Standard Sample Storage Conditions Have an Impact on Inferred Microbiome Composition and Antimicrobial Resistance Patterns
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
Subjects
- Location of subjects
- Denmark
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Sus scrofa domesticus
- 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
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 0 hour
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of -80°C for 64 hours
- Group 0 sample size Number of subjects in the control (unexposed) group
- 1
- Group 1 sample size Number of subjects in the case (exposed) group
- 1
Lab analysis
- Sequencing type
- WMS
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- 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).
- raw counts
- Statistical test
- DESeq2
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.01
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 2
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: text
Description: they were observed at higher abundances following storage at 22°C for 64 h
Abundance in Group 1: increased abundance in Spiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Actinomycetota | ||
Bacillota |
Revision editor(s): Bolanle
Experiment 3
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 4
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of -20°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 5
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of -80°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 6
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 samplespiked with a mock community and stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 7
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 8
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of -20°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 9
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-80°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 10
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (-80°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 11
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 samplespiked with a mock community and stored at a temperature of 64 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 12
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 13
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 14
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 15
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 16
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-80°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 17
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 18
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 19
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 20
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 21
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (22°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 22
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 23
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 24
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-80°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 25
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 26
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 27
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 28
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 29
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (5°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 30
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-80°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 31
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 32
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 33
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Microbiome Microbiome,microbiome
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 0 hour
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -80°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Signature 1
Source: Figure 4
Description: Prevotella (class Bacteroidia), the most abundant genus in pig feces, was more abundant for P1 frozen samples than in samples undergoing immediate DNA isolation, Phascolarctobacterium (class Negativicutes), also had higher abundance in stored samples than for samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (-80°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (-80°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 34
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -80°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Signature 1
Source: Figure 4
Description: Prevotella (class Bacteroidia), the most abundant genus in pig feces, was abundant for P1 frozen samples than in samples undergoing immediate DNA isolation, Phascolarctobacterium (class Negativicutes), also had higher abundance in stored samples than for samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (-80°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (-80°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 35
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Signature 1
Source: Figure 4
Description: Prevotella (class Bacteroidia), the most abundant genus in pig feces, was abundant for P1 frozen samples than in samples undergoing immediate DNA isolation, Phascolarctobacterium (class Negativicutes), also had higher abundance in stored samples than for samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 36
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 37
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Signature 1
Source: Figure 4
Description:
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description:
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 38
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 39
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 40
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Faecalibacterium | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 41
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (-80°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -80°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (-80°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (-80°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 42
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Phascolarctobacterium | ||
Roseburia | ||
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 43
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Phascolarctobacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 44
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 45
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 46
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 47
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed imm
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: lower abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 48
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-80°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 49
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 50
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 51
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 52
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 53
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: lower abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 54
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (-20°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of -20°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (-20°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 55
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 56
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately.
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 57
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 58
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 59
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Not specified
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (5°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 samplespiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 60
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 61
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 62
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Microbiome Microbiome,microbiome
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-20°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 63
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Not specified
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P1) at 16 hours (22°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P1 sample spiked with a mock community and stored at a temperature of 64 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 64
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Microbiome Microbiome,microbiome
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (-20°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema |
Revision editor(s): Bolanle
Experiment 65
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately.
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 66
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Phascolarctobacterium | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 67
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (5°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (5°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium |
Revision editor(s): Bolanle
Experiment 68
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella |
Revision editor(s): Bolanle
Experiment 69
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Faecalibacterium | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Treponema |
Revision editor(s): Bolanle
Experiment 70
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (5°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 16 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 71
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Unspiked pig feces(P1) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Unspiked P1 sample stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 72
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Unspiked pig feces(P1) at 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 4
Description: higher abundance with increasing temperature and time was detected in samples processed immediately
Abundance in Group 1: increased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Treponema | ||
Faecalibacterium |
Revision editor(s): Bolanle
Signature 2
Source: Figure 4
Description: There was lower abundance of the taxa in frozen samples than what was detected in samples processed immediately
Abundance in Group 1: decreased abundance in Unspiked pig feces(P1) at 64 hours (22°C)
NCBI | Quality Control | Links |
---|---|---|
Prevotella | ||
Phascolarctobacterium | ||
Roseburia |
Revision editor(s): Bolanle
Experiment 73
Subjects
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Not specified
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P2) at 0 hour
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of -80°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 74
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 22°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 75
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 5°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 76
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of -20°C for 64 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 77
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of -80°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 78
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 5°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 79
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 22°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 80
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of -20°C for 16 hours
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 81
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (-80°C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 64 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 82
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (-80°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 64 hours (-80°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 83
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 64 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
Experiment 84
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (-20°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 16 hours (-20°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Experiment 85
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 64 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 64 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 86
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (22°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 16 hours (22°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 87
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Spiked pig feces(P2) at 16 hours (5°C)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- P2 sample spiked with a mock community and stored at a temperature of 16 hours (5°C)
Lab analysis
Statistical Analysis
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Experiment 88