Published January 25, 2023
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Table A 2 in A consolidated phylogeny of snail-eating snakes (Serpentes, Dipsadini), with the description of five new species from Colombia, Ecuador, and Panama
Authors/Creators
- 1. Biodiversity Field Lab (BioFL), Khamai Foundation, Quito, Ecuador & Tropical Herping S. A., Quito, Ecuador
- 2. Universidad Autonoma de Chiriqui (UNACHI), Vicerrectoria de investigacion y Postgrado, David, Chiriqui, Panama & Museo Herpetologico de Chiriqui (MHCH), David, Chiriqui, Panama & Fundacion Los Naturalistas, Boquete, Chiriqui, Panama & Sistema Nacional de Investigacion (SNI), SENACYT, Panama
Description
Table A2. List of PCR and sequencing primers and their respective PCR conditions (denaturation, annealing, extension and number of corresponding cycles) used in this study. All PCR protocols included an initial 3-min step at 94 °C and a final extension of 10 min at 72 °C.
| Locus | Primer | Sequence (5 ’-3’) | Reference | PCR profile: |
|---|---|---|---|---|
| 12S | H1557mod | GTACRCTTACCWTGTTACGACTT | Zaher et al. 2009 | 93 °C (1 min), 54 °C (1 min), 72 °C (2-5 min) [x25-40] |
| L1091mod | CAAACTAGGATTAGATACCCTACTAT | |||
| 16S | 16Sar-L | CGCCTGTTTATCAAAAACAT | Palumbi et al. (1991) | 94 °C (45 sec), 53 °C (45 sec), 72 °C (1 min) [x30] |
| 16Sbr-H-R | CCGGTCTGAACTCAGATCACGT | |||
| COI | RepCOI-F | TNTTMTCAACNAACCACAAAGA | Murphy et al. (2013) | 94 °C (3 min), 48.5 °C (30 sec), 72 °C (1 min) [x40] |
| RepCOI-R | ACTTCTGGRTGKCCAAARAATCA | |||
| Cytb | L14910 | GACCTGTGATMTGAAAACCAYCGTTGT | Burbrink et al. (2000) | 94 °C (1 min), 58 °C (1 min), 72 °C (2 min) [x30-36] |
| H16064 | CTTTGGTTTACAAGAACAATGCTTTA | |||
| ND4 | ND4 | CACCTATGACTACCAAAAGCTCATGTAGAAGC | Arévalo et al. (1994) | 94 °C (25 sec), 56 or 60 °C (1 min), 72 °C (2 min) [x25-30] |
| Leu | CATTACTTTTACTTGGATTTGCACCA |
Notes
Published as part of Arteaga, Alejandro & Batista, Abel, 2023, A consolidated phylogeny of snail-eating snakes (Serpentes, Dipsadini), with the description of five new species from Colombia, Ecuador, and Panama, pp. 1 in ZooKeys 1143 on page 1, DOI: 10.3897/zookeys.1143.93601
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References
- Zaher, H, Grazziotin, FG, Cadle, JE, Murphy, RW, Moura-Leite, JC, Bonatto, SL, 2009. Molecular phylogeny of advanced snakes (Serpentes, Caenophidia) with an emphasis on South American xenodontines: A revised classification and descriptions of new taxa. Papeis Avulsos de Zoologia 49 (11): 115 - 153, DOI: https://doi.org/10.1590/S0031-10492009001100001
- Palumbi, SR, Martin, A, Romano, S, McMillan, WO, Stice, L, Grabowski, G, 1991. The Simple Fool's Guide to PCR, version 2.0. University of Hawaii, Honolulu
- Murphy, RW, Crawford, AJ, Bauer, AM, Che, J, Donnellan, SC, Fritz, U, Haddad, CFB, Nagy, ZT, Poyarkov, NA, Vences, M, Wang, W, Zhang, Y, 2013. Cold Code: The global initiative to DNA barcode amphibians and non-avian reptiles. Molecular Ecology Resources 13 (2): 161 - 167, DOI: https://doi.org/10.1111/1755-0998.12050
- Burbrink, FT, Lawson, R, Slowinski, JB, 2000. Mitochondrial DNA phylogeography of the polytypic North American rat snake (Elaphe obsoleta): A critique of the subspecies concept. Evolution; International Journal of Organic Evolution 54: 2107 - 2188, DOI: https://doi.org/10.1111/j.0014-3820.2000.tb01253.x
- Arevalo, E, Davis, SK, Sites, JW, 1994. Mitochondrial DNA-sequence divergence and phylogenetic relationships among eight chromosome races of the Sceloporus grammicus complex (Phrynosomatidae) in Central Mexico. Systematic Biology 43 (3): 387 - 418, DOI: https://doi.org/10.1093/sysbio/43.3.387