Summary of Study ST004508
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 PR002837. The data can be accessed directly via it's Project DOI: 10.21228/M8Z857 This work is supported by NIH grant, U2C- DK119886. See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST004508 |
| Study Title | Silage-derived flavonoids reprogram rumen microbiota to improve milk fat synthesis via rumen-mammary gland axis |
| Study Type | Research |
| Study Summary | Inoculation with homofermentative Lactiplantibacillus plantarum BX62 improved the alfalfa silage quality. Dairy goats fed the BX62 group silage showed significantly higher milk fat content compared to the control group (no inoculation) (P < 0.05). Integrated analysis of silage microbial metabolomics and experimental validation revealed a significant increase in flavonoid content in the BX62 silage. This was attributed to microbial community restructuring and secretion of carbohydrate-active enzymes (CAZymes), which facilitated plant cell wall degradation and flavonoid release. |
| Institute | School of Life Sciences, Lanzhou University |
| Department | State Key Laboratory of Grassland and Agro-ecosystems |
| Last Name | Ma |
| First Name | Jing |
| Address | No. 222, Tianshui South Road, Lanzhou, Gansu, 730000, China |
| mjing2023@lzu.edu.cn | |
| Phone | +86 19852806670 |
| Submit Date | 2026-01-03 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzXML |
| Analysis Type Detail | LC-MS |
| Release Date | 2026-01-08 |
| Release Version | 1 |
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Project:
| Project ID: | PR002837 |
| Project DOI: | doi: 10.21228/M8Z857 |
| Project Title: | Silage-derived flavonoids reprogram rumen microbiota to improve milk fat synthesis via rumen-mammary gland axis |
| Project Type: | Research |
| Project Summary: | Inoculation with homofermentative lactic acid bacteria (LAB) effectively enhances the silage quality of forages. The goal of the project is to study the specific mechanism through which LAB inoculants regulate the silage microbiome and fermentation. We found that the inoculant alters the chemical composition and bioactive substances of silage by regulating the dominant species during the silage process and the secretion of CAZymes, especially increasing the content of flavonoids. |
| Institute: | School of Life Sciences, Lanzhou University |
| Department: | State Key Laboratory of Grassland and Agro-ecosystems |
| Last Name: | Ma |
| First Name: | Jing |
| Address: | No. 222, Tianshui South Road, Lanzhou, Gansu, 730000, China |
| Email: | mjing2023@lzu.edu.cn |
| Phone: | +86 19852806670 |
Subject:
| Subject ID: | SU004686 |
| Subject Type: | Plant |
| Subject Species: | Medicago sativa L. |
Factors:
Subject type: Plant; Subject species: Medicago sativa L. (Factor headings shown in green)
| mb_sample_id | local_sample_id | Sample source | factor |
|---|---|---|---|
| SA536566 | POS_ATCC2 | BX62 Silage | BX62 inoculation |
| SA536567 | NEG_ATCC4 | BX62 Silage | BX62 inoculation |
| SA536568 | NEG_ATCC3 | BX62 Silage | BX62 inoculation |
| SA536569 | NEG_ATCC2 | BX62 Silage | BX62 inoculation |
| SA536570 | POS_ATCC1 | BX62 Silage | BX62 inoculation |
| SA536571 | POS_ATCC4 | BX62 Silage | BX62 inoculation |
| SA536572 | POS_ATCC3 | BX62 Silage | BX62 inoculation |
| SA536573 | NEG_ATCC1 | BX62 Silage | BX62 inoculation |
| SA536574 | POS_CKM3 | CK Silage | No inoculation |
| SA536575 | POS_CKM4 | CK Silage | No inoculation |
| SA536576 | POS_CKM2 | CK Silage | No inoculation |
| SA536577 | POS_CKM1 | CK Silage | No inoculation |
| SA536578 | NEG_CKM1 | CK Silage | No inoculation |
| SA536579 | NEG_CKM2 | CK Silage | No inoculation |
| SA536580 | NEG_CKM3 | CK Silage | No inoculation |
| SA536581 | NEG_CKM4 | CK Silage | No inoculation |
| Showing results 1 to 16 of 16 |
Collection:
| Collection ID: | CO004679 |
| Collection Summary: | Alfalfa (Medicago sativa L.) was mowed at full-flowering stage from an alfalfa feld located in Dingxi, Gansu Province, China, and was chopped to 2-4 cm lengths using a forage harvester. The forage was divided into two groups for different silage group. L. plantarum BX62 (CGMCC No. 15779) was used to prepare the experimental silage. The inoculant was diluted in non-chloride water and sprayed evenly with an application rate of 1 × 105 colony forming unit (CFU)/g fresh matter (FM). The control silage was sprayed with the same water source with no inoculant. Evenly-sprayed alfalfa was tightly wrapped with 4–6 layers of 25 µm thick polypropylene films by a bale wrapper. The wrapped round bales were transported to a dry, ventilated storage place, and feeding trials were started after 30 days of ensiling. Silage samples were collected after opening and were immediately frozen at -20°C for metabolite analysis. |
