Table 1. Genetic diversity of six geographic regions, considering both cave and surface populations from old and new lineages.

Lineage	Geographic region	N	h	Hd	S	π	k	Theta /site	D	R 2
N: Sample size; h: Number of haplotypes; Hd: Gene diversity; S: Number of polymorphic sites; π: Nucleotide diversity; k: Average pairwise nucleotide differences; D: Fu and Li’s D; R2: Ramos-Onsins and Rozas. –: Not estimated due to the lack of variation (i.e., Micos), or because D and R2 were not evaluated for the rho fragment.
COI
Old lineage cave	Sierra del Abra	80	11	0.61	21	0.0095	5.95	0.007	1.74895	0.141742
New lineage cave	Sierra de Guatemala	36	5	0.60	4	0.0014	0.79	0.002	1.05441	0.10226
	Micos	7	1	–	–	–	–	–	–	–
New lineage surface	BCSF	41	12	0.86	29	0.0053	3.43	6.778	–3.5354*	0.109696
	Pánuco Basin	28	12	0.87	18	0.00653	4.24	4.626	–1.7265	0.104854
Old lineage surface	Rascón+Peroles	35	8	0.79	43	0.0178	11.48	10.441	1.3577	0.131801
cyt b
Old lineage cave	Sierra del Abra	80	8	0.66	18	0.0142	5.49	3.634	1.21952	0.151945
New lineage cave	Sierra de Guatemala	36	2	0.51	1	0.0012	0.51	0.001	0.57434	0.256349
	Micos	7	1	–	–	–	–	–	–	–
New lineage surface	BCSF	41	5	0.51	20	0.0060	2.29	0.012	–2.505*	0.101897
	Pánuco Basin	28	7	0.39	16	0.0065	2.61	4.112	0.0964	0.07573
Old lineage surface	Rascón+Peroles	35	10	0.76	35	0.0225	9.21	8.499	1.2448	0.129959
rho
Old lineage cave	Sierra del Abra	68	7	0.406	5	0.00097	–	–	–	–
New lineage cave	Sierra de Guatemala	36	4	0.211	5	0.00042	–	–	–	-
	Micos	3	1	–	–	–	–	–	–	–
New lineage surface	BCSF	107	7	0.461	8	0.00118	–	–	–	–
	Pánuco Basin	–	–	–	–	–	–	–	–	–
Old lineage surface	Rascón+Peroles	52	4	0.619	3	0.00093	–	–	–	–