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

From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-24
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
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


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,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,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

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 ControlLinks
Lactobacillus

Revision editor(s): WikiWorks

Signature 2

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

NCBI Quality ControlLinks
Escherichia
Streptococcus

Revision editor(s): WikiWorks

Experiment 2


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

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Claregrieve1

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

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 ControlLinks
Enterococcus

Revision editor(s): WikiWorks, Claregrieve1

Experiment 3


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
Group 0 sample size Number of subjects in the control (unexposed) group
22

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
unchanged

Signature 1

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

Curated date: 2023/05/24

Curator: Claregrieve1

Revision editor(s): Claregrieve1

Source: Text

Description: Differential microbial abundance between infants who received short-term and long-term antibiotics

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

NCBI Quality ControlLinks
Clostridium sp.

Revision editor(s): Claregrieve1

Signature 2

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

Curated date: 2023/05/24

Curator: Claregrieve1

Revision editor(s): Claregrieve1

Source: Text

Description: Differential microbial abundance between infants who received short-term and long-term antibiotics

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

NCBI Quality ControlLinks
Veillonella

Revision editor(s): Claregrieve1