A protocol for characterization of extremely preterm infant gut microbiota in double-blind clinical trials

Magalí Martí; Johanne E. Spreckels; Maria C. Jenmalm; Thomas Abrahamsson

doi:10.1016/j.xpro.2021.100652

A protocol for characterization of extremely preterm infant gut microbiota in double-blind clinical trials

Magalí Martí^*, Johanne E. Spreckels, Maria C. Jenmalm, Thomas Abrahamsson

^*Corresponding author voor dit werk

Onderzoeksoutput: Article › Academic › peer review

6 Citaten (Scopus)

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16S rRNA gene sequencing enables microbial community profiling, but recovering fecal DNA from extremely premature infants is challenging. Here, we describe an optimized protocol for fecal DNA isolation, library preparation for 16S rRNA gene sequencing, taxonomy assignation, and statistical analyses. The protocol is complemented with a quantitative PCR for probiotic L. reuteri identification. This protocol describes how to characterize preterm infant gut microbiota and relate it to probiotic supplementation and clinical outcomes. It is customizable for other clinical trials. For complete details on the use and execution of this protocol, please refer to Martí et al. (2021) and Spreckels et al. (2021).

Originele taal-2	English
Artikelnummer	100652
Aantal pagina's	17
Tijdschrift	STAR protocols
Volume	2
Nummer van het tijdschrift	3
DOI's	https://doi.org/10.1016/j.xpro.2021.100652
Status	Published - 17-sep.-2021

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10.1016/j.xpro.2021.100652Licentie: CC BY

A protocol for characterization of extremely preterm infant gut microbiota in double-blind clinical trialsFinal publisher's version, 2,15 MBLicentie: CC BY

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title = "A protocol for characterization of extremely preterm infant gut microbiota in double-blind clinical trials",

abstract = "16S rRNA gene sequencing enables microbial community profiling, but recovering fecal DNA from extremely premature infants is challenging. Here, we describe an optimized protocol for fecal DNA isolation, library preparation for 16S rRNA gene sequencing, taxonomy assignation, and statistical analyses. The protocol is complemented with a quantitative PCR for probiotic L. reuteri identification. This protocol describes how to characterize preterm infant gut microbiota and relate it to probiotic supplementation and clinical outcomes. It is customizable for other clinical trials. For complete details on the use and execution of this protocol, please refer to Mart{\'i} et al. (2021) and Spreckels et al. (2021).",

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AU - Abrahamsson, Thomas

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N2 - 16S rRNA gene sequencing enables microbial community profiling, but recovering fecal DNA from extremely premature infants is challenging. Here, we describe an optimized protocol for fecal DNA isolation, library preparation for 16S rRNA gene sequencing, taxonomy assignation, and statistical analyses. The protocol is complemented with a quantitative PCR for probiotic L. reuteri identification. This protocol describes how to characterize preterm infant gut microbiota and relate it to probiotic supplementation and clinical outcomes. It is customizable for other clinical trials. For complete details on the use and execution of this protocol, please refer to Martí et al. (2021) and Spreckels et al. (2021).

AB - 16S rRNA gene sequencing enables microbial community profiling, but recovering fecal DNA from extremely premature infants is challenging. Here, we describe an optimized protocol for fecal DNA isolation, library preparation for 16S rRNA gene sequencing, taxonomy assignation, and statistical analyses. The protocol is complemented with a quantitative PCR for probiotic L. reuteri identification. This protocol describes how to characterize preterm infant gut microbiota and relate it to probiotic supplementation and clinical outcomes. It is customizable for other clinical trials. For complete details on the use and execution of this protocol, please refer to Martí et al. (2021) and Spreckels et al. (2021).

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KW - Microbiology

KW - Molecular Biology

KW - Sequencing

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A protocol for characterization of extremely preterm infant gut microbiota in double-blind clinical trials

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