Dynamics of the bacterial gut microbiota in preterm and term infants after intravenous amoxicillin/ceftazidime treatment

Study information

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-24

study design

time series / longitudinal observational

Citation

PMID PubMed identifier for scientific articles.

32380969

DOI Digital object identifier for electronic documents.

10.1186/s12887-020-02067-z

URI

Authors

Zwittink RD, van Zoeren-Grobben D, Renes IB, van Lingen RA, Norbruis OF, Martin R, Groot Jebbink LJ, Knol J, Belzer C

Journal

BMC pediatrics

Year

2020

Keywords:

Antibiotics, Gut microbiota, Infant, Next generation sequencing, Preterm

BACKGROUND: It is important to understand the consequences of pre-emptive antibiotic treatment in neonates, as disturbances in microbiota development during this key developmental time window might affect early and later life health outcomes. Despite increasing knowledge regarding the detrimental effect of antibiotics on the gut microbiota, limited research focussed on antibiotic treatment duration. We determined the effect of short and long amoxicillin/ceftazidime administration on gut microbiota development during the immediate postnatal life of preterm and term infants. METHODS: Faeces was collected from 63 (pre) term infants at postnatal weeks one, two, three, four and six. Infants received either no (control), short-term (ST) or long-term (LT) postpartum amoxicillin/ceftazidime treatment. RESULTS: Compared to control infants, ST and LT infants' microbiota contained significantly higher abundance of Enterococcus during the first two postnatal weeks at the expense of Bifidobacterium and Streptococcus. Short and long antibiotic treatment both allowed for microbiota restoration within the first six postnatal weeks. However, Enterococcus and Bifidobacterium abundances were affected in fewer ST than LT infants. CONCLUSIONS: Intravenous amoxicillin/ceftazidime administration affects intestinal microbiota composition by decreasing the relative abundance of Escherichia-Shigella and Streptococcus, while increasing the relative abundance of Enterococcus and Lactobacillus species during the first two postnatal weeks. Thriving of enterococci at the expense of bifidobacteria and streptococci should be considered as aspect of the cost-benefit determination for antibiotic prescription.

Experiment 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-24

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Claregrieve1

Subjects

Location of subjects: Netherlands

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: antimicrobial agent antibiotic,antibiotics,Antibiotika,Antibiotikum,antibiotique,antimicrobial,antimicrobial agents,microbicide,microbicides,antimicrobial agent

Group 0 name Corresponds to the control (unexposed) group for case-control studies: control (no treatment) - week 1

Group 1 name Corresponds to the case (exposed) group for case-control studies: infants who received short-term or long-term antibiotic treatment - week 1

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: infants born between 32-42 weeks of gestation and admitted to the hospital (level III neonatal intensive care or level II neonatal ward) who received short-term antibiotics (<3 days) or longterm antibiotics (>5 days)

Group 0 sample size Number of subjects in the control (unexposed) group: 28

Group 1 sample size Number of subjects in the case (exposed) group: 35

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

Statistical test: Kruskall-Wallis

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: No

Alpha Diversity

Chao1 Abundance-based estimator of species richness: unchanged

Signature 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-24

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Differences in gut microbiota composition between infants receiving no, short or long antibiotic treatment

Abundance in Group 1: increased abundance in infants who received short-term or long-term antibiotic treatment - week 1

NCBI	Quality Control	Links
Lactobacillus

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Signature 2

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Source: Text

Description: Differences in gut microbiota composition between infants receiving no, short or long antibiotic treatment

Abundance in Group 1: decreased abundance in infants who received short-term or long-term antibiotic treatment - week 1

NCBI	Quality Control	Links
Escherichia
Streptococcus

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Experiment 2

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Curated date: 2021/01/10

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Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: control(no treatment) - week 2

Group 1 name Corresponds to the case (exposed) group for case-control studies: infants received long-term(>5days) antibiotic treatment - week 2

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: infants born between 32-42 weeks of gestation and admitted to the hospital (level III neonatal intensive care or level II neonatal ward) who received >5 days antibiotics, week 2 timepoint

Group 1 sample size Number of subjects in the case (exposed) group: 13

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness: unchanged

Signature 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-24

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks, Claregrieve1

Source: Text

Description: Differences in gut microbiota composition between infants receiving no, short or long antibiotic treatment

Abundance in Group 1: increased abundance in infants received long-term(>5days) antibiotic treatment - week 2

NCBI	Quality Control	Links
Enterococcus

Revision editor(s): WikiWorks, Claregrieve1

Experiment 3

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Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-24

Curated date: 2023/05/24

Curator: Claregrieve1

Revision editor(s): Claregrieve1

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: infants received short-term (<3days) antibiotic treatment - week 1

Group 1 name Corresponds to the case (exposed) group for case-control studies: infants received long-term (>5days) antibiotic treatment - week 1

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: infants born between 32-42 weeks of gestation and admitted to the hospital (level III neonatal intensive care or level II neonatal ward) who received longterm (>5 days) antibiotics, first post-natal week timepoint