Microbial community alteration in tongue squamous cell carcinoma

Ye, Peng; Liu, Ye; Cai, Ye-Jun; Yang, Hong; Xu, Huji; Lu, Zhiyue

doi:10.1007/s00253-021-11593-4

Cited by 7 publications

(5 citation statements)

References 38 publications

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“…Based on the abundance table of each taxonomy hierarchy, the exhibition of the general relative abundance situation, exhibition of the abundance cluster heat map, and the decrease-dimension analysis of PCoA and NMDS were conducted. In addition, the ANOSIM ( 24 ) test of the differences between cases and control individuals based on functional abundance, the comparative analysis of metabolic pathways, and the MetaStat and LEfSe analyses of functional differences between two groups were conducted.…”

Section: Methodsmentioning

confidence: 99%

Metagenomic shotgun sequencing and metabolomic profiling identify specific human gut microbiota associated with diabetic retinopathy in patients with type 2 diabetes

Li¹,

Yang²,

Liu³

et al. 2022

Front. Immunol.

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BackgroundDiabetic retinopathy (DR) is a common microvascular complication of diabetes mellitus (DM) and is one of the leading causes of blindness among DM patients. However, the molecular mechanism involving DR remains unclear.MethodsA case–control study with age-, sex-, and duration-matched diabetic patients and controls was conducted, which included 15 type 2 DM (T2DM) patients with DR and 15 T2DM patients without DR. Shotgun sequencing and non-targeted metabolomic profiling analyses of fecal samples were performed, and comprehensive bioinformatics analyses were conducted.ResultsUsing metagenomic analyses, we identified 293,460 unique genes in the non-DR group, while that in the DR group was 283,235, and the number of overlapping genes was 1,237,914. Regarding phylum levels, Actinobacteria decreased but Bacteroidetes increased in the DR group when compared with those in the control group. Regarding genus levels, Bifidobacterium and Lactobacillus decreased. Cellular processes, environmental information processes, and metabolism-related pathways were found at higher levels in the gut microbiome of DR patients. Using metabolomic analyses, we found 116 differentially expressed metabolites with a positive ion model and 168 differentially expressed metabolites with a negative ion model between the two groups. Kyoto Encyclopedia of Genes and Genomes annotation revealed six pathways with different levels between DR and diabetic controls, namely, cellular processes, environmental information processing, genetic information processing, human diseases, organismal systems and metabolism. Moreover, lysine biosynthesis and lysine degradation were enriched using a positive model, but histidine metabolism and β-alanine metabolism were enriched using a negative model.ConclusionsTogether, the metagenomic profiles of DR patients indicated different gut microbiota compositions and characteristic fecal metabolic phenotypes in DR patients. Our findings of microbial pathways therefore provided potential etiological and therapeutic targets for DR patients.

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Section: Methodsmentioning

confidence: 99%

Metagenomic shotgun sequencing and metabolomic profiling identify specific human gut microbiota associated with diabetic retinopathy in patients with type 2 diabetes

Li¹,

Yang²,

Liu³

et al. 2022

Front. Immunol.

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“…To calculate standard deviation (SD), the relative abundance of bacteria genera of each sample and total number of samples were extracted from three studies [ 4 , 28 , 29 ]. P value was extracted for calculation of SD from ten studies [ 17 , 18 , 20 , 22 , 23 , 25 , 26 , [30] , [31] , [32] ].…”

Section: Methodsmentioning

confidence: 99%

Microbial dysbiosis in oral squamous cell carcinoma: A systematic review and meta-analysis

Yu¹,

Shi²,

Yuan³

et al. 2023

Heliyon

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“…In another aspect, the role of oral microbiota on OSCC/TSCC has been raised. Researchers have proposed the hypothesis that oral bacterial infections can promote OSCC/TSCC carcinogenic processes [ 18 , 19 ]. However, very little is currently known about the relationship between p16 status and the microbial taxa in TSCC.…”

Section: Introductionmentioning

confidence: 99%

“…However, very little is currently known about the relationship between p16 status and the microbial taxa in TSCC. In previous studies on the microorganism of OSCC, including TSCC, the vast majority of survey data were detected from oral saliva [ 20 – 22 ] or fresh tissue samples [ 19 ]. However, compared with these traditional clinical microbial collection methods, pathological formalin-fixed paraffin-embedded (FFPE) tissue samples have the advantages of long-term storage at room temperature and retrospective analysis at any time.…”

Section: Introductionmentioning

confidence: 99%

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Using formalin fixed paraffin embedded tissue to characterize the microbiota in p16-positive and p16-negative tongue squamous cell carcinoma: a pilot study

Yuanbo,

Tianyi,

Xuejing

et al. 2024

BMC Oral Health

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Background Tongue squamous cell carcinoma (TSCC) is the most common oral cavity cancer, and p16 immunohistochemistry is an exact and available tool in the prognostic and predictive characterization of squamous cell cancers in the head and neck. Microorganisms have a close relationship with the development of TSCC. However, the association between oral bacteria and p16 status has not been well defined in the case of TSCC. Compared with traditional clinical microbial collection methods, formalin-fixed paraffin-embedded (FFPE) tissue samples have several advantages. Methods To compare the microbiota compositions between p16-positive and p16-negative patients with TSCC, we performed a small pilot study of microbiological studies of TSCC by paraffin tissue. DNA from FFPE tissue blocks were extracted and microbiomes were profiled by sequencing the 16 S-rRNA-encoding gene (V1–V2/V3-V4/V4 regions). Alterations in the functional potential of the microbiome were predicted using PICRUSt, Tax4Fun, and BugBase. Results A total of 60 patients with TSCC were enrolled in the study, however, some challenges associated with DNA damage in FFPE tissues existed, and only 27 (15 p16-positive and 12 p16-negative) passed DNA quality control. Nevertheless, we have tentatively found some meaningful results. The p16 status is associated with microbiota diversity, which is significantly increased in p16-positive patients compared with p16-negative patients. Desulfobacteria, Limnochordia, Phycisphaerae, Anaerolineae, Saccharimonadia and Kapabacteria had higher abundances among participants with p16-positive. Moreover, functional prediction revealed that the increase of these bacteria may enhance viral carcinogenesis in p16-positive TSCC. Conclusions Bacterial profiles showed a significant difference between p16-positive TSCC and p16-negative TSCC. These findings may provide insights into the relationship between p16 status and the microbial taxa in TSCC, and these bacteria may provide new clues for developing therapeutic targets for TSCC.

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Microbial community alteration in tongue squamous cell carcinoma

Cited by 7 publications

References 38 publications

Metagenomic shotgun sequencing and metabolomic profiling identify specific human gut microbiota associated with diabetic retinopathy in patients with type 2 diabetes

Metagenomic shotgun sequencing and metabolomic profiling identify specific human gut microbiota associated with diabetic retinopathy in patients with type 2 diabetes

Microbial dysbiosis in oral squamous cell carcinoma: A systematic review and meta-analysis

Using formalin fixed paraffin embedded tissue to characterize the microbiota in p16-positive and p16-negative tongue squamous cell carcinoma: a pilot study

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