Summary of Study ST000522
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 PR000385. The data can be accessed directly via it's Project DOI: 10.21228/M8902F This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000522 |
| Study Title | Plasma metabolomics profiling for fish maturation in blunt snout bream |
| Study Type | Metabolomics experiment |
| Study Summary | We investigated the comprehensive metabolic profiles of plasma among immature females, mature females ready to spawn, as well as already spawned breeders of blunt snout bream (Megalobrama amblycephala). The purpose of this study was to screen out potential biomarkers for sexual mature female M. amblycephala compared to immature female individuals and already spawned breeders. The three groups were set up in this study, including one year old immature females, 2 years old sexually mature females ready to spawning and successfully spawning females of M. amblycephala. The plasma samples were collected to investigate the comprehensive metabolic profiles through UPLC-MS/MS based metabolomics analysis method. According to multivariate and univariate statistical analysis, plasma metabolite profiles of three groups were obviously separated, and the plasma metabolite profiles of immature female M. amblycephala were much more different from mature females ready to spawn as well as already spawned breeders. The differential plasma metabolites from three hormone related pathways including GnRH signaling pathway, steroid hormone biosynthesis and steroid biosynthesis, were further analyzed. A total of 29 metabolites were identified as differential biomarkers associated with the female maturation status |
| Institute | Huazhong Agricultural University |
| Department | College of Fisheries |
| Laboratory | Key Lab of Freshwater Animal Breeding, Ministry of Agriculture |
| Last Name | Zhou |
| First Name | LaiFang |
| Address | Hongshan, Wuhan, 430070 Hubei, China |
| 156851836@qq.com | |
| Phone | 15171617087 |
| Submit Date | 2016-12-13 |
| Raw Data File Type(s) | cdf |
| Analysis Type Detail | LC-MS |
| Release Date | 2018-12-11 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000385 |
| Project DOI: | doi: 10.21228/M8902F |
| Project Title: | Metabolomics profiling studies for snout bream fish |
| Project Type: | LC-MS analysis |
| Project Summary: | Metabolomics profiling studies on plasma samples from three different blunt snout bream groups |
| Institute: | Huazhong Agricultural University |
| Department: | College of Fisheries |
| Laboratory: | Key Lab of Freshwater Animal Breeding, Ministry of Agriculture |
| Last Name: | Zhou |
| First Name: | LaiFang |
| Address: | Hongshan, Wuhan, 430070 Hubei, China |
| Email: | 156851836@qq.com |
| Phone: | 15171617087 |
Subject:
| Subject ID: | SU000544 |
| Subject Type: | Animal |
| Subject Species: | Megalobrama amblycephala |
| Taxonomy ID: | 75352 |
| Species Group: | Fish |
Factors:
Subject type: Animal; Subject species: Megalobrama amblycephala (Factor headings shown in green)
| mb_sample_id | local_sample_id | Phenotype |
|---|---|---|
| SA027259 | 20150724_YU_1_1_6 | 1 year old immature |
| SA027260 | 20150724_YU_1_1_5 | 1 year old immature |
| SA027261 | 20150724_YU_1_1_1 | 1 year old immature |
| SA027262 | 20150724_YU_1_1_10 | 1 year old immature |
| SA027263 | 20150724_YU_1_1_3 | 1 year old immature |
| SA027264 | 20150724_YU_1_1_9 | 1 year old immature |
| SA027265 | 20150724_YU_1_1_22 | 1 year old immature |
| SA027266 | 20150724_YU_1_1_12 | 1 year old immature |
| SA027267 | 20150724_YU_1_1_14 | 1 year old immature |
| SA027268 | 20150724_YU_1_1_11 | 1 year old immature |
| SA027269 | 20150724_YU_2_2_8 | 2 years old sexually mature after successfully spawning |
| SA027270 | 20150724_YU_2_2_9 | 2 years old sexually mature after successfully spawning |
| SA027271 | 20150724_YU_2_2_10 | 2 years old sexually mature after successfully spawning |
| SA027272 | 20150724_YU_2_2_11 | 2 years old sexually mature after successfully spawning |
| SA027273 | 20150724_YU_2_2_6 | 2 years old sexually mature after successfully spawning |
| SA027274 | 20150724_YU_2_2_1 | 2 years old sexually mature after successfully spawning |
| SA027275 | 20150724_YU_2_2_3 | 2 years old sexually mature after successfully spawning |
