Intestinal microbiota development in preterm neonates and effect of perinatal antibiotics

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Study information

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study design

time series / longitudinal observational

Citation

PMID PubMed identifier for scientific articles.

DOI Digital object identifier for electronic documents.

10.1016/j.jpeds.2014.09.041

URI

Authors

Arboleya S, Sánchez B, Milani C, Duranti S, Solís G, Fernández N, de los Reyes-Gavilán CG, Ventura M, Margolles A, Gueimonde M

Journal

The Journal of pediatrics

Year

2015

OBJECTIVES: To assess the establishment of the intestinal microbiota in very low birthweight preterm infants and to evaluate the impact of perinatal factors, such as delivery mode and perinatal antibiotics. STUDY DESIGN: We used 16S ribosomal RNA gene sequence-based microbiota analysis and quantitative polymerase chain reaction to evaluate the establishment of the intestinal microbiota. We also evaluated factors affecting the microbiota, during the first 3 months of life in preterm infants (n = 27) compared with full-term babies (n = 13). RESULTS: Immaturity affects the microbiota as indicated by a reduced percentage of the family Bacteroidaceae during the first months of life and by a higher initial percentage of Lactobacillaceae in preterm infants compared with full term infants. Perinatal antibiotics, including intrapartum antimicrobial prophylaxis, affects the gut microbiota, as indicated by increased Enterobacteriaceae family organisms in the infants. CONCLUSIONS: Prematurity and perinatal antibiotic administration strongly affect the initial establishment of microbiota with potential consequences for later health.

Experiment 1

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Curated date: 2021/01/10

Curator: WikiWorks

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Subjects

Location of subjects: Spain

Host species Species from which microbiome was sampled (if applicable): 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: premature birth Birth, Premature,Birth, Preterm,Births, Premature,Births, Preterm,Premature Births,Preterm Birth,Preterm Births,premature birth

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 2-day old Full-term infants(born after uncomplicated pregnancy)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 2-day old Pre-term
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: born at gestational ages between 24 and 32 weeks
Group 0 sample size Number of subjects in the control (unexposed) group: 13
Group 1 sample size Number of subjects in the case (exposed) group: 27

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: Ion Torrent

Statistical Analysis

Statistical test: ANOVA

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

Signature 1

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Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: increased abundance in 2-day old Pre-term

NCBI	Quality Control	Links
Bifidobacteriaceae
Comamonadaceae
Propionibacteriaceae
Streptococcaceae
Actinomycetota
Bacilli
Lactobacillaceae

Revision editor(s): WikiWorks

Signature 2

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Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: decreased abundance in 2-day old Pre-term

NCBI	Quality Control	Links
Bacteroidaceae
Clostridiaceae
Micrococcaceae
Pasteurellaceae
Porphyromonadaceae

Revision editor(s): WikiWorks

Experiment 2

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Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 10-day old Full-term infants(born after uncomplicated pregnancy)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 10-day old Pre-term

Lab analysis

Statistical Analysis

Signature 1

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Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: increased abundance in 10-day old Pre-term

NCBI	Quality Control	Links
Enterobacteriaceae
Micrococcaceae
Gammaproteobacteria

Revision editor(s): WikiWorks

Signature 2

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Curated date: 2021/01/10

Curator: Mst Afroza Parvin

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Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: decreased abundance in 10-day old Pre-term

NCBI	Quality Control	Links
Bacteroidaceae
Bifidobacteriaceae
Clostridiaceae
Coriobacteriaceae
Lactobacillaceae
Pasteurellaceae
Porphyromonadaceae
Veillonellaceae
unclassified Actinomycetota

Revision editor(s): WikiWorks, Atrayees

Experiment 3

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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: 30-day old Full-term infants(born after uncomplicated pregnancy)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 30-day old Pre-term infants

Lab analysis

Statistical Analysis

Signature 1

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: increased abundance in 30-day old Pre-term infants

NCBI	Quality Control	Links
Enterobacteriaceae
Micrococcaceae
Gammaproteobacteria

Revision editor(s): WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: decreased abundance in 30-day old Pre-term infants

NCBI	Quality Control	Links
Bacteroidaceae
Bifidobacteriaceae
Clostridiaceae
Coriobacteriaceae
Lactobacillaceae
Pasteurellaceae
Porphyromonadaceae
Actinomycetes
Veillonellaceae

