Comparison of storage conditions for human vaginal microbiome studies

Guoyun Bai, Pawel Gajer, Melissa Nandy, Bing Ma, Hongqiu Yang, Joyce Megumi Sakamoto, May H. Blanchard, Jacques Ravel, Rebecca M. Brotman

Research output: Contribution to journalArticle

33 Citations (Scopus)

Abstract

Background: The effect of storage conditions on the microbiome and metabolite composition of human biological samples has not been thoroughly investigated as a potential source of bias. We evaluated the effect of two common storage conditions used in clinical trials on the bacterial and metabolite composition of the vaginal microbiota using pyrosequencing of barcoded 16S rRNA gene sequencing and 1H-NMR analyses. Methodology/Principal Findings: Eight women were enrolled and four mid-vaginal swabs were collected by a physician from each woman. The samples were either processed immediately, stored at -80°C for 4 weeks or at -20°C for 1 week followed by transfer to -80°C for another 4 weeks prior to analysis. Statistical methods, including Kolmogorovo-Smirnov and Wilcoxon tests, were performed to evaluate the differences in vaginal bacterial community composition and metabolites between samples stored under different conditions. The results showed that there were no significant differences between samples processed immediately after collection or stored for varying durations. 1H-NMR analysis of the small molecule metabolites in vaginal secretions indicated that high levels of lactic acid were associated with Lactobacillus-dominated communities. Relative abundance of lactic acid did not appear to correlate with relative abundance of individual Lactobacillus sp. in this limited sample, although lower levels of lactic acid were observed when L. gasseri was dominant, indicating differences in metabolic output of seemingly similar communities. Conclusions/Significance: These findings benefit large-scale, field-based microbiome and metabolomic studies of the vaginal microbiota.

Original languageEnglish (US)
Article numbere36934
JournalPloS one
Volume7
Issue number5
DOIs
StatePublished - May 24 2012

Fingerprint

Microbiota
Metabolites
storage conditions
Lactic Acid
lactic acid
metabolites
Lactobacillus
Chemical analysis
Nuclear magnetic resonance
Women Physicians
sampling
Metabolomics
Lactobacillus gasseri
rRNA Genes
metabolomics
Statistical methods
physicians
bacterial communities
Genes
Clinical Trials

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Bai, G., Gajer, P., Nandy, M., Ma, B., Yang, H., Sakamoto, J. M., ... Brotman, R. M. (2012). Comparison of storage conditions for human vaginal microbiome studies. PloS one, 7(5), [e36934]. https://doi.org/10.1371/journal.pone.0036934
Bai, Guoyun ; Gajer, Pawel ; Nandy, Melissa ; Ma, Bing ; Yang, Hongqiu ; Sakamoto, Joyce Megumi ; Blanchard, May H. ; Ravel, Jacques ; Brotman, Rebecca M. / Comparison of storage conditions for human vaginal microbiome studies. In: PloS one. 2012 ; Vol. 7, No. 5.
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Bai, G, Gajer, P, Nandy, M, Ma, B, Yang, H, Sakamoto, JM, Blanchard, MH, Ravel, J & Brotman, RM 2012, 'Comparison of storage conditions for human vaginal microbiome studies', PloS one, vol. 7, no. 5, e36934. https://doi.org/10.1371/journal.pone.0036934

Comparison of storage conditions for human vaginal microbiome studies. / Bai, Guoyun; Gajer, Pawel; Nandy, Melissa; Ma, Bing; Yang, Hongqiu; Sakamoto, Joyce Megumi; Blanchard, May H.; Ravel, Jacques; Brotman, Rebecca M.

In: PloS one, Vol. 7, No. 5, e36934, 24.05.2012.

Research output: Contribution to journalArticle

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AU - Bai, Guoyun

AU - Gajer, Pawel

AU - Nandy, Melissa

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