| SA027276 | 20150724_YU_2_2_2 | 2 years old sexually mature after successfully spawning |
| SA027277 | 20150724_YU_2_2_4 | 2 years old sexually mature after successfully spawning |
| SA027278 | 20150724_YU_2_2_5 | 2 years old sexually mature after successfully spawning |
| SA027279 | 20150724_YU_2_1_5 | 2 years old sexually mature without hormone treatment |
| SA027280 | 20150724_YU_2_1_4 | 2 years old sexually mature without hormone treatment |
| SA027281 | 20150724_YU_2_1_2 | 2 years old sexually mature without hormone treatment |
| SA027282 | 20150724_YU_2_1_6 | 2 years old sexually mature without hormone treatment |
| SA027283 | 20150724_YU_2_1_3 | 2 years old sexually mature without hormone treatment |
| SA027284 | 20150724_YU_2_1_9 | 2 years old sexually mature without hormone treatment |
| SA027285 | 20150724_YU_2_1_10 | 2 years old sexually mature without hormone treatment |
| SA027286 | 20150724_YU_2_1_1 | 2 years old sexually mature without hormone treatment |
| SA027287 | 20150724_YU_2_1_8 | 2 years old sexually mature without hormone treatment |
| SA027288 | 20150724_YU_2_1_7 | 2 years old sexually mature without hormone treatment |
| Showing results 1 to 30 of 30 |
Collection:
| Collection ID: | CO000538 |
| Collection Summary: | About 2 ml of blood was collected via caudal vein by syringe for each female M.amblycephala and then directly put into K3 EDTA centrifuge tube. |
| Collection Protocol Filename: | Zhou999_20161213_161728_PR_CO_collection_files.docx |
| Sample Type: | Plasma |
Treatment:
| Treatment ID: | TR000558 |
| Treatment Summary: | The blood was centrifuged at 4000 rpm for 5 min at 4°C as soon as it was extracted from fish and about 1 ml supernatant was pipetted into another tube.The extracted plasma samples were then frozen in liquid nitrogen immediately and stored in the -80°C. |
Sample Preparation:
| Sampleprep ID: | SP000551 |
| Sampleprep Summary: | To initiate the experiment, each plasma sample was mixed with the same volume and labeled as Quality control (QC) sample. Plasma sample (100 µl, including QC sample) was added into new Eppendorf tube with ice-cold methanol (300 µl), vortex mixing for 1 min, standing for 1 min, and make sure the solution volume had no obvious observable difference. Then samples were precipitated for 20 min at -20°C, and centrifuged at 14000 rpm for 20 min at 4°C to precipitate the proteins. A total of 250 µl of protein free supernatant was collected and dried with nitrogen at 37°C. The concentration of extractant was diluted depending on the mass spectrum response signals. |
| Sampleprep Protocol Filename: | Zhou999_20161213_161728_PR_SP_sampleprep.docx |
Combined analysis:
| Analysis ID | AN000796 | AN000797 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Waters 2777C | Waters 2777C |
| Column | Waters Acquity BEH C18 (150 x 2mm,1.7um) | Waters Acquity BEH C18 (150 x 2mm,1.7um) |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Waters Synapt G2 XS | Waters Synapt G2 XS |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | peak intensity | peak intensity |
Chromatography:
| Chromatography ID: | CH000572 |
| Chromatography Summary: | Chromatographic separation was performed on a ACQUITY UPLC BEH C18 analytical column (100×2.1 mm, 1.7 µm, Waters, Milford, USA) using a 2777C UPLC system (Waters). The flow rate was 0.40 mL/min and the mobile phase was composed of solvents A (95% H2O/5% acetonitrile + 0.1% formic acid) and B (95% acetonitrile/5% H2O＋0.1% formic acid).The gradient program was optimized as follows: 0–0.1 min, 100% A; 0.1–0.6 min, 100% A-50% A; 0.6–5 min, 50%–0% A; 5–8 min, 0% A; 8–10 min, 0% A-100% A. Injection volume was 10 µl. The eluent from the column was directly added in to the mass spectrometer without split. |
| Instrument Name: | Waters 2777C |
| Column Name: | Waters Acquity BEH C18 (150 x 2mm,1.7um) |
| Flow Gradient: | 100% acetonitrile |
| Flow Rate: | 0.40 mL/min |
| Solvent A: | 95% water/5% acetonitrile; 0.1% formic acid |
| Solvent B: | 95% acetonitrile/5% water; 0.1% formic acid |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS000703 |
| Analysis ID: | AN000796 |
| Instrument Name: | Waters Synapt G2 XS |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| MS ID: | MS000704 |
| Analysis ID: | AN000797 |
| Instrument Name: | Waters Synapt G2 XS |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
