The impact of time and field conditions on brown bear (Ursus arctos) faecal DNA amplification

Conservation Genetics

Volumn 8, Issue 5, 2007, Pages 1219-1224

  Murphy, Melanie A ^a,b   Kendall, Katherine C ^c   Robinson, Andrew ^a,d   Waits, Lisette P ^a  

^a UNIVERSITY OF IDAHO   (United States)

^b WASHINGTON STATE UNIVERSITY   (United States)

^c U S GEOLOGICAL SURVEY   (United States)

^d UNIVERSITY OF MELBOURNE   (Australia)

Author keywords

DNA preservation; Faecal DNA; Noninvasive genetic sampling; Ursus arctos

Indexed keywords

BEAR; CAPTIVE BREEDING; GENOTYPE; MITOCHONDRIAL DNA; POLYMERASE CHAIN REACTION; SAMPLING;

IDAHO; MOSCOW MOUNTAIN; NORTH AMERICA; UNITED STATES;

URSUS ARCTOS;

EID: 34547403609     PISSN: 15660621     EISSN: 15729737     Source Type: Journal    
DOI: 10.1007/s10592-006-9264-0     Document Type: Article

References (25)

1. Bellemain E, Swenson JE, Tallmon D, Brunberg S et al (2005) Estimating population size from hunter-collected feces: four methods for brown bears. Conserv Biol 19:150-161
2. Bellemain E, Taberlet P (2004) Improved non-invasive genotyping method: application to brown bear (Ursus arctos) faeces. Mol Ecol Notes 4:519-522
3. Dallas JF, Carss DN, Marshall F, Koepfli K-P et al (2000) Sex identification of the Eurasian otter Lutra lutra by PCR typing of spraints. Conserv Gen 1:181-183
4. Farrell LE, Roman J, Sunquist ME (2000) Dietary separation of sympatric carnivores identified by molecular analysis of scats. Mol Ecol 9:1583-1590
5. Fernando PJ, Pfrender ME, Encalada SE, Lande R (2000) Mitochondrial DNA variation, phylogeography and population structure of the Asian elephant. Heredity 84: 362-372
6. Flagstad Ø, Roed K, Stacy JE, Jakobsen KS (1999) Reliable noninvasive genotyping based on excremental PCR of nuclear DNA purified with a magnetic bead protocol. Mol Ecol 8:879-883
7. Frantz AC, Pope LC, Carpenter PJ, Roper TJ et al (2003) Reliable microsatellite genotyping of the Eurasian badger (Meles meles) using faecal DNA. Mol Ecol 12:1649-1661
8. Goossens B, Chikhi L, Utami SS, Ruiter Jd et al (2000) A multi-samples, multi-extracts approach for microsatellite analysis of faecal samples in an arboreal ape. Conserv Gen 1:157-162
9. Lucchini V, Fabbri E, Marucco F, Ricci S et al (2002) Noninvasive molecular tracking of colonizing wolf (Canis lupus) packs in the western Italian Alps. Mol Ecol 11:857-868
10. Maudet C, Luikart G, Dubray D, Von Hardenberg A, Taberlet P (2004) Low genotyping error rates in ungulate feces sampled in winter. Mol Ecol Notes 4:772-775
11. Miller C, Joyce P, Waits L (2002) Assessing allelic dropout and genotype reliability using maximum likelihood. Genetics 160:357-366
12. Murphy MA, Waits LP, Kendall KC (2000) Quantitative evaluation of fecal drying methods for brown bear DNA analysis. Wildl Soc Bull 28:951-957
13. Murphy MA, Waits LP, Kendall KC (2003) The influence of diet on faecal DNA amplification and sex identification in brown bears (Ursus arctos). Mol Ecol 12:2261-2265
14. Murphy MA, Waits LP, Kendall KC, Wasser SK et al (2002) An evaluation of long-term preservation methods for brown bear (Ursus arctos) faecal DNA samples. Conserv Gen 3:435-440
15. Nsubuga AM, Robbins MM, Roeder AD, Morin PA et al (2004) Factors affecting the amount of genomic DNA extracted form ape faeces and the identification of an improved sample storage method. Mol Ecol 13:2089-2094
16. Paetkau D, Calvert A, Stirling J, Strobeck C (1995) Microsatellite analysis of population structure in Canadian polar bears. Mol Ecol 4:347-354
17. Piggott MP (2004) Effect of sample age and season of collection on the reliability of microsatellite genotyping of faecal DNA. Wildl Res 31:485-493
18. Piggott MP, Bellemain E, Taberlet P, Taylor AC (2004) A multiplex pre-amplification method that significantly improves microsatellite amplification and error rates for faecal DNA in limiting conditions. Conserv Gen 5:417-420
19. Piggott MP, Taylor AC (2003) Extensive evaluation of faecal preservation and DNA extraction methods in Australian native and introduced species. Aust J Zool 51:341-355
20. Reed Z, Tollit DJ, Thompson PM, Amos W (1997) Molecular scatology: the use of molecular genetic analysis to assign species, sex and individual identity to seal faeces. Mol Ecol 6:225-234
21. SAS Institute Inc. (1999) SAS/STAT User's Guide, Version 8, SAS Institute Inc, Cary, NC
22. Taberlet P, Griffin S, Goossens B, Questiau S, et al (1996) Reliable genotyping of samples with very low DNA quantities using PCR. Nucleic Acids Res 24:3189-3194
23. Taberlet P, Waits LP, Luikart G (1999) Noninvasive genetic sampling: look before you leap. Trends Ecol Evol 14:323-327
24. Wasser SK, Houston CS, Koehiler GM, Cadd GG et al (1997) Techniques for applications of faecal DNA methods to field studies of Ursids. Mol Ecol 6:1091-1097
25. Wehausen JD, Ramey RR II, Epps CW (2004) Experiments in DNA extraction and PCR amplification from Bighorn Sheep feces: the importance of DNA extraction method. J Heredity 95:503-509