparts desirable buttery and creamy notes. Concurrently, we observed a broad accumulation of amino acids, peptides, and lipids, alongside the selective depletion of specific precursors. These changes are consistent with enhanced proteolytic and lipolytic activities, which contribute to both the development of a superior, complex flavor profile and significant alterations in texture. The findings demonstrate that L. plantarum NDF28B2 acts as a powerful metabolic driver, collectively reshaping the sensory and nutritional landscape of yoghurt through targeted modulation of its biochemical composition. |
| Institute | Jiangnan University |
| Last Name | Xiao |
| First Name | Nan |
| Address | Jiangnan University, No.1800 Lihu Avenue, Wuxi City, Jiangsu Province, Wuxi, Jiangsu, 214000, China |
| 6230112091@stu.jiangnan.edu.cn | |
| Phone | 19850160696 |
| Submit Date | 2025-11-26 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML, raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2026-01-06 |
| Release Version | 1 |
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Project:
| Project ID: | PR002826 |
| Project DOI: | doi: 10.21228/M8CG38 |
| Project Title: | Untargeted metabolomics analysis of fermented milk |
| Project Summary: | This project employed untargeted metabolomics to decipher the impact of the adjunct culture Lactiplantibacillus plantarum NDF28B2 on yoghurt quality. Co-fermentation induced a profound metabolic reprogramming of the yoghurt metabolome. This was characterized by a marked enrichment of key flavor compounds, particularly 2,3-butanedione, which imparts desirable buttery and creamy notes. Concurrently, we observed a broad accumulation of amino acids, peptides, and lipids, alongside the selective depletion of specific precursors. These changes are consistent with enhanced proteolytic and lipolytic activities, which contribute to both the development of a superior, complex flavor profile and significant alterations in texture. The findings demonstrate that L. plantarum NDF28B2 acts as a powerful metabolic driver, collectively reshaping the sensory and nutritional landscape of yoghurt through targeted modulation of its biochemical composition. |
| Institute: | Jiangnan University |
| Department: | school of food science and technology |
| Last Name: | Xiao |
| First Name: | Nan |
| Address: | Jiangnan University, No.1800 Lihu Avenue, Wuxi City, Jiangsu Province, Wuxi, Jiangsu, 214000, China |
| Email: | 6230112091@stu.jiangnan.edu.cn |
| Phone: | 19850160696 |
Subject:
| Subject ID: | SU004656 |
| Subject Type: | Food item |
Factors:
Subject type: Food item; Subject species: - (Factor headings shown in green)
| mb_sample_id | local_sample_id | Sample source | Treatment |
|---|---|---|---|
| SA533134 | SFEF_2 | Fermented milk | co-fermented |
| SA533135 | SFER_4 | Fermented milk | co-fermented |
| SA533136 | SFER_3 | Fermented milk | co-fermented |
| SA533137 | SFER_2 | Fermented milk | co-fermented |
| SA533138 | SFER_1 | Fermented milk | co-fermented |
| SA533139 | SFEF_4 | Fermented milk | co-fermented |
| SA533140 | SFEF_3 | Fermented milk | co-fermented |
| SA533141 | SFEF_1 | Fermented milk | co-fermented |
| SA533142 | SEF_2 | Fermented milk | control |
| SA533143 | SER_4 | Fermented milk | control |
| SA533144 | SER_3 | Fermented milk | control |
| SA533145 | SER_2 | Fermented milk | control |
| SA533146 | SER_1 | Fermented milk | control |
| SA533147 | SEF_4 | Fermented milk | control |
| SA533148 | SEF_3 | Fermented milk | control |
| SA533149 | SEF_1 | Fermented milk | control |
| Showing results 1 to 16 of 16 |
Collection:
| Collection ID: | CO004649 |
| Collection Summary: | Fermented milk samples collected at fermentation endpoint (EF) and ripening endpoint (ER). Samples were directly transferred and immediately stored at -80°C until analysis. |
| Collection Protocol Comments: | Sampling at two time points: EF (end of fermentation) and ER (end of ripening). No subpackaging after fermentation. Immediate freezing at -80°C. Thawed at 4°C prior to analysis. |
| Sample Type: | Milk |
| Collection Location: | lab |
| Collection Frequency: | At two specific endpoints (EF and ER) |
| Collection Duration: | 24 hours |
| Volumeoramount Collected: | 8 mL |
