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Fig. 3 | BMC Microbiology

Fig. 3

From: Technical challenges regarding the use of formalin-fixed paraffin embedded (FFPE) tissue specimens for the detection of bacterial alterations in colorectal cancer

Fig. 3

Targeted 16S rRNA gene amplification and sequencing approach for tissue, paraffin and DNA extraction negatives. The 16S rRNA amplicon sequencing results of formalin-fixed paraffin embedded (FFPE) tissue (n = 41), empty paraffin controls (n = 6) and DNA extraction controls (n = 6) at genus level using a non-nested polymerase chain reaction (PCR) approach. a Dot plots show the bacterial biodiversity measured by Shannon and Chao1 diversity indices. b Principal Coordinates Analysis (PCoA) plots illustrate the bacterial composition of tissue, paraffin and DNA extraction controls using weighted UniFrac and Bray-Curtis dissimilarity. c Heat map of the relative abundance of genera across samples. Tissue specimens consist of tumor (n = 14), normal adjacent tissue (n = 14) and healthy colonic tissue (n = 13). The red box indicates genera present in DNA extraction negatives and other samples. Abbreviations for level of significance: n.s. not significant; #, P < 0.1; **, P < 0.01

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BMC Microbiology

ISSN: 1471-2180

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