Summary of Study ST001426

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 PR000978. The data can be accessed directly via it's Project DOI: 10.21228/M88Q44 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001426
Study TitleDependence of the Staphylococcal Volatilome Composition on Microbial Nutrition
Study TypeUntargeted MS
Study SummaryIntroduction: In vitro cultivation of staphylococci is fundamental to both clinical and research microbiology, and selection of growth medium will substantially influence staph growth rates, genetic integrity, pathogenicity, and metabolic capacity. Few studies, to-date, have investigated how the differences in rich media can influence the volatilome of cultivated bacteria. Objectives: The objective of this study was to determine the influence of rich media composition on the chemical characteristics of the volatilomes of Staphylococcus aureus and S. epidermidis. Methods: S. aureus (ATCC 12600) and S. epidermidis (ATCC 12228) were cultured in triplicate in four rich complex media (BHI, LB, MHB, and TSB), and the volatile metabolites produced by each culture were analyzed using headspace solid-phase microextraction combined with comprehensive two-dimensional gas chromatography – time-of-flight mass spectrometry (HS-SPME-GC×GC-TOFMS). Results: When comparing the chemical compositions of the staph volatilomes produced in each medium, we observed few differences when the presence versus absence of volatiles were compared. However, when the relative abundances of volatiles were included in the analyses, we observed that culturing staph in media containing free glucose (BHI and TSB) resulted in volatilomes dominated by acids and esters (67%). The low-glucose media (LB and MHB) produced ketones in greatest relative abundances, but the volatilome compositions in these two media were highly dissimilar. Conclusion: The staphylococcal volatilome is strongly influenced by the nutritional composition of the growth medium, especially the availability of free glucose, which is much more evident when the relative abundances of the volatiles are analyzed, compared to the presence versus absence.
Institute
Arizona State University
DepartmentSchool of Life Sciences
LaboratoryHeather D. Bean Lab
Last NameBean, Ph.D.
First NameHeather
AddressPO Box 874501 Tempe, AZ 85287
Emailheather.d.bean@asu.edu
Phone4807273395
Submit Date2020-07-13
Study CommentsStaphylococcus aureus (ATCC 12600) and Stpahylococcus epidermidis (ATCC 12228) grown in four complex media
PublicationsJenkins, C. L., H. D. Bean (2020). Influence of media on the differentiation of Staphylococcus spp. by volatile compounds. Journal of breath research 14, 016007 doi:10.1088/1752-7163/ab3e9d
Raw Data AvailableYes
Raw Data File Type(s)smp
Analysis Type DetailGC-MS
Release Date2020-07-30
Release Version1
Heather Bean Heather Bean
Ph.D. Ph.D.
https://dx.doi.org/10.21228/M88Q44
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000978
Project DOI:doi: 10.21228/M88Q44
Project Title:Influence of growth medium on the volatilomes of Pseudomonas spp. and Staphylococcus spp.
Project Type:Untargeted MS
Project Summary:Pseudomonas aeruginosa and Staphylococcus aureus are the predominant opportunistic lung pathogens persons with CF [2017 CF Foundation Annual Report] and are leading causes of respiratory failure and mortality [Malhotra, et al. Clin Microbiol Rev, 2019]. Currently, sputum culture remains the standard of care for lung infection detection, but sputum production is on the decline due to improvements in CF therapies. To fill this diagnostic gap, we are working toward the development of breath tests for lung infections by characterizing the volatile metabolome (or “volatilome”) of P. aeruginosa and S. aureus. In this study, we explored the influence of growth medium on the volatilomes of two strains of P. aeruginosa (PAO1 and PA14) and S. aureus, as well as two other species from the same genera, S. epidermidis and P. chlororaphis. We hypothesized that the volatilomes would be influenced by the growth medium, but that biological differences between these species and strains would dominate the volatilomes and facilitate identification.
Institute:Arizona State University
Department:School of Life Sciences
Laboratory:Heather D. Bean Lab
Last Name:Bean, Ph.D.
First Name:Heather
Address:PO Box 874501 Tempe, AZ 85287
Email:heather.d.bean@asu.edu
Phone:480-727-3395
Publications:Jenkins, C. L., H. D. Bean (2020). Influence of media on the differentiation of Staphylococcus spp. by volatile compounds. Journal of breath research 14, 016007 doi:10.1088/1752-7163/ab3e9d

