Summary of Study ST001151
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 PR000770. The data can be accessed directly via it's Project DOI: 10.21228/M8509V This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001151 |
| Study Title | 4-day dietary effect of fast food vs Mediterranean diet to HDL lipidome |
| Study Type | Dietary intervention study |
| Study Summary | In this randomized order cross-over study, ten healthy subjects consumed a Mediterranean (Med) and a fast food (FF) diet for 4 days, with a 4-day wash-out between treatments. Lipidomic composition was analyzed in isolated HDL fractions by an untargeted LC-MS method with 15 internal standards. HDL PE content was increased by FF diet, and 41 out of 170 lipid species were differentially affected by diet. Saturated fatty acids (FA) and odd chain FA were enriched after FF diet, while very-long chain FA and unsaturated FA were enriched after Med diet. The composition of PC, TG and CE were significantly altered to reflect the FA composition of the diet whereas the composition of SM and ceramides were generally unaffected, indicating that glycerolipids may be sensitive markers of dietary intake, whereas sphingolipids are more indicative of non-dietary factors. Results from this study indicate that the HDL lipidome is widely remodeled within 4 days of diet change and that certain lipid classes are more sensitive markers of diet whereas other lipid classes are better indicators of non-dietary factors |
| Institute | University of California, Davis |
| Department | Nutrition |
| Laboratory | Zivkovic |
| Last Name | Zivkovic |
| First Name | Angela |
| Address | 3402 Meyer hall, Davis, CA, 95616, USA |
| amzivkovic@ucdavis.edu | |
| Phone | +1(530)752-3973 |
| Submit Date | 2019-03-14 |
| Num Groups | 4 |
| Total Subjects | 10 |
| Num Males | 5 |
| Num Females | 5 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2019-09-23 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000770 |
| Project DOI: | doi: 10.21228/M8509V |
| Project Title: | Fast Food Project |
| Project Type: | Dietary intervention study |
| Project Summary: | A human study looks at 4-day effect of fast food vs Mediterranean to HDL composition and function, host metabolome and gut microbiome |
| Institute: | University of California, Davis |
| Department: | Department of nutrition |
| Laboratory: | Zivkovic |
| Last Name: | Zivkovic |
| First Name: | Angela |
| Address: | 3402 Meyer hall, Davis, CA, 95616, USA |
| Email: | amzivkovic@ucdavis.edu |
| Phone: | +1(530)752-3973 |
Subject:
| Subject ID: | SU001216 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Age Or Age Range: | 19 - 26 yr |
| Weight Or Weight Range: | 50.6 - 94.1 kg |
| Height Or Height Range: | 1.6 - 1.85 m |
| Gender: | Male and female |
| Human Smoking Status: | Non-smoker |
| Human Exclusion Criteria: | Subjects with anemia, diabetes, thyroid disease, MetS, cancer, previous cardiovascular events or other disease diagnoses were excluded. Subjects were also excluded if they had extreme dietary or exercise patterns, or were taking prescription medications or other supplements known to alter lipoprotein metabolism such as isoflavones. |
| Species Group: | Mammals |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment | Timepoint |
|---|---|---|---|
| SA079872 | FFS111B | FF | Post |
| SA079873 | FFS114D | FF | Post |
| SA079874 | FFS113D | FF | Post |
| SA079875 | FFS116D | FF | Post |
| SA079876 | FFS109D | FF | Post |
| SA079877 | FFS108B | FF | Post |
| SA079878 | FFS118D | FF | Post |
| SA079879 | FFS112B | FF | Post |
| SA079880 | FFS110D | FF | Post |
| SA079881 | FFS107B | FF | Post |
| SA079882 | FFS107A | FF | Pre |
