Extended Data Fig. 9: The sMDA amplified viromes are quantitative for dsDNA phages.
From: Expanding known viral diversity in the healthy infant gut
The relationship between experimentally determined PFU/g of faeces for 32 coliphages65, against mapped virome and metagenome reads per kilobase per million (RPKM), from the corresponding 32 samples. The two panels show data for temperate and virulent coliphages respectively. Axes were log-transformed to capture the dynamic range. A linear model was fit following log-transformation. Temperate coliphages show only a tendency of being associated presumably because read-mappings were shared between induced phage DNA and bacterial chromosomal DNA. For the virulent coliphages, however, the relationship was quantitative throughout the range of PFU counts (from 270 to 1.6 M). The sMDA amplified virome is no less quantitative than the unamplified metagenomes for the same samples. sMDA: short multiple-displacement amplification. Paired viromes/metagenomes from the same samples are connected using dashed lines. Regression lines are drawn using linear models, the shaded area represents the 95% confidence band for the regression line. P values correspond to Spearman’s rank correlation tests, are two-sided and were not adjusted for multiple comparisons.