Revision editor(s): WikiWorks

Experiment 4

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Curated date: 2021/01/10

Curator: WikiWorks

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Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 90-day old Full-term infants(born after uncomplicated pregnancy)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 90-day old Pre-term

Lab analysis

Statistical Analysis

Signature 1

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: increased abundance in 90-day old Pre-term

NCBI	Quality Control	Links
Enterobacteriaceae
Micrococcaceae
Gammaproteobacteria

Revision editor(s): WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Establishment of Intestinal Microbiota in VLBW Preterm Neonates Compared with FTVDBF Infants

Abundance in Group 1: decreased abundance in 90-day old Pre-term

NCBI	Quality Control	Links
Bacteroidaceae
Bifidobacteriaceae
Clostridiaceae
Coriobacteriaceae
Lactobacillaceae
Pasteurellaceae
Porphyromonadaceae
Actinomycetes
Veillonellaceae

Revision editor(s): WikiWorks

Experiment 5

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Curated date: 2021/01/10

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Differences from previous experiment shown

Subjects

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: 2-day old full-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 2-day old pre-tem neonates exposed to antibiotics (IAP)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: antenatal/postnatal antibiotic exposure
Group 0 sample size Number of subjects in the control (unexposed) group: 14
Group 1 sample size Number of subjects in the case (exposed) group: 10

Lab analysis

Statistical Analysis

Signature 1

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Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 2-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI	Quality Control	Links
Lactobacillaceae

Revision editor(s): WikiWorks

Experiment 6

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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: 10-day old full-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 10-day old pre-tem neonates exposed to antibiotics (IAP)

Lab analysis

Statistical Analysis

Signature 1

Edit History Delete

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 10-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI	Quality Control	Links
Micrococcaceae
Propionibacteriaceae

Revision editor(s): WikiWorks

Experiment 7

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: WikiWorks

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Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 30-day old full-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 30-day old pre-tem neonates exposed to antibiotics (IAP)

Lab analysis

Statistical Analysis

Signature 1

Edit History Delete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks, Atrayees

Source: Text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 30-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI	Quality Control	Links
Comamonadaceae
Staphylococcaceae
unclassified Bacilli

Revision editor(s): WikiWorks, Atrayees

Experiment 8

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 90-day old full-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 90-day old pre-tem neonates exposed to antibiotics (IAP)

Lab analysis

Statistical Analysis

Signature 1

Edit History Delete

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 90-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI	Quality Control	Links
Oscillospiraceae

Revision editor(s): WikiWorks

Experiment 9

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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: 30-day old full-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 30-day old pre-tem neonates exposed to antibiotics (IAP)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: IAP exposure
Group 0 sample size Number of subjects in the control (unexposed) group: 5
Group 1 sample size Number of subjects in the case (exposed) group: 14

Lab analysis

Statistical Analysis

Signature 1

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Curator: Mst Afroza Parvin

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Source: Text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: increased abundance in 30-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI	Quality Control	Links
Enterobacteriaceae

Revision editor(s): WikiWorks

Signature 2

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Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: Text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 30-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI	Quality Control	Links
Bifidobacteriaceae
Streptococcaceae
Actinomycetes
Lactobacillales

Revision editor(s): WikiWorks

Experiment 10

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 30-day old pre-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 30-day old pre-tem neonates exposed to antibiotics (IAP/postnatal)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: pre-term infants and mothers exposed to antibiotics
Group 1 sample size Number of subjects in the case (exposed) group: 9

Lab analysis

Statistical Analysis

Signature 1

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Source: text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 30-day old pre-tem neonates exposed to antibiotics (IAP/postnatal)

NCBI	Quality Control	Links
Staphylococcaceae
Enterobacteriaceae
unclassified Actinomycetota

Revision editor(s): WikiWorks, Atrayees

Experiment 11

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Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: 90-day old pre-term neonates not exposed to antibiotics (IAP/postnatal)
Group 1 name Corresponds to the case (exposed) group for case-control studies: 90-day old pre-tem neonates exposed to antibiotics (IAP/postnatal)

Lab analysis

Statistical Analysis

Signature 1

Edit History Delete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Atrayees on 2023-7-21

Curated date: 2021/01/10

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks

Source: text

Description: Impact of Delivery Mode and Antibiotics Use on the Establishment of Intestinal Microbiota

Abundance in Group 1: decreased abundance in 90-day old pre-tem neonates exposed to antibiotics (IAP/postnatal)

NCBI	Quality Control	Links
Bifidobacteriaceae

Revision editor(s): WikiWorks

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