Intestinal microbiota development in preterm neonates and effect of perinatal antibiotics

Study information

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  • Retracted paper
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  • Batch effect issues suspected
  • Uncontrolled confounding suspected
  • Results are suspect (various reasons)
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study design

time series / longitudinal observational

Citation

PMID PubMed identifier for scientific articles.

25444008

DOI Digital object identifier for electronic documents.

10.1016/j.jpeds.2014.09.041

URI Uniform resource identifier for web resources.

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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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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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: increased abundance in 2-day old Pre-term

NCBI	Links
Bifidobacteriaceae
Comamonadaceae
Propionibacteriaceae
Streptococcaceae
Actinomycetota
Bacilli
Lactobacillaceae

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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	Links
Bacteroidaceae
Clostridiaceae
Micrococcaceae
Pasteurellaceae
Porphyromonadaceae

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Experiment 2

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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

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

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

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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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	Links
Enterobacteriaceae
Micrococcaceae
Gammaproteobacteria

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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 10-day old Pre-term

NCBI	Links
Bacteroidaceae
Bifidobacteriaceae
Clostridiaceae
Coriobacteriaceae
Lactobacillaceae
Pasteurellaceae
Porphyromonadaceae
Actinomycetes
Veillonellaceae

Revision editor(s): WikiWorks743

Experiment 3

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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

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

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

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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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

NCBI	Links
Enterobacteriaceae
Micrococcaceae
Gammaproteobacteria

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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 30-day old Pre-term

NCBI	Links
Bacteroidaceae
Bifidobacteriaceae
Clostridiaceae
Coriobacteriaceae
Lactobacillaceae
Pasteurellaceae
Porphyromonadaceae
Actinomycetes
Veillonellaceae

Revision editor(s): WikiWorks743

Experiment 4

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Curated date: 2021/01/10

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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

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

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

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: 2020-06-19

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: increased abundance in 90-day old Pre-term

NCBI	Links
Enterobacteriaceae
Micrococcaceae
Gammaproteobacteria

Revision editor(s): WikiWorks743

Signature 2

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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 90-day old Pre-term

NCBI	Links
Bacteroidaceae
Bifidobacteriaceae
Clostridiaceae
Coriobacteriaceae
Lactobacillaceae
Pasteurellaceae
Porphyromonadaceae
Actinomycetes
Veillonellaceae

Revision editor(s): WikiWorks743

Experiment 5

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Curated date: 2021/01/10

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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

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

Sequencing type

16S

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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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	Links
Lactobacillaceae

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Experiment 6

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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

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

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)

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

Sequencing type

16S

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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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	Links
Micrococcaceae
Propionibacteriaceae

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Experiment 7

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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

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

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

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

Sequencing type

16S

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: 2020-06-19

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

NCBI	Links
Comamonadaceae
Staphylococcaceae
Bacilli

Revision editor(s): WikiWorks743

Experiment 8

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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

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

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)

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

Sequencing type

16S

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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Your review change was submitted

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Curated date: 2020-06-19

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

NCBI	Links
Oscillospiraceae

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Experiment 9

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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

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

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

Sequencing type

16S

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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Your review change was submitted

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Curated date: 2020-06-19

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	Links
Enterobacteriaceae

Revision editor(s): WikiWorks743

Signature 2

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Curated date: 2020-06-19

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

NCBI	Links
Bifidobacteriaceae
Streptococcaceae
Actinomycetes
Lactobacillales

Revision editor(s): WikiWorks743

Experiment 10

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Curated date: 2021/01/10

Curator: WikiWorks743

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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

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

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

5

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

9

Lab analysis

Sequencing type

16S

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: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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	Links
Staphylococcaceae
Enterobacteriaceae

Revision editor(s): WikiWorks743

Experiment 11

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Curated date: 2021/01/10

Curator: WikiWorks743

Revision editor(s): WikiWorks753, WikiWorks743

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

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

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)

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

5

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

9

Lab analysis

Sequencing type

16S

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

EditHistoryDelete

Mark reviewed

Your review change was submitted

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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	Links
Bifidobacteriaceae

Revision editor(s): WikiWorks743