Intestinal microbiota is altered in patients with colon cancer and modified by probiotic intervention

Study information

EditHistoryDelete

Flag for review

Your review change was submittedAdd a new Experiment

• Quality control
  • Retracted paper
  • Contamination issues suspected
  • Batch effect issues suspected
  • Uncontrolled confounding suspected
  • Results are suspect (various reasons)
  • Apply tags

    Tags applied

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

28944067

DOI Digital object identifier for electronic documents.

10.1136/bmjgast-2017-000145

URI

Authors

Hibberd AA, Lyra A, Ouwehand AC, Rolny P, Lindegren H, Cedgård L, Wettergren Y

Journal

BMJ open gastroenterology

Year

2017

Keywords:

COLORECTAL CANCER, INTESTINAL MICROBIOLOGY, PROBIOTICS, TUMOUR MARKERS

OBJECTIVE: The colonic microbiota is altered in patients with colorectal cancer (CRC). We investigated the microbiota composition of patients with colon cancer compared with controls devoid of neoplastic or inflammatory disease and the potential to modify the colonic microbiota with probiotics. DESIGN: Biopsy samples were obtained from the normal mucosa and tumour during colonoscopy from 15 patients with colon cancer. Subsequent patient-matched samples were taken at surgery from the tumour and nearby mucosa from the patients with cancer, eight of whom had received two daily tablets totalling 1.4×1010 CFUs Bifidobacterium lactis Bl-04 and 7×109 CFUs Lactobacillus acidophilus NCFM. Faecal samples were obtained after colonoscopy prior to starting the intervention and at surgery. In addition, 21 mucosal biopsies from non-cancer controls were obtained during colonoscopy followed by later faecal samples. The colonic and faecal microbiota was assessed by 16S rRNA gene amplicon sequencing. RESULTS: The tumour microbiota was characterised by increased microbial diversity and enrichment of several taxa including Fusobacterium, Selenomonas and Peptostreptococcus compared with the control microbiota. Patients with colon cancer that received probiotics had an increased abundance of butyrate-producing bacteria, especially Faecalibacterium and Clostridiales spp in the tumour, non-tumour mucosa and faecal microbiota. CRC-associated genera such as Fusobacterium and Peptostreptococcus tended to be reduced in the faecal microbiota of patients that received probiotics. CONCLUSIONS: Patients with colon cancer harbour a distinct microbiota signature in the tumour tissue and nearby mucosa, which was altered with probiotic intervention. Our results show promise for potential therapeutic benefits in CRC by manipulation of the microbiota. TRIAL REGISTRATION NUMBER: NCT03072641; Results.

Experiment 1

Empty strings are not accepted.

EditHistoryDelete

Flag for review

Your review change was submittedDuplicate this ExperimentAdd a new Signature

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Fatima, Claregrieve1, ChiomaBlessing

Subjects

Location of subjects

Sweden

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

Mucosa of ascending colon Ascending colon mucosa,Ascending colon mucosa of organ,Ascending colon mucous membrane,Ascending colon organ mucosa,Mucosa of organ of ascending colon,Mucous membrane of ascending colon,Organ mucosa of ascending colon,Mucosa of ascending colon,mucosa of ascending colon

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Colorectal carcinoma

Group 0 name Corresponds to the control (unexposed) group for case-control studies

control group

Group 1 name Corresponds to the case (exposed) group for case-control studies

colon cancer patients

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

patients diagnosed with stage I-III colon cancer

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

14

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

12

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

recent

Lab analysis

Sequencing type

16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

V4

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)

0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?

Yes

Alpha Diversity

Richness Number of species

increased

Signature 1

EditHistoryDelete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Source: Table 2, supplemental table S1

Description: Microbiota alterations in colon cancer mucosa samples compared with non cancer control mucosa at colonoscopy

Abundance in Group 1: increased abundance in colon cancer patients

NCBI	Quality Control	Links
Bacteroidota
Bilophila
Clostridium
Dialister
Methanobacteriota
Fusobacteriota
Fusobacterium
Methanobrevibacter
Oscillospira
Peptostreptococcus
Mycoplasmatota

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Signature 2

EditHistoryDelete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Source: Table 2, supplemental table S1

Description: Microbiota alterations in colon cancer mucosa compared with non cancer control mucosa at colonoscopy

Abundance in Group 1: decreased abundance in colon cancer patients

NCBI	Quality Control	Links
Streptococcus

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Experiment 2

Empty strings are not accepted.

EditHistoryDelete

Flag for review

Your review change was submittedDuplicate this ExperimentAdd a new Signature

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, WikiWorks, ChiomaBlessing

Differences from previous experiment shown

Subjects

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology

Colon Hindgut,Large bowel,Posterior intestine,Colon,colon

Group 1 name Corresponds to the case (exposed) group for case-control studies

colon cancer patients (tumor samples)

Lab analysis

Statistical Analysis

Alpha Diversity

Richness Number of species

increased

Signature 1

EditHistoryDelete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): Claregrieve1, WikiWorks

Source: Table 2, supplemental table S1

Description: Microbiota alterations in colon cancer tumor samples compared with non cancer control mucosa at colonoscopy

Abundance in Group 1: increased abundance in colon cancer patients (tumor samples)

NCBI	Quality Control	Links
Methanobrevibacter
Peptostreptococcus
Selenomonas

Revision editor(s): Claregrieve1, WikiWorks

Experiment 3

Empty strings are not accepted.

EditHistoryDelete

Mark reviewed

Your review change was submittedDuplicate this ExperimentAdd a new Signature

Needs review

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, WikiWorks, ChiomaBlessing

Differences from previous experiment shown

Subjects

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 1 name Corresponds to the case (exposed) group for case-control studies

colon cancer patients (fecal samples)

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

21

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

14

Lab analysis

Statistical Analysis

Signature 1

EditHistoryDelete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Source: Supppemental table S2, text

Description: Microbiota alterations in colon cancer fecal samples compared with non cancer control fecal samples at colonoscopy

Abundance in Group 1: increased abundance in colon cancer patients (fecal samples)

NCBI	Quality Control	Links
Dorea
Peptostreptococcus

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Signature 2

EditHistoryDelete

Mark reviewed

Your review change was submitted

Needs review

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): Claregrieve1, WikiWorks

Source: Supppemental table S2

Description: Microbiota alterations in colon cancer fecal samples compared with non cancer control fecal samples at colonoscopy

Abundance in Group 1: decreased abundance in colon cancer patients (fecal samples)

NCBI	Quality Control	Links
Roseburia
Mycoplasmatota

Revision editor(s): Claregrieve1, WikiWorks