. 2024 May 16;17:225. doi: 10.1186/s13071-024-06306-5

Table 2.

Molecular diversity indices from the combined β-tubulin genotype dataset stratified by host and country

Molecular diversity indices
Group	Molecular diversity			Hardy-Weinberg equilibrium				Population-specific FIS indices (1023 permutations)
Group	Sample size	No. of haplotypes	Average gene diversity over loci	Locus	Obs. Het	Exp. Het	P-value	FIS	P(Rand FIS ≥ Obs FIS)
HBG	22	7	0.433	A	0.273	0.455	0.232	0.412	0.226
HBG	22	7	0.433	B	0.364	0.411	0.451	0.412	0.226
HET	58	7	0.305	A	0.069	0.131	0.105	0.477	0.111
HET	58	7	0.305	B	0.483	0.479	0.671	0.477	0.111
HTZ	184	22	0.626	A	0.250	0.526	< 0.001^a	0.526	< 0.001^a
HTZ	184	22	0.626	B	0.696	0.726	0.375	0.526	< 0.001^a
HUG	16	4	0.421	A	0.500	0.500	1	< 0.001^a	0.778
HUG	16	4	0.421	B	0.375	0.342	1	< 0.001^a	0.778
PBM	208	32	0.652	A	0.269	0.456	< 0.001^a	0.411	< 0.001^a
PBM	208	32	0.652	B	0.750	0.847	0.044^a	0.411	< 0.001^a
PDK	14	9	0.632	A	0.286	0.440	0.440	0.368	0.436
PDK	14	9	0.632	B	0.714	0.824	0.195	0.368	0.436
PHG	26	11	0.712	A	0.385	0.588	0.048^a	0.355	0.096^a
PHG	26	11	0.712	B	0.385	0.837	0.000^a	0.355	0.096^a
PPH	10	4	0.367	A	N/A	N/A	N/A	N/A	N/A
PPH	10	4	0.367	B	0.200	0.733	0.016^a	N/A	N/A
PTZ	16	6	0.571	A	0.500	0.500	1	< 0.001^a	0.789
PTZ	16	6	0.571	B	0.125	0.642	0.001^a	< 0.001^a	0.789
PUG	16	9	0.675	A	0.375	0.575	0.439	0.364	0.182
PUG	16	9	0.675	B	0.625	0.775	0.168	0.364	0.182
PUK	46	11	0.552	A	0.304	0.486	0.014^a	0.379	0.025^a
PUK	46	11	0.552	B	0.478	0.617	0.107	0.379	0.025^a
Farm A	32	6	0.353	A	0.063	0.179	0.032^a	0.659	0.029^a
Farm A	32	6	0.353	B	0.563	0.526	0.580	0.659	0.029^a
Farm B	36	3	0.282	A	0.889	0.508	0.002^a	-0.167	1
Farm B	36	3	0.282	B	0.056	0.056	1	-0.167	1
Farm C	34	11	0.528	A	0.412	0.355	1	0.252	0.163
Farm C	34	11	0.528	B	0.294	0.701	< 0.001^a	0.252	0.163
Farm D	28	9	0.566	A	0.286	0.378	0.316	-0.789	1
Farm D	28	9	0.566	B	0.357	0.754	0.001^a	-0.789	1

^aIndicates a p-value < 0.05. Abbreviations: Obs.Het. = observed heterozygosity, Exp.Het. = expected heterozygosity, H = humans, P = pig, BG = Bangladesh, BM = Belgium, DK = Denmark, ET = Ethiopia, GT = Guatemala, HG = Hungary, NP = Nepal, PH = Philippines, TZ = Tanzania, UG = Uganda, UK = United Kingdom. Farms A, B, C and D indicate the separate pig farms from the UK. Hardy-Weinberg equilibrium is calculated for each isotype over 1,000,000 Markov chain steps, and the p-value is based on the deviation between the observed and expected values. Population-specific inbreeding coefficient (F_IS) calculated over 1023 permutations is shown for each population with p-values of divergence between random F_IS vs observed F_IS