Characteristics of fecal gut microbiota in patients with colorectal cancer at different stages and different sites

Study information

Reviewed Marked as Reviewed by Rimsha on 2022/03/9

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

31611994

DOI Digital object identifier for electronic documents.

10.3892/ol.2019.10841

URI

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6781660/

Authors

Sheng Q, Du H, Cheng X, Cheng X, Tang Y, Pan L, Wang Q, Lin J

Journal

Oncology letters

Year

2019

Keywords:

16S rRNA sequencing, bioinformatics analysis, colorectal cancer, gut microbiota

Numerous studies have revealed that the gut microbiota serves an important role in the pathogenesis of colorectal cancer (CRC). The present study aimed to investigate the populations present in the gut microbiota in patients with CRC of different stages and at different sites. Fecal samples were obtained from 67 CRC patients and 30 healthy controls, which were analyzed by sequencing the V3-V4 region of the 16S rRNA gene. Increased diversity of the fecal gut microbiota in patients with CRC was reported compared with the healthy controls. In the present study, at the genus level, the relative abundances of Prevotella, Collinsella and Peptostreptococcus in the gut microbiota of CRC patients were substantially increased compared with healthy controls, while the relative abundance of Escherichia-Shigella was significantly lower. In addition, differences in the fecal gut microbiota were also compared between patients with stage I-IV CRC and healthy controls. The results revealed that the abundances of the genera Peptostreptococcus, Collinsella and Ruminococcus were significantly increased in patients with CRC stage I compared with the healthy controls, while Alistipes was enriched in patients with stage III CRC compared with patients with stage IV. Furthermore, the present study reported that the genera Veillonella and Coprobacter were more abundant in the proximal segments than in the distal segments of the colon. In conclusion, despite the low number of samples employed in the present study, a signature of genera indicating dysbiosis of the gut microbiota of patients with stage I-IV CRC patients was proposed, which may provide insight into the mechanisms underlying the progression of CRC. These findings are also valuable for developing novel fecal diagnostic methods and therapeutic strategies for the treatment of CRC.

Experiment 1

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Curated date: 2022/02/17

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Subjects

Location of subjects: China

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: Colorectal carcinoma

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

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

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: The CRC patients were selected according to the criteria of no other health complications, no family history of CRC or recurrence of CRC, and no radiotherapy and chemotherapy prior to surgical resection. Patients were then classified according to postoperative clinical data using the tumor-node-metastasis (TNM) staging system for malignant tumors.

Group 0 sample size Number of subjects in the control (unexposed) group: 30

Group 1 sample size Number of subjects in the case (exposed) group: 67

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 3 months

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

Statistical test: Kruskall-Wallis; 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)?: No

Matched on Factors on which subjects have been matched on in a case-control study: age, sex

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness: 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

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Reviewed Marked as Reviewed by Rimsha on 2022/03/9

Curated date: 2022/02/21

Curator: Itslanapark

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Source: Figure 5

Description: Comparison of relative abundance of genera in fecal samples of patients with CRC and healthy controls.

Abundance in Group 1: increased abundance in CRC

NCBI	Quality Control	Links
Prevotella
Collinsella
Odoribacter
Peptostreptococcus
Lachnoanaerobaculum

Revision editor(s): Itslanapark, WikiWorks

Signature 2

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Your review change was submitted

Reviewed Marked as Reviewed by Rimsha on 2022/03/9

Curated date: 2022/02/21

Curator: Itslanapark

Revision editor(s): Itslanapark, WikiWorks

Source: Figure 5

Description: Comparison of relative abundance of genera in fecal samples of patients with CRC and healthy controls.

Abundance in Group 1: decreased abundance in CRC

NCBI	Quality Control	Links
Cronobacter
Escherichia/Shigella sp.
Sporobacter

Revision editor(s): Itslanapark, WikiWorks