Intestinal microbiota development in preterm neonates and effect of perinatal antibiotics

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Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
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


Needs review

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
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

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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

Revision editor(s): WikiWorks743

Signature 2

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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

Revision editor(s): WikiWorks743

Experiment 2


Needs review

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
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

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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

Revision editor(s): WikiWorks743

Signature 2

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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


Needs review

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
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

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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

Revision editor(s): WikiWorks743

Signature 2

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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


Needs review

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
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

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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

Needs review

Curated date: 2020-06-19

Curator: Mst Afroza Parvin

Revision editor(s): WikiWorks743

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


Needs review

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
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

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 2-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI Links
Lactobacillaceae

Revision editor(s): WikiWorks743

Experiment 6


Needs review

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
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

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 10-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI Links
Micrococcaceae
Propionibacteriaceae

Revision editor(s): WikiWorks743

Experiment 7


Needs review

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
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

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 30-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI Links
Comamonadaceae
Staphylococcaceae
Bacilli

Revision editor(s): WikiWorks743

Experiment 8


Needs review

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 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

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)

NCBI Links
Oscillospiraceae

Revision editor(s): WikiWorks743

Experiment 9


Needs review

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
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

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

NCBI Links
Enterobacteriaceae

Revision editor(s): WikiWorks743

Signature 2

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 30-day old pre-tem neonates exposed to antibiotics (IAP)

NCBI Links
Bifidobacteriaceae
Streptococcaceae
Actinomycetes
Lactobacillales

Revision editor(s): WikiWorks743

Experiment 10


Needs review

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
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

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 30-day old pre-tem neonates exposed to antibiotics (IAP/postnatal)

NCBI Links
Staphylococcaceae
Enterobacteriaceae

Revision editor(s): WikiWorks743

Experiment 11


Needs review

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

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