Factors affecting genotyping success in giant panda fecal samples

Fecal samples play an important role in giant panda conservation studies. Optimal preservation conditions and choice of microsatellites for giant panda fecal samples have not been established. In this study, we evaluated the effect of four factors (namely, storage type (ethanol (EtOH), EtOH -20 °C,...

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Bibliographic Details
Published in:PeerJ (San Francisco, CA) CA), 2017-05, Vol.5, p.e3358-e3358, Article e3358
Main Authors: Zhu, Ying, Liu, Hong-Yi, Yang, Hai-Qiong, Li, Yu-Dong, Zhang, He-Min
Format: Article
Language:English
Subjects:
Ailuropoda melanoleuca
Analysis
Animal behavior
Biology
Composition
Conservation Biology
Deoxyribonucleic acid
DNA
Ecology
Endangered & extinct species
Ethanol
Feces
Freezing
Genetic aspects
Genetics
Genotypes
Genotyping
Giant panda
Laboratories
Long-term fecal DNA storage
Methods
Microsatellite base pair repeat unit
Microsatellite fragment length
Microsatellites
Molecular Biology
Pandas
Population
Preservation
Protection and preservation
Researchers
Storage time
Storage type
Studies
Success
Wildlife conservation
Zoology
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Summary:Fecal samples play an important role in giant panda conservation studies. Optimal preservation conditions and choice of microsatellites for giant panda fecal samples have not been established. In this study, we evaluated the effect of four factors (namely, storage type (ethanol (EtOH), EtOH -20 °C, 2-step storage medium, DMSO/EDTA/Tris/salt buffer (DETs) and frozen at -20 °C), storage time (one, three and six months), fragment length, and repeat motif of microsatellite loci) on the success rate of microsatellite amplification, allelic dropout (ADO) and false allele (FA) rates from giant panda fecal samples. Amplification success and ADO rates differed between the storage types. Freezing was inferior to the other four storage methods based on the lowest average amplification success and the highest ADO rates (
ISSN:2167-8359
2167-8359
DOI:10.7717/peerj.3358