Ambient temperature alters body size and gut microbiota of Xenopus tropicalis
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Li J, Rui J, Li Y, Tang N, Zhan S, Jiang J, Li X
Journal
Science China. Life sciences
Year
2020
Keywords:
Xenopus tropicalis, body size, gut microbiota, temperature, thermal adaptation
Temperature is important to determine physiological status of ectotherms. However, it is still not fully understood how amphibians and their symbiotic microbiota acclimate to ambient temperature. In this study, we investigated the changes of gut microbiota of Xenopus tropicalis at different temperatures under controlled laboratory conditions. The results showed that microbial communities were distinct and shared only a small overlap among froglet guts, culture water and food samples. Furthermore, the dominant taxa harbored in the gut exhibited low relative abundance in water and food. It indicates that bacterial taxa selected by amphibian gut were generally of low abundance in the external environment. Temperature could affect beta-diversity of gut microbiota in terms of phylogenetic distance, but it did not affect alpha diversity. The composition of gut microbiota was similar in warm and cool treatments. However, signature taxa in different temperature environments were identified. The relationships between temperature, gut microbiota and morphology traits of X. tropicalis revealed in this study help us to predict the consequences of environmental changes on ectothermic animals.
Experiment 1
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Xenopus tropicalis
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Midgut Mesenteron,Midgut
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- temperature temperature
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Cool Temperature Treatment
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Warm Temperature Treatment
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Xenopus tropicalis gut microbiota response to warm environmental conditions
- Group 0 sample size Number of subjects in the control (unexposed) group
- 23
- Group 1 sample size Number of subjects in the case (exposed) group
- 28
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- None
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4-V5
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 0
- Matched on Factors on which subjects have been matched on in a case-control study
- Matched on: "water" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.water, Matched on: "gut" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.gut, Matched on: "food" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.food
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- Confounders controlled for: "temperature" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.temperature, Confounders controlled for: "water quality" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.water quality, diet, Confounders controlled for: "humidity" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.humidity, Confounders controlled for: "aeration" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.aeration, Confounders controlled for: "light/dark cycle" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.light/dark cycle
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- 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
Needs review
Source: Table S4 (Phylum level)
Description: Different abundance of gut microbiota between warm (group 1) and cool (group 0) environment (Warm Gut vs. Cool Gut)
Abundance in Group 1: decreased abundance in Warm Temperature Treatment
NCBI | Quality Control | Links |
---|---|---|
Armatimonadota | ||
Bacillota | ||
Chlamydiales | ||
Mycoplasmatota | ||
Pseudomonadota |
Revision editor(s): Chikamso, Peace Sandy
Signature 2
Needs review
Curated date: 2023/10/12
Curator: Chikamso
Revision editor(s): Chikamso, OdigiriGreat, Chinelsy, Peace Sandy
Source: Table S4 (Phylum level)
Description: Different abundance of gut microbiota between warm (group 1) and cool (group 0) environment (Warm Gut vs. Cool Gut)
Abundance in Group 1: increased abundance in Warm Temperature Treatment
Revision editor(s): Chikamso, OdigiriGreat, Chinelsy, Peace Sandy
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