Appendix I. Information about samples of R. megalotis in this study. Map codes (corresponding to numbers in figures1 and 3), collecting locality (latitude, longitude, and altitude either directly measured or estimated), sample size (N), Haplotype labels (corresponding tothose in figure 3), specimen identification numbers (Museum voucher or tissue number), GenBank Accession numbers, number of analyzed base pairs, and phylogeny code (corresponding branch labels in figures2 and 4). Geographic abbreviations are as follows: MX = Mexico; USA = United States of America. Museum abbreviations are as follows: BYU = Brigham Young University; CIBNOR = Centro de Investigaciones Biológicas del Noroeste; CRD = Centro Interdisciplinario de Investigación para el Desarrollo Integral Regional Unidad Durango; CMC = Colección de Mamíferos del CIByC; MSB = Museum of Southwestern Biology; MVZ = Museum of Vertebrate Zoology; TTU= Texas Tech University.

Map code / Collecting locality / N / H / Voucher/Tissue number / GenBank Accession / Base pairs / Phylogeny code
1 / MX: Baja California, Ensenada, mouth Arroyo Martínez, 22 mi NE Ensenada (32°5ʹ41.37ʺ N, 116°32ʹ54.80ʺ W), 357 m / 2 / H24-25 / MVZ-148134, 1560‡ / KR611933, KR611927‡ / 1143 / Ensenada1, 3
2 / MX: Baja California, Ensenada, Rancho Sangre de Cristo 31.33 mi E Ensenada (31°51ʹ0.00ʺ N, 116°7ʹ0.00ʺ W), 850 m / 1 / H25 / MVZ-148135‡ / KR611934‡ / 1143 / Ensenada2
3 / USA: California, Contra Costa Co., 300-400 m Big Springs picnic area on Arroyo trail, Tilden Regional Park, Berkeley (37°53ʹ22.24ʺ N, 122°14ʹ0.25ʺ W), 392 m / 1 / H33 / MVZ-206953‡ / KR611945‡ / 1143 / ContraC1
4 / USA: California, Humboldt Co., Dry Lagoon, State Park, 3.5 mi S, 2.75 mi W Orick (41°12ʹ36.50ʺ N, 124°6ʹ45.41ʺ W), 4 m / 1 / H26 / MVZ-148518‡ / KR611936‡ / 850 / Humboldt2
5 / USA: California, Marin Co., Coast Trail 2.0 km S Youth hostel 7.2 km WSW Olema (38°1ʹ48.36ʺ N, 122°52ʹ17.39ʺ W), 49 m / 1 / H18 / MVZ-196033‡ / KR611940‡ / 801 / Marin3
6 / USA: California, Mariposa Co., Happy Isles Fen, Yosemite Valley (37°43ʹ57.61ʺ N, 119°33ʹ29.05ʺ W), 1230 m / 1 / H31 / MVZ-202369‡ / KR611943‡ / 801 / Mariposa4
7 / USA: California, Mariposa Co., Tenaya Creek, above Mirror Lake, Yosemite Valley (37°45ʹ10.30ʺ N, 119°32ʹ39.30ʺ W), 1255 m / 1 / H32 / MVZ-202370‡ / KR611944‡ / 801 / Mariposa5
8 / USA: California, Mendocino Co., 4.5 mi W, 2.5 mi S Leggett (39°49ʹ44.40ʺ N, 123°47ʹ55.00ʺ W), 92 m / 1 / H18 / MVZ-148516‡ / KR611935‡ / 1143 / Mendocino6