| Sample Type: | Plant |
| Collection Location: | Dingxi, Gansu Province, China |
| Storage Conditions: | -20℃ |
Treatment:
| Treatment ID: | TR004695 |
| Treatment Summary: | No treatment applied. |
| Plant Harvest Date: | 2024-07-01 |
| Plant Growth Stage: | full-flowering stage |
Sample Preparation:
| Sampleprep ID: | SP004692 |
| Sampleprep Summary: | 25 mg of freeze-dried sample was weighed into an EP tube, homogenising beads and 1000 μL of extraction solution (methanol: acetonitrile: water = 2:2:1 (v/v/v)) containing isotope-labelled internal standard were added. The vortex-mixed samples were homogenised and then transferred to an ice-water bath for sonication for 5 min, and this step was repeated three times. After standing at -40℃ for 1 h, the samples were centrifuged at 4℃, 12000 rpm for 15 min. The supernatant was taken into the injection bottle for assaying on the machine. |
| Processing Storage Conditions: | On ice |
| Extract Storage: | On ice |
Combined analysis:
| Analysis ID | AN007558 | AN007559 |
|---|---|---|
| Chromatography ID | CH005735 | CH005735 |
| MS ID | MS007255 | MS007256 |
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Thermo Vanquish | Thermo Vanquish |
| Column | Phenomenex Kinetex HILIC (50 x 2.1 mm, 2.6 μm) | Phenomenex Kinetex HILIC (50 x 2.1 mm, 2.6 μm) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Orbitrap Exploris 120 | Thermo Orbitrap Exploris 120 |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | mz_rt | mz_rt |
Chromatography:
| Chromatography ID: | CH005735 |
| Chromatography Summary: | The compounds in silage sample were separated on a Phenomenex Kinetex C18 (2.1 mm × 50 mm, 2.6 μm) column using a Vanquish (Thermo Fisher Scientific) ultra-performance-liquid chromatograph (UPLC) for non-polar metabolites. The liquid chromatographic phase A was aqueous phase containing 0.01% acetic acid, and the phase B was isopropanol: acetonitrile (1:1, v/v). The temperature of the sample tray was 4 ℃, and the injection volume was 2 μL. Chromatographic separation was achieved with the following gradient elution program: initial hold at 1% B for 0.5 min, linear increase to 99% B over 3.5 min (0.5-4 min), maintained at 99% B for 0.5 min (4-4.5 min), rapidly returned to 1% B in 0.05 min (4.5-4.55 min), and final equilibration at 1% B for 1.45 min (4.55-6 min). The separation was performed at a controlled column temperature of 25°C with a flow rate of 0.3 mL/min. |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Phenomenex Kinetex HILIC (50 x 2.1 mm, 2.6 μm) |
| Column Temperature: | 25℃ |
| Flow Gradient: | initial hold at 1% B for 0.5 min, linear increase to 99% B over 3.5 min (0.5-4 min), maintained at 99% B for 0.5 min (4-4.5 min), rapidly returned to 1% B in 0.05 min (4.5-4.55 min), and final equilibration at 1% B for 1.45 min (4.55-6 min) |
| Flow Rate: | 0.3 mL/min |
| Sample Injection: | 2 |
| Solvent A: | 100% Water; 0.01% acetic acid |
| Solvent B: | 50% Isopropanol/50% Acetonitrile |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS007255 |
| Analysis ID: | AN007558 |
| Instrument Name: | Thermo Orbitrap Exploris 120 |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | The Orbitrap Exploris 120 mass spectrometer was used for its ability to acquire MS/MS spectra on information-dependent acquisition (IDA) mode in the control of the acquisition software (Xcalibur, Thermo). In this mode, the acquisition software continuously evaluates the full scan MS spectrum. The ESI source conditions were set as following: sheath gas flow rate as 50 Arb, Aux gas flow rate as 15 Arb, capillary temperature 320℃, Sweep Gas: 1 Arb, Vaporizer Temp: 350℃, full MS resolution as 60000, MS/MS resolution as 15000, collision energy: SNCE 20/30/40, spray voltage as 3.8 kV (positive). |
| Ion Mode: | POSITIVE |
| MS ID: | MS007256 |
| Analysis ID: | AN007559 |
| Instrument Name: | Thermo Orbitrap Exploris 120 |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | The Orbitrap Exploris 120 mass spectrometer was used for its ability to acquire MS/MS spectra on information-dependent acquisition (IDA) mode in the control of the acquisition software (Xcalibur, Thermo). In this mode, the acquisition software continuously evaluates the full scan MS spectrum. The ESI source conditions were set as following: sheath gas flow rate as 50 Arb, Aux gas flow rate as 15 Arb, capillary temperature 320℃, Sweep Gas: 1 Arb, Vaporizer Temp: 350℃, full MS resolution as 60000, MS/MS resolution as 15000, collision energy: SNCE 20/30/40, spray voltage as -3.4 kV (negative). |
| Ion Mode: | NEGATIVE |
