. 2020 Apr 6;10:5956. doi: 10.1038/s41598-020-62673-w

Table 1.

DWV quasispecies diversity and selection indices according to host developmental status.

Sample Type	Diversity	Selection Indices
	Nucleotide diversity (π)	Tajima’s D	Fu and Li’s D	Fu and Li’s F	Codon-Based Z Test of Selection (Nei-Gojobori)
	Nucleotide diversity (π)	Tajima’s D	Fu and Li’s D	Fu and Li’s F	Neutral	Positive	Negative
Pupae (N = 8)	0.011	−0.110	−0.240	−0.234	P = 0.111^ns	P = 1.00^ns	P = 0.058^ns
Adult bees (N = 13)	0.007	−0.815	−1.190	−1.247	P = 0.013^*	P = 1.00^ns	P = 0.006^*

Estimates of the nucleotide diversity and selection indices for the DWV quasispecies from the 24-hour serial inocula (pupae) and the 7-day (a)symptomatic adult transmission progeny (adult bees). Negative values of Tajima’s D⁸⁷ and Fu and Li’s D and F⁸⁸ selection indices signify an excess of low frequency polymorphisms, indicating expansion of the population size as well as negative (purifying) selection. P-values in the Codon-Based Z Test of Selection refer to the probability of rejecting the null hypothesis of strict-neutrality (equal indices of synonymous and non-synonymous substitutions) in favour of the alternative hypothesis (positive or negative selection). Values of P > 0.05 were considered non-significant (ns). The values were estimated from the sub-consensus sequences of the different quasispecies. Only characters with a Minor Allele Frequency (MAF) ≥ 0.02 were included in the sub-consensus sequences.