9 / USA: California, Mendocino Co., Hopland Field Station, Foster Biological area (38°59ʹ49.18ʺ N, 123°5ʹ24.84ʺ W), 306 m / 1 / H29 / MVZ-156565‡ / KR611939‡ / 1143 / Mendocino7
10 / USA: California, Monterrey Co., School Hill, Hastings Natural History Reservation (36°23ʹ10.68ʺ N, 121°33ʹ13.32ʺ W), 530 m / 1 / H18 / MVZ-198793‡ / KR611941‡ / 801 / Monterey8
11 / USA: California, SiskiyouCo., Klamath River (41°51ʹ40.49ʺ N, 122°49ʹ32.10ʺ W),
531 m / 1 / H27 / MVZ-148519‡ / KR611937‡ / 1143 / Siskiyou9
12 / USA: California, SiskiyouCo., Bass Lake, Shasta Valley Wildlife Area (41°42ʹ3.28ʺ N, 122°29ʹ21.48ʺ W), 788 m / 1 / H30 / MVZ-199491‡ / KR611942‡ / 850 / Siskiyou10
13 / MX: Coahuila, Los Lirios (25°24ʹ13.07ʺ N, 100°37ʹ32.16ʺ W), 2248 m / 1 / H36 / CIBNOR-16715* / KP788746* / 1143 / Lirios1
14 / MX: Chihuahua, Rancho Primero, Hidalgo del Parral (26°55ʹ33.92ʺ N, 105°45ʹ3.53ʺ W), 1820 m / 1 / H36 / CIBNOR-14805* / KP788747* / 1143 / HidalgoP1
15 / MX: Distrito Federal, Desierto de Los Leones, road Cruz Blanca a Cerro San Miguel (19°20ʹ8.18ʺ N, 99°15ʹ5.31ʺ W), 2100 m. / 3 / H1,
H7 / BYU-15593*,15595*, 15594‡ / KP788730*, KP788731*,
KR611932‡ / 1143 / DL1-3
16 / MX: Distrito Federal, Parres, 3 km S of Parres (19°6ʹ36.56ʺ N, 99°10ʹ55.36ʺ W), 2980 m. / 2 / H4,
H15 / N/A / EF990008,
EF990009 / 1056 / Parres1, 2
17 / MX: Durango, Vicente Guerrero, 5.8 Km N, 2.1 Km E Vicente Guerrero (23°43ʹ51.96ʺ N, 103°58ʹ57.90ʺ W), 1937 m / 1 / H36 / BYU-15953‡ / KR611928‡ / 1143 / VGD1
18 / MX: Estado de México, Texcoco, Zona Federal Lago de Texcoco (19°29ʹ51.02ʺ N, 98°57ʹ25.86ʺ W), 2194 m. / 11 / H1-6 / BYU-15582,
15584-15592*, 15583‡ / KP788717-KP788726*,
KR611931‡ / 1143 / Texcoco1-11
19 / MX: Estado de México, Zinacantepec, Parque Los Venados (19°07ʹ49.4ʺN, 99°47ʹ21.3ʺ W), 3735 m. / 2 / H1 / CMC-3563*, 3566* / KP788727-KP788728* / 1143 / Zinacantepec1, 2
20 / MX: Estado de México, Zinacantepec, 10.3 km road Toluca -Sultepec (19°08ʹ11.7ʺN, 99°48ʹ31.0ʺ W), 3536 m. / 1 / H1 / CMC-3568* / KP788729* / 1143 / Zinacantepec3
21 / MX: Morelos, Tepoztlán (19°1ʹ48.00ʺ N, 99°8ʹ24.00ʺ W), 2574 m. / 2 / H6,
H16 / N/A / AB618724 AB618725 / 996, 1113 / Morelos1, 2
22 / MX: Oaxaca, Llano de las Flores (17°6ʹ26.36ʺ N, 96°42ʹ18.89ʺ W),
1688 m / 1 / H14 / TTU-TK23486‡ / KR611930‡ / 1143 / LlanoF1
23 / USA: Oregon, Josephine Co., 4 mi S Selma (42°13ʹ16.32ʺ N, 123°36ʹ52.92ʺ W), 887 m / 1 / H28 / MVZ-148521‡ / KR611938‡ / 1143 / Josphine1