Subject:

Subject ID:SU001500
Subject Type:Bacteria
Subject Species:Staphylococcus epidermidis
Taxonomy ID:1282
Genotype Strain:ATCC 12600; ATCC 12228
Cell Biosource Or Supplier:ATCC
Cell Strain Details:ATCC 12600; ATCC 12228
Species Group:Bacteria

Factors:

Subject type: Bacteria; Subject species: Staphylococcus epidermidis (Factor headings shown in green)

mb_sample_id local_sample_id Treatment Culture Medium
SA120056MediaBlank2_BHI_1BLANK BHI
SA120057MediaBlank2_BHI_3BLANK BHI
SA120058MediaBlank2_BHI_2BLANK BHI
SA120059MediaBlank1_BHI_1BLANK BHI
SA120060MediaBlank1_BHI_2BLANK BHI
SA120061MediaBlank1_BHI_3BLANK BHI
SA120062MediaBlank2_LB_1BLANK LB_LENNOX
SA120063MediaBlank2_LB_2BLANK LB_LENNOX
SA120064MediaBlank2_LB_3BLANK LB_LENNOX
SA120065MediaBlank1_LB_1BLANK LB_LENNOX
SA120066MediaBlank1_LB_2BLANK LB_LENNOX
SA120067MediaBlank1_LB_3BLANK LB_LENNOX
SA120068MediaBlank1_MH_1BLANK MUELLER-HINTON
SA120069MediaBlank2_MH_1BLANK MUELLER-HINTON
SA120070MediaBlank1_MH_2BLANK MUELLER-HINTON
SA120071MediaBlank1_MH_3BLANK MUELLER-HINTON
SA120072MediaBlank2_MH_3BLANK MUELLER-HINTON
SA120073MediaBlank2_MH_2BLANK MUELLER-HINTON
SA120074MediaBlank1_TSB_3BLANK TSB
SA120075MediaBlank1_TSB_2BLANK TSB
SA120076MediaBlank1_TSB_1BLANK TSB
SA120077KIMix_2Chemical Standards none
SA120078KIMix_1Chemical Standards none
SA120079KIMix_3Chemical Standards none
SA120080Pcl_BHI_2MEDIUM BHI
SA120081Pcl_BHI_1MEDIUM BHI
SA120082PA01_BHI_1MEDIUM BHI
SA120083Staphau_BHI_1MEDIUM BHI
SA120084Staphau_BHI_2MEDIUM BHI
SA120085Staphep_BHI_2MEDIUM BHI
SA120086Staphep_BHI_3MEDIUM BHI
SA120087Staphau_BHI_3MEDIUM BHI
SA120088PA01_BHI_2MEDIUM BHI
SA120089Pcl_BHI_3MEDIUM BHI
SA120090Staphep_BHI_1MEDIUM BHI
SA120091PA01_BHI_3MEDIUM BHI
SA120092PA14_BHI_1MEDIUM BHI
SA120093PA14_BHI_3MEDIUM BHI
SA120094PA14_BHI_2MEDIUM BHI
SA120095Staphep_LB_2MEDIUM LB_LENNOX
SA120096Staphep_LB_3MEDIUM LB_LENNOX
SA120097Staphau_LB_3MEDIUM LB_LENNOX
SA120098Staphau_LB_2MEDIUM LB_LENNOX
SA120099Staphau_LB_1MEDIUM LB_LENNOX
SA120100PA14_LB_3MEDIUM LB_LENNOX
SA120101Pcl_LB_3MEDIUM LB_LENNOX
SA120102PA14_LB_1MEDIUM LB_LENNOX
SA120103PA01_LB_3MEDIUM LB_LENNOX
SA120104PA14_LB_2MEDIUM LB_LENNOX
SA120105PA01_LB_2MEDIUM LB_LENNOX
SA120106Pcl_LB_1MEDIUM LB_LENNOX
SA120107Staphep_LB_1MEDIUM LB_LENNOX
SA120108Pcl_LB_2MEDIUM LB_LENNOX
SA120109PA01_LB_1MEDIUM LB_LENNOX
SA120110Staphep_MH_1MEDIUM MUELLER-HINTON
SA120111Staphep_MH_3MEDIUM MUELLER-HINTON
SA120112Staphep_MH_2MEDIUM MUELLER-HINTON
SA120113PA14_MH_3MEDIUM MUELLER-HINTON
SA120114PA14_MH_1MEDIUM MUELLER-HINTON
SA120115Pcl_MH_1MEDIUM MUELLER-HINTON
SA120116PA01_MH_3MEDIUM MUELLER-HINTON
SA120117PA01_MH_2MEDIUM MUELLER-HINTON
SA120118PA01_MH_1MEDIUM MUELLER-HINTON
SA120119Pcl_MH_2MEDIUM MUELLER-HINTON
SA120120PA14_MH_2MEDIUM MUELLER-HINTON
SA120121Pcl_MH_3MEDIUM MUELLER-HINTON
SA120122Staphau_MH_2MEDIUM MUELLER-HINTON
SA120123Staphau_MH_1MEDIUM MUELLER-HINTON
SA120124Staphau_MH_3MEDIUM MUELLER-HINTON
SA120125Staphau_TSB_2MEDIUM TSB
SA120126Staphau_TSB_1MEDIUM TSB
SA120127Staphep_TSB_3MEDIUM TSB
SA120128Staphep_TSB_2MEDIUM TSB
SA120129Staphep_TSB_1MEDIUM TSB
SA120130Staphau_TSB_3MEDIUM TSB
SA120131Vial-Blank_1Vial Blank none
SA120132VIAL_BLANK_1Vial Blank none
Showing results 1 to 77 of 77

