Minimal residual disease negativity in multiple myeloma is associated with intestinal microbiota composition
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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
Pianko MJ, Devlin SM, Littmann ER, Chansakul A, Mastey D, Salcedo M, Fontana E, Ling L, Tavitian E, Slingerland JB, Slingerland AE, Clurman A, Gomes ALC, Taur Y, Pamer EG, Peled JU, van den Brink MRM, Landgren O, Lesokhin AM
Journal
Blood advances
Year
2019
Patients with multiple myeloma (MM) who achieve minimal residual disease (MRD) negativity after upfront treatment have superior outcomes compared with those who remain MRD+ Recently, associations have been shown between specific commensal microbes and development of plasma cell disorders. Here, we report the association between intestinal microbiota composition and treatment outcome in MM. Microbiota composition of fecal samples collected from 34 MM patients after induction therapy and at the time of flow cytometry-based bone marrow MRD testing was determined by 16S ribosomal RNA sequencing. We observed a higher relative abundance of Eubacterium hallii in the 16 MRD- patients relative to the 18 MRD+ patients. No association was observed between microbial relative abundance and autologous stem cell transplantation history or MM paraprotein isotype. No differences in microbiota α diversity were observed between MRD- and MRD+ patients. The potential association of microbiota composition with treatment response in MM patients is an important parameter for additional correlative and clinical investigation.
Experiment 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Acute lymphoblastic leukemia acute lymphoblastic leukemia,acute lymphoblastic leukemia (ALL),acute lymphoblastic leukemia (disease),acute lymphoblastic leukemia/lymphoma,acute lymphocytic leukaemia,acute lymphocytic leukemia,acute lymphocytic leukemias,acute lymphogenous leukemia,acute lymphoid leukemia,ALL,ALL - acute lymphocytic leukemia,leukemia, lymphoblastic, malignant,lymphoblastic leukemia,lymphoblastic leukemia, acute,precursor cell lymphoblastic leukemia,precursor Lymphoblasic leukemia,precursor lymphoblastic leukemia,Acute lymphoblastic leukemia
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Minimal Residual Disease+ (positivity) with Allogenic Stem Cell Transplant
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with multiple myeloma (MM) who achieve minimal residual disease (MRD) negativity (MRD-) after upfront treatment
- Group 0 sample size Number of subjects in the control (unexposed) group
- 18
- Group 1 sample size Number of subjects in the case (exposed) group
- 16
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
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1a
Description: Linear discriminant analysis (LDA) effect size analysis of microbiota differentially associated with MRD status with subclass of autologous stem cell transplantation (ASCT)
Abundance in Group 1: increased abundance in Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium prausnitzii | ||
| Faecalibacterium | ||
| Anaerobutyricum hallii | ||
| Ethanoligenens harbinense | ||
| Ethanoligenens | ||
| Sporobacter termitidis | ||
| Sporobacter |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1a
Description: Linear discriminant analysis (LDA) effect size analysis of microbiota differentially associated with MRD status with subclass of autologous stem cell transplantation (ASCT)
Abundance in Group 1: decreased abundance in Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomyces israelii | ||
| Actinomyces naeslundii | ||
| Micrococcales | ||
| Micrococcaceae | ||
| Rothia | ||
| Rothia dentocariosa | ||
| Rothia mucilaginosa | ||
| [Clostridium] nexile | ||
| Streptococcus equinus |
Revision editor(s): WikiWorks
Experiment 2
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Differences from previous experiment shown
Subjects
Lab analysis
Statistical Analysis
Alpha Diversity
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1b
Description: Relative abundance of genera Eubacterium and Faecalibacterium by MRD status
Abundance in Group 1: increased abundance in Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Eubacterium | ||
| Faecalibacterium |
Experiment 3
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Differences from previous experiment shown
Subjects
Lab analysis
Statistical Analysis
- Statistical test
- Mann-Whitney (Wilcoxon)
Alpha Diversity
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1c
Description: Forest plots showing effect of covariates on relative abundance of E hallii and F prausnitzii
Abundance in Group 1: increased abundance in Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium prausnitzii |
Revision editor(s): WikiWorks
Experiment 4
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- female
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- males
Lab analysis
Statistical Analysis
Alpha Diversity
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1c
Description: Forest plots showing effect of covariates on relative abundance of E hallii and F prausnitzii
Abundance in Group 1: increased abundance in males
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium prausnitzii |
Revision editor(s): WikiWorks
Experiment 5
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Minimal Residual Disease+ (positivity) with Allogenic Stem Cell Transplant
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
Lab analysis
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- Not specified
Alpha Diversity
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1c
Description: Forest plots showing effect of covariates on relative abundance of E hallii and F prausnitzii
Abundance in Group 1: increased abundance in Minimal Residual Disease- (negativity) with Allogenic Stem Cell Transplant
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerobutyricum hallii |
Revision editor(s): WikiWorks
Experiment 6
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Age greater than 65 years old
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Age less than 65 years old
Lab analysis
Statistical Analysis
Alpha Diversity
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-3
Source: Figure 1c
Description: Forest plots showing effect of covariates on relative abundance of E hallii and F prausnitzii
Abundance in Group 1: increased abundance in Age less than 65 years old
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerobutyricum hallii |
Revision editor(s): WikiWorks
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