24 / MX: Puebla, Alhuaca, 8 Km NE Vicente Guerrero (18°34ʹ13.86ʺ N, 97°9ʹ57.90ʺ W), 2680 m. / 4 / H6,
H9-10 / CMC-1983-1986* / KP788734-KP788737* / 1143 / VGP1-4
25 / MX: Puebla, Rancho 22 de Marzo Km 75.8 road Ahuazotepec-Zacatlán (19°55ʹ45.12ʺ N, 97°59ʹ20.52ʺ W), 2270 m. / 2 / H1,
H8 / CMC-1995-1996* / KP788732-KP788733* / 1143 / Zacatlán1, 2
26 / MX: Puebla, 2 mi NE (by road) of Texmalaquilla (18°58ʹ24.85ʺ N, 97°17ʹ15.79ʺ W), 3600 m. / 1 / H6 / CRD-9384* / KP788738* / 1143 / TexP1
27 / MX: Puebla, 4.7 km NE Teziutlán (19°50ʹ25.84ʺ N, 97°21ʹ15.41ʺ W), 1750 m. / 1 / H9 / CMC-1072 / HQ269732 / 1143 / Teziutlán1
28 / MX: San Luis Potosí, 1 km W Villa de Arriaga (21°55ʹ10.52ʺ N, 101°23ʹ18.02ʺ W), 2178 m / 4 / H36,
H40-42 / CIBNOR-16711-16714* / KP788748-KP788751* / 1143 / VillaA1-4
29 / MX: San Luis Potosí, Rancho La Laja, 6 km W Xilitla (21°23ʹ40.63ʺ N, 98°59ʹ33.07ʺ W), 563 m / 1 / H17 / N/A / HQ269731 / 1143 / Xilitla1
30 / USA: Texas, Lubbock Co., Lubbock Lake Landmark State Historical Park (33°36ʹ30.65ʺ N, 101°51ʹ35.53ʺ W), 975 m / 1 / H35 / TTU-TK22460 / AF176248 / 1143 / Lubbock2
31 / USA: Texas, Castro Co., 5.5 mi S, 2.5 mi W Dimmitt (34°29ʹ15.65ʺ N, 102°21ʹ16.53ʺ W), 1167 m / 1 / H34 / TTU-34902 / AF176249 / 1143 / CastroC1
32 / USA: Utah, Juab Co., 6 km N Callao (39°53ʹ51.78ʺ N, 113°42ʹ30.97ʺ W), 1320 m / 5 / H18-19,
H21-23 / BYU-24615-24618, 24620* / KP788755-KP788759* / 1143 / Juab1-5
33 / USA: Utah, Tooele Co., Dunes 4 km SW Simpson Buttes, 600 m S of Dugway Proving Grounds Boundary (40°3ʹ53.95ʺ N, 112°52ʹ4.27ʺ W), 1360 m / 3 / H18-20 / BYU-24624-24626* / KP788752-KP788754* / 1143 / Tooele1-3
34 / MX: Veracruz, Xico, Cruz Blanca (19°28ʹ16.32ʺ N, 97°0ʹ0.24ʺ W),
2180 m / 1 / H11 / CMC-1445* / KP788739* / 1143 / Xico1
35 / MX: Veracruz, Acultzingo, 3.5 Km (by road) Puerto del Aire (18°40ʹ17.64ʺ N, 97°19ʹ54.72ʺ W), 2524 m / 2 / H12-13 / CMC-881-882* / KP788740-KP788741* / 1143 / Acultzingo1, 2
36 / MX: Zacatecas, 7 km N Plateros (23°17ʹ23.60ʺ N, 102°50ʹ51.11ʺ W), 2176 m / 1 / H36 / CIBNOR-16705* / KP788742* / 1143 / Plateros1
MX: Zacatecas, 8.5 km N Plateros (23°17ʹ55.86ʺ N, 102°50ʹ17.52ʺ W), 2098 m / 3 / H36-38 / CIBNOR-16706-16708* / KP788743-KP788745* / 1143 / Plateros2-4
37 / MX: Zacatecas, 11.5 mi W (by road) Sombrerete, San Juan de Alamo (23°44ʹ30.98ʺ N, 103°46ʹ10.99ʺ W), 2377 m / 1 / H39 / MSB-34495‡ / KR611929‡ / 1143 / Sombrerete1

N/A = Information not available. * = DNA sequences generated in this study; ‡ = donated DNA sequences.