Impacts of sampling location within a faeces on DNA quality in two carnivore species

Stenglein, Jennifer L.; Barba, Marta De; Ausband, David E.; Waits, Lisette P.

doi:10.1111/j.1755-0998.2009.02670.x

Cited by 76 publications

(88 citation statements)

References 59 publications

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“…Previous studies have demonstrated that the specific part of the faeces collected may affect the DNA quality and the amplification success (Rutledge et al, 2008;Gobush et al, 2009;Stenglein et al, 2010;Vynne et al, 2011;Wasser et al, 2011). This is because DNA from faeces is obtained from sloughed epithelial cells of the intestinal lining of the focal species (Albaugh et al, 1992).…”

Section: Discussionmentioning

confidence: 99%

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Evaluating preservation medium for the storage of DNA in African lion Panthera leo faecal samples

Tende

Hansson

Ottosson³

et al. 2014

Current Zoology

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Lion faecal samples, collected in the field between 1 hour to 1 week after defecation were preserved in three different media (ethanol, ASL buffer and Two-step storage). The aim was to determine which faecal DNA field preservation method best enhances PCR amplification success. Samples stored in ethanol showed a significantly higher amplification success of microsatellite loci than samples stored in the other two media. In contrast, amplification success of a mitochondrial locus was similar among the samples stored in the three types of media. We reviewed twelve previous studies that employed different media for the storage of faeces, although patterns of success were not fully consistent among different media, ethanol storage was scored highest in the majority of these tests [Current Zoology 60 (3): 351-358, 2014].Keywords Amplification success, Faecal sample DNA, Lion Panthera leo, PCR, Preservation medium For small and elusive wildlife populations, noninvasive DNA sampling from faecal samples is a feasible method for obtaining genetic data (Kohn and Wayne, 1997). Several studies have employed this method to estimate and monitor wildlife (Kohn et al., 1999;Ernest et al., 2000;Banks et al., 2002, Flagstad et al., 2004, Bensch et al., 2006Perez et al., 2006;Zhang et al., 2009). For elusive carnivores such as lions Panthera leo non-invasive sampling is especially suitable because faecal samples are easily encountered and recovered along trails where they defecate to mark territory boundaries (Macdonald, 1980). However, studies that employ non-invasive sampling are confronted with pitfalls such as low quantity and quality DNA which can result in low genotyping success and frequent genotyping errors (Taberlet et al., 1997).The amount and quality of DNA initially present in faeces samples at the time of collection may change during the period of storage and will determine the amount and quality of DNA that can be extracted and used in downstream analyses. It is therefore important to transfer samples into a storage condition that best preserves the DNA prior to the laboratory analysis. The choice of a good preservation medium should be of prime importance for every genetic study, especially when collected samples cannot be processed immediately at the collection site. The identification of effective preservation methods can enhance PCR amplification success rate, increase genotyping accuracy and increase the feasibility of using faecal DNA for genetic studies.Faecal DNA has so far mainly been used in studies of mammals and less often for studies of birds (Idaghdour et al., 2003;Regnaut et al., 2006). In mammals, DNA has been recovered from faeces that were preserved dried (Höss et al., 1992;Kohn et al., 1995;Foran et al., 1997;Taberlet et al., 1997), in 70% ethanol (Höss, 1992;Kohn et al., 1995), in 99%-100% ethanol (Gerloff et al., 1995) and frozen at -20°C (Reed et al., 1997).Several studies have evaluated the relative genotyping success from two or more preservation media (Wasser et al., 1997;Frantzen et...

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Section: Discussionmentioning

confidence: 99%

“…Wherever a sample was encountered a small portion from the outer part of the faeces (c.f. Bidlack et al, 2007;Ferrando et al, 2008;Stenglein et al, 2010) was collected using dry sticks and immediately put into ethanol and ASL buffer. Each stick was discarded after each sample collection to avoid contamination.…”

Section: Faecal Samplingmentioning

confidence: 99%

Evaluating preservation medium for the storage of DNA in African lion Panthera leo faecal samples

Tende

Hansson

Ottosson³

et al. 2014

Current Zoology

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“…This advancement had truly escalated the field of conservation biology particularly when dealing with rare and elusive, endangered, or cryptic fauna [1][2][3][5][6][7][8] .…”

Section: Contents Lists Available At Sciencedirectmentioning

confidence: 99%

“…Peer reviewer with the advent of polymerase chain reaction (PCR)-based technology [1][2][3][4][5] . This advancement had truly escalated the field of conservation biology particularly when dealing with rare and elusive, endangered, or cryptic fauna [1][2][3][5][6][7][8] .…”

Section: Contents Lists Available At Sciencedirectmentioning

confidence: 99%

Blood meal analysis of tabanid fly after it biting the rare Sumatran rhinoceros

Rovie-Ryan

Zainuddin²,

Marni

et al. 2013

Asian Pacific Journal of Tropical Biomedicine

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“…O número de réplicas para obter um genótipo consenso e superar erros no processo de genotipagem (falsos alelos e perda de alelos) é uma etapa essencial que, caso não levada em consideração, pode levar a erros na genotipagem resultando em freqüências alélicas alteradas e, principalmente, em aumento na homozigose. Em WEHAUSEN et al, 2004;STENGLEIN et al, 2010 Maior tolerância na sobreposição de áreas de vida, restringindo o território, de uso exclusivo, às áreas-núcleo, pode emergir como um mecanismo envolvido na alta densidade em que o veado-catingueiro se encontra no local. As fêmeas observadas em semicativeiro, no trabalho de Black-Décima (2000) podem, por marcarem suas áreas-núcleo e não toda a extensão de área de vida, estar em situação semelhante.…”

Section: Discussionunclassified

Uso do espaço pelo veado-catingueiro (Mazama gouazoubira; Fisher, 1814): uma comparação entre colares GPS e DNA fecal

Peres¹

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Impacts of sampling location within a faeces on DNA quality in two carnivore species

Cited by 76 publications

References 59 publications

Evaluating preservation medium for the storage of DNA in African lion Panthera leo faecal samples

Evaluating preservation medium for the storage of DNA in African lion Panthera leo faecal samples

Blood meal analysis of tabanid fly after it biting the rare Sumatran rhinoceros

Uso do espaço pelo veado-catingueiro (Mazama gouazoubira; Fisher, 1814): uma comparação entre colares GPS e DNA fecal

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