The profiling of microbiota in vaginal swab samples using 16S rRNA gene sequencing and IS-pro analysis

M. Singer; R. Koedooder; M. P. Bos; L. Poort; S. Schoenmakers; P. H.M. Savelkoul; J. S.E. Laven; J. D. de Jonge; S. A. Morré; A. E. Budding

doi:10.1186/s12866-021-02149-7

The profiling of microbiota in vaginal swab samples using 16S rRNA gene sequencing and IS-pro analysis

M. Singer, R. Koedooder^*, M. P. Bos, L. Poort, S. Schoenmakers, P. H.M. Savelkoul, J. S.E. Laven, J. D. de Jonge, S. A. Morré, A. E. Budding

^*Corresponding author for this work

Obstetrics & Gynecology

Research output: Contribution to journal › Article › Academic › peer-review

13 Citations (Scopus)

Abstract

Background: 16S rRNA gene sequencing is currently the most common way of determining the composition of microbiota. This technique has enabled many new discoveries to be made regarding the relevance of microbiota to the health and disease of the host. However, compared to other diagnostic techniques, 16S rRNA gene sequencing is fairly costly and labor intensive, leaving room for other techniques to improve on these aspects. Results: The current study aimed to compare the output of 16S rRNA gene sequencing to the output of the quick IS-pro analysis, using vaginal swab samples from 297 women of reproductive age. 16S rRNA gene sequencing and IS-pro analyses yielded very similar vaginal microbiome profiles, with a median Pearson’s R² of 0.97, indicating a high level of similarity between both techniques. Conclusions: We conclude that the results of 16S rRNA gene sequencing and IS-pro are highly comparable and that both can be used to accurately determine the vaginal microbiota composition, with the IS-pro analysis having the benefit of rapidity.

Original language	English
Article number	100
Journal	BMC Microbiology
Volume	21
Issue number	1
DOIs	https://doi.org/10.1186/s12866-021-02149-7
Publication status	Published - 31 Mar 2021

Bibliographical note

Funding Information:
This study was financed by NGI Pre-Seed 2014–2016, RedMedTech Discovery Fund 2014–2017, STW Valorisation grant 1 2014–2015, STW Take-off early phase trajectory 2015–2016, Eurostars VALBIOME grant (reference number: 8884), MIND subsidy.

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© 2021, The Author(s).

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abstract = "Background: 16S rRNA gene sequencing is currently the most common way of determining the composition of microbiota. This technique has enabled many new discoveries to be made regarding the relevance of microbiota to the health and disease of the host. However, compared to other diagnostic techniques, 16S rRNA gene sequencing is fairly costly and labor intensive, leaving room for other techniques to improve on these aspects. Results: The current study aimed to compare the output of 16S rRNA gene sequencing to the output of the quick IS-pro analysis, using vaginal swab samples from 297 women of reproductive age. 16S rRNA gene sequencing and IS-pro analyses yielded very similar vaginal microbiome profiles, with a median Pearson{\textquoteright}s R2 of 0.97, indicating a high level of similarity between both techniques. Conclusions: We conclude that the results of 16S rRNA gene sequencing and IS-pro are highly comparable and that both can be used to accurately determine the vaginal microbiota composition, with the IS-pro analysis having the benefit of rapidity.",

author = "M. Singer and R. Koedooder and Bos, {M. P.} and L. Poort and S. Schoenmakers and Savelkoul, {P. H.M.} and Laven, {J. S.E.} and {de Jonge}, {J. D.} and Morr{\'e}, {S. A.} and Budding, {A. E.}",

note = "Funding Information: This study was financed by NGI Pre-Seed 2014–2016, RedMedTech Discovery Fund 2014–2017, STW Valorisation grant 1 2014–2015, STW Take-off early phase trajectory 2015–2016, Eurostars VALBIOME grant (reference number: 8884), MIND subsidy. Publisher Copyright: {\textcopyright} 2021, The Author(s).",

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doi = "10.1186/s12866-021-02149-7",

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AU - Koedooder, R.

AU - Bos, M. P.

AU - Poort, L.

AU - Schoenmakers, S.

AU - Savelkoul, P. H.M.

AU - Laven, J. S.E.

AU - de Jonge, J. D.

AU - Morré, S. A.

AU - Budding, A. E.

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PY - 2021/3/31

Y1 - 2021/3/31

N2 - Background: 16S rRNA gene sequencing is currently the most common way of determining the composition of microbiota. This technique has enabled many new discoveries to be made regarding the relevance of microbiota to the health and disease of the host. However, compared to other diagnostic techniques, 16S rRNA gene sequencing is fairly costly and labor intensive, leaving room for other techniques to improve on these aspects. Results: The current study aimed to compare the output of 16S rRNA gene sequencing to the output of the quick IS-pro analysis, using vaginal swab samples from 297 women of reproductive age. 16S rRNA gene sequencing and IS-pro analyses yielded very similar vaginal microbiome profiles, with a median Pearson’s R2 of 0.97, indicating a high level of similarity between both techniques. Conclusions: We conclude that the results of 16S rRNA gene sequencing and IS-pro are highly comparable and that both can be used to accurately determine the vaginal microbiota composition, with the IS-pro analysis having the benefit of rapidity.

AB - Background: 16S rRNA gene sequencing is currently the most common way of determining the composition of microbiota. This technique has enabled many new discoveries to be made regarding the relevance of microbiota to the health and disease of the host. However, compared to other diagnostic techniques, 16S rRNA gene sequencing is fairly costly and labor intensive, leaving room for other techniques to improve on these aspects. Results: The current study aimed to compare the output of 16S rRNA gene sequencing to the output of the quick IS-pro analysis, using vaginal swab samples from 297 women of reproductive age. 16S rRNA gene sequencing and IS-pro analyses yielded very similar vaginal microbiome profiles, with a median Pearson’s R2 of 0.97, indicating a high level of similarity between both techniques. Conclusions: We conclude that the results of 16S rRNA gene sequencing and IS-pro are highly comparable and that both can be used to accurately determine the vaginal microbiota composition, with the IS-pro analysis having the benefit of rapidity.

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The profiling of microbiota in vaginal swab samples using 16S rRNA gene sequencing and IS-pro analysis

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