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MB Sample ID: SA245011

Local Sample ID:Pooled-1_1
Subject ID:SU002538
Subject Type:Mammal
Subject Species:Homo sapiens
Taxonomy ID:9606
Gender:Male and female

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Subject:

Subject ID:SU002538
Subject Type:Mammal
Subject Species:Homo sapiens
Taxonomy ID:9606
Gender:Male and female

Factors:

Local Sample IDMB Sample IDFactor Level IDLevel ValueFactor Name
Pooled-1_1SA245011FL030703Pooled BALFSubject
Pooled-1_1SA245011FL030703Pooledtreatment

Collection:

Collection ID:CO002531
Collection Summary:Human lung specimens were collected and stored in -80'C at Mayo Clinic in Scottsdale, Arizona until they were transferred to Arizona State University for VOCs analysis
Sample Type:Bronchoalveolar lavage

Treatment:

Treatment ID:TR002550
Treatment Summary:55 bronchoalveolar lavage fluid (BALF), four bronchial wash, and five sputum samples were provided by Tom Gris at Mayo Clinic, Scottsdale, Arizona. Patient samples were categorized by infecting microbial organisms; Coccidioides, fungal, bacterial, viral, multiple, and, non-infectious using hospital codes and doctors notes. A sample was considered Coccidioides positive if it had a positive serology test or was confirmed by culture. Fungal samples were either Coccidioides positive or had a positive fungal culture or fungal smear. Bacterial samples were identified by gram stain, bacterial culture, or PCR. Samples were considered viral positive by PCR. If a sample was considered positive for more than one type of infectious organism (ex, bacterial positive and viral positive) it was labeled multiple. Samples that did not fit into an infectious category, as described, they were labeled non-infectious.

Sample Preparation:

Sampleprep ID:SP002544
Sampleprep Summary:The BALF samples were allowed to thaw at 4°C overnight, and then split into technical triplicates of 200 μL that were transferred and sealed into sterilized 2 mL GC headspace vials with Supelco® PTFE/silicone septum magnetic screw caps (Sigma-Aldrich®, St. Louis, MO). All samples were stored in GC headspace vials for up to 14 d at -20°C until analyzed. Samples were randomized for analysis. Volatile metabolites sampling was performed by solid phase microextraction (SPME) using a Gerstel® MPS Robotic Pro MultiPurpose autosampler directed by Maestro® software (Gerstel®, Inc., Linthicum, MD). Volatile metabolite analysis was performed by two-dimensional gas chromatography−time-of-flight mass spectrometry (GC×GC–TOFMS) using a LECO® Pegasus® 4D and Agilent® 7890B GC (LECO® Corp., St. Joseph, MI). An external alkane standards mixture (C8 – C20; Sigma-Aldrich®) was sampled multiple times for calculating retention indices (RI). The injection, chromatographic, and mass spectrometric methods for analyzing the alkane standards were the same as for the samples.
Extraction Method:Solid-phase microextraction (SPME)

Combined analysis:

Analysis ID AN003997
Analysis type MS
Chromatography type GC
Chromatography system Agilent 7890B
Column Column 1: Rxi-624Sil MS, (60m × 0.25mm × 1.4um); Column 2: Stabilwax, (1m × 0.25mm × 0.5um)
MS Type EI
MS instrument type GC x GC-TOF
MS instrument name Leco Pegasus 4D GCxGC TOF
Ion Mode POSITIVE
Units Peak areas

Chromatography:

Chromatography ID:CH002951
Methods Filename:VF_human_GCxGC_methods.docx
Instrument Name:Agilent 7890B
Column Name:Column 1: Rxi-624Sil MS, (60m × 0.25mm × 1.4um); Column 2: Stabilwax, (1m × 0.25mm × 0.5um)
Column Temperature:230
Flow Gradient:NA
Flow Rate:2 mL∙min-1 (constant)
Solvent A:NA
Solvent B:NA
Chromatography Type:GC

MS:

MS ID:MS003745
Analysis ID:AN003997
Instrument Name:Leco Pegasus 4D GCxGC TOF
Instrument Type:GC x GC-TOF
MS Type:EI
MS Comments:See attached protocol
Ion Mode:POSITIVE
Analysis Protocol File:VF_human_MS_methods.docx
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