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Table 3 Functional metabolic genes and pathways affected per storage condition as compared to fresh samples

From: Sample storage conditions induce post-collection biases in microbiome profiles

Condition Genesa Pathwaysb
Number % Number % Greatest change Log2FC p value
Fresh 5110 100 276 100 NA NA NA
EDTA 978 19.1 27 9.8 Toluene degradation + 3.9 < 0.0003
Lysis 689 13.5 40 14.5 Toluene degradation + 4.5 < 0.0006
RT 1050 20.5 40 14.5 Lysine degradation −2.1 < 0.003
4 °C 3533 69.1 198 71.7 Apoptosis + 3.2 < 0.00001
−20 °C 2637 51.6 183 66.3 Alzheimer Disease −1.9 < 0.0006
−80 °C 1088 21.3 50 18.1 Beta-lactam resistance −2.0 < 0.005
HY 3317 64.9 176 63.8 Fatty acid biosynthesis + 5.3 < 0.0003
Pathways not affected 22 8.0 NA NA NA
Affected by all conditions 0 0 none NA NA
Pathway affected by 6 out of 7 conditions (excludes EDTA) 1 0.4 Tyrosine metabolism varies varies
  1. a5110 genes and b276 pathways were annotated. NA = Not Applicable