| Storage Conditions: | -80℃ |
| Collection Tube Temp: | 37℃ |
| Additives: | none |
Treatment:
| Treatment ID: | TR004665 |
| Treatment Summary: | No experimental treatment applied post-collection. Samples were immediately frozen and stored at -80°C until analysis. |
| Treatment Protocol Comments: | Samples are endpoint products of fermentation/ripening and were not subjected to any further treatment. |
| Treatment: | none |
Sample Preparation:
| Sampleprep ID: | SP004662 |
| Sampleprep Summary: | Frozen aliquots were thawed and centrifuged to get 100 μL supernatant, then mixed with 400 μL of ice-cold methanol/acetonitrile (1:1, v/v). The mixture was vortexed, kept in an ice bath (10 min), and then stored at -20°C (1 h). After centrifugation, the supernatant was dried via rotary evaporation. The precipitate was resoluted with 200 μL of acetonitrile/water (1:1, v/v), vortexed, centrifuged, and the supernatant was injected. |
| Processing Method: | Protein precipitation |
| Processing Storage Conditions: | -20℃ |
| Extraction Method: | Single-phase liquid extraction with methanol/acetonitrile (1:1, v/v) |
| Extract Enrichment: | none |
| Extract Cleanup: | Protein precipitation and centrifugation |
| Extract Storage: | -80℃ |
| Sample Resuspension: | 200 µL of acetonitrile/water (1:1, v/v) |
| Sample Derivatization: | none |
| Sample Spiking: | none |
| Subcellular Location: | Not applicable |
Combined analysis:
| Analysis ID | AN007511 | AN007512 |
|---|---|---|
| Chromatography ID | CH005698 | CH005698 |
| MS ID | MS007208 | MS007209 |
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Waters Acquity | Waters Acquity |
| Column | Waters ACQUITY UPLC BEH C18 (100 x 2.1 mm, 1.7 μm) | Waters ACQUITY UPLC BEH C18 (100 x 2.1 mm, 1.7 μm) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | peak area | peak area |
Chromatography:
| Chromatography ID: | CH005698 |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC BEH C18 (100 x 2.1 mm, 1.7 μm) |
| Column Temperature: | 40°C |
| Flow Gradient: | 5% B (0-1 min), 5-60% B (1-5), 60-100% B (5-8), 100% B (8-11), 100-60% B (11-14), 60-5% B (14-15), and 5% B (15-18 min) |
| Flow Rate: | 0.3 mL/min |
| Solvent A: | 100% Water;0.1% formic acid |
| Solvent B: | 100% Acetonitrile |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS007208 |
| Analysis ID: | AN007511 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Use an aqueous solution of formic acid at a concentration of 0.1% (flow phase A) and acetonitrile (flow phase B) at a flow rate of 0.3 mL/min. The gradient elution conditions are as follows: 0.25 min: 98% A, 2% B; 12 min: 2% A, 98% B; 14 min: 2% A, 98% B; 14.10 min: 98% A, 2% B; 17 min: 98% A, 2% B. Peak picking, alignment, and feature detection were performed using Compound Discoverer. Full MS scans (m/z 70-1050) were acquired at 70,000 resolution; data-dependent MS² scans were performed at 17,500 resolution (AGC target 1e5). |
| Ion Mode: | POSITIVE |
| Capillary Temperature: | 350℃ |
| Collision Energy: | 30 eV |
| Fragmentation Method: | HCD |
| Ion Source Temperature: | 300°C |
| Ion Spray Voltage: | 3500 V |
| Spray Voltage: | 3.5 kV |
| Resolution Setting: | 70000 |
| Scan Range Moverz: | 70-1050 m/z |
| MS ID: | MS007209 |
| Analysis ID: | AN007512 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Use an aqueous solution of formic acid at a concentration of 0.1% (flow phase A) and acetonitrile (flow phase B) at a flow rate of 0.3 mL/min. The gradient elution conditions are as follows: 3 minutes, 90% A and 10% B; 6 minutes, 70% A and 30% B; 8 minutes, 50% A and 50% B; 12 minutes, 40% A and 60% B; 14 minutes, 10% A and 90% B; 15 minutes, 10% A and 90% B; 16 minutes, 90% A and 10% B. Peak picking, alignment, and feature detection were performed using Compound Discoverer. Full MS scans (m/z 70-1050) were acquired at 70,000 resolution; data-dependent MS² scans were performed at 17,500 resolution (AGC target 1e5). |
| Ion Mode: | NEGATIVE |
| Capillary Temperature: | 350℃ |
| Collision Energy: | 30 eV |
| Fragmentation Method: | HCD |
| Ion Source Temperature: | 300°C |
| Ion Spray Voltage: | 3500 V |
| Spray Voltage: | 3.5 kV |
| Resolution Setting: | 70000 |
| Scan Range Moverz: | 70-1050 m/z |
