Biofilm Pathway Interactions in Resistome Diversity

We used LEfSe v1.0.0 to investigate potential interactions between the abundance of 66 predicted functional pathways^{76 (link)–80 (link)} involved in biofilm formation, in high- and low-resistome diversity groups, with a threshold of logarithmic LDA 2.0. We categorised samples according to their resistome diversity into the high and low Shannon score group. The cut off Shannon index scores were based on distribution, with a mean of 2.10 (below 2.10 = low diversity, above 2.10 = high diversity). Biofilm-related pathways were normalised on a per sample basis to sum to 1.0.

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Sukumar S., Wang F., Simpson C.A., Willet C.E., Chew T., Hughes T.E., Bockmann M.R., Sadsad R., Martin F.E., Lydecker H.W., Browne G.V., Davis K.M., Bui M., Martinez E, & Adler C.J. (2023). Development of the oral resistome during the first decade of life. Nature Communications, 14, 1291.

Publication 2023

Biofilm

Corresponding Organization : University of Sydney

Other organizations : University of California, Los Angeles, University of Adelaide, Westmead Institute, University of Melbourne, New South Wales Department of Health

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Variable analysis

independent variables

Resistome diversity (high vs. low)

dependent variables

Abundance of 66 predicted functional pathways involved in biofilm formation

control variables

Shannon index score threshold (below 2.10 = low diversity, above 2.10 = high diversity)

controls

No positive or negative controls were explicitly mentioned.

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