Collection:

Collection ID:CO001495
Collection Summary:Staphylococcus aureus (ATCC 12600) and Staphylococcus epidermidis (ATCC 12228) were cultured in four filter-sterilized complex media for metabolomics analysis: Brain Heart Infusion broth (BHI; Bacto); lysogeny broth Lennox (LB; Fisher Scientific); Mueller Hinton broth (MHB; Difco); and Tryptic Soy broth (TSB; Bacto). Each species was prepared in biological triplicate. Uninoculated media control blanks were prepared in six replicates for BHI, LB, and MHB, and in triplicate for TSB, following the same procedures as the bacterial samples and processed in parallel. Samples were transferred to capped GC vials and stored at -20 °C for approximately two weeks prior to GC×GC-TOFMS analysis.
Collection Protocol Filename:CLJenkins_Collection_Protocol_Metadata.txt
Sample Type:Bacterial cells
Collection Frequency:Once, at the completion of 24 hour aerobic incubation at 37 C with orbital shaking

Treatment:

Treatment ID:TR001515
Treatment Summary:Two ATCC strains of staphylococci were grown in four different filter-sterilized complex media under identical conditions. Please see the Collection Protocol for details.
Cell Media:BHI Broth, LB Lennox, Mueller Hinton Broth, Tryptic Soy Broth

Sample Preparation:

Sampleprep ID:SP001508
Sampleprep Summary:No sample preparation was required due to sampling via Head-Space Solid-phase microextraction by autosampler robot.
Sampleprep Protocol Filename:CLJenkins_MS__Methods.pdf

Combined analysis:

Analysis ID AN002384
Analysis type MS
Chromatography type GC
Chromatography system Agilent 7890B
Column Multidimensional configuration
MS Type EI
MS instrument type GC x GC-TOF
MS instrument name Leco Pegasus 4D GCxGC TOF
Ion Mode POSITIVE
Units peak area

Chromatography:

Chromatography ID:CH001751
Chromatography Summary:Comprehensive two-dimensional gas chromatography with multi-dimensional column configuration
Instrument Name:Agilent 7890B
Column Name:Multidimensional configuration
Chromatography Type:GC

MS:

MS ID:MS002226
Analysis ID:AN002384
Instrument Name:Leco Pegasus 4D GCxGC TOF
Instrument Type:GC x GC-TOF
MS Type:EI
MS Comments:none
Ion Mode:POSITIVE
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