| SA079883 | FFS116C | FF | Pre |
| SA079884 | FFS118C | FF | Pre |
| SA079885 | FFS114C | FF | Pre |
| SA079886 | FFS113C | FF | Pre |
| SA079887 | FFS112A | FF | Pre |
| SA079888 | FFS109C | FF | Pre |
| SA079889 | FFS108A | FF | Pre |
| SA079890 | FFS111A | FF | Pre |
| SA079891 | FFS110C | FF | Pre |
| SA079892 | FFS116B | Med | Post |
| SA079893 | FFS109B | Med | Post |
| SA079894 | FFS118B | Med | Post |
| SA079895 | FFS114B | Med | Post |
| SA079896 | FFS113B | Med | Post |
| SA079897 | FFS111D | Med | Post |
| SA079898 | FFS108D | Med | Post |
| SA079899 | FFS110B | Med | Post |
| SA079900 | FFS107D | Med | Post |
| SA079901 | FFS112D | Med | Post |
| SA079902 | FFS107C | Med | Pre |
| SA079903 | FFS118A | Med | Pre |
| SA079904 | FFS108C | Med | Pre |
| SA079905 | FFS114A | Med | Pre |
| SA079906 | FFS112C | Med | Pre |
| SA079907 | FFS111C | Med | Pre |
| SA079908 | FFS113A | Med | Pre |
| SA079909 | FFS110A | Med | Pre |
| SA079910 | FFS109A | Med | Pre |
| SA079911 | FFS116A | Med | Pre |
| Showing results 1 to 40 of 40 |
Collection:
| Collection ID: | CO001210 |
| Collection Summary: | HDL fractions were isolated from plasma using a 2-step sequential density-based ultracentrifugation method |
| Sample Type: | Blood (plasma) |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR001231 |
| Treatment Summary: | Each subject was given either a fast food or a Mediterranean for 4 days in randomized order. |
Sample Preparation:
| Sampleprep ID: | SP001224 |
| Sampleprep Summary: | Lipids were extracted using methanol-MTBE method. |
| Sampleprep Protocol Filename: | zivkovic_protocol.pdf |
Combined analysis:
| Analysis ID | AN001899 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Waters Acquity |
| Column | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI |
| MS instrument type | QTOF |
| MS instrument name | Agilent 6550 QTOF |
| Ion Mode | NEGATIVE |
| Units | ug/ml |
Chromatography:
| Chromatography ID: | CH001375 |
| Methods Filename: | zivkovic_protocol.pdf |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| Column Temperature: | 65°C |
| Flow Gradient: | 0 min 15% (B), 0–2 min 30% (B), 2–2.5 min 48% (B), 2.5–11 min 82% (B), 11–11.5 min 99% (B), 11.5–12 min 99% (B), 12–12.1 min 15% (B), 12.1–15 min 15% (B) |
| Flow Rate: | 0.6 mL/min |
| Injection Temperature: | 4°C |
| Solvent A: | 40% water/60% acetonitrile; 0.1% formic acid; 10 mM ammonium formate |
| Solvent B: | 90% isopropanol/10% acetonitrile; 0.1% formic acid; 10 mM ammonium formate |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001755 |
| Analysis ID: | AN001899 |
| Instrument Name: | Agilent 6550 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | Data are analyzed in a four-stage process. First, raw data are processed in an untargeted (qualitative) manner by Agilent’s software MassHunter Qual to find peaks in up to 300 chromatograms. Peak features are then imported into MassProfilerProfessional for peak alignments to seek which peaks are present in multiple chromatograms, using exclusion criteria by the minimum percentage of chromatograms in which these peaks are positively detected. We usually use 30% as minimum criterion. In a tedious manual process, these peaks are then collated and constrained into a MassHunter quantification method on the accurate mass precursor ion level, using the MS/MS information and the LipidBlast library to identify lipids with manual confirmation of adduct ions and spectral scoring accuracy. MassHunter enables back-filling of quantifications for peaks that were missed in the primary peak finding process, hence yielding data sets without missing values. |
| Ion Mode: | NEGATIVE |
