Next-generation snow leopard population assessment tool: multiplex-PCR SNP panel for individual identification from feces DOI
Katherine A. Solari, Shakeel Ahmad, Ellie E. Armstrong

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 24, 2024

Abstract Snow leopards, Panthera uncia , are under threat from numerous pressures and the focus of a great deal conservation efforts. However, their elusive nature makes it difficult to estimate population sizes. Current methods used monitor local sizes include visually identifying individuals camera trap photos genetically fecal samples using microsatellite loci. Here, we present new method for snow leopard multiplex PCR single nucleotide polymorphism (SNP) panel method. The SNP consists 144 SNPs utilizes next-generation sequencing technology, making cheaper easier than current methods. We validate our with paired tissue zoo individuals, showing minimum 96.7% accuracy in allele calls per run. then generate data 235 field-collected across Pakistan show that can reliably identify low-quality unknown age is robust contamination. also has capability first-order relatives provides insights into geographic origin samples. This will empower research community efforts assess global More broadly, developing open source software selection primer design, Illumina streamlined lab bioinformatics protocol which be create similar panels any species interest adequate genomic reference available.

Language: Английский

Next-generation snow leopard population assessment tool: multiplex-PCR SNP panel for individual identification from feces DOI
Katherine A. Solari, Shakeel Ahmad, Ellie E. Armstrong

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 24, 2024

Abstract Snow leopards, Panthera uncia , are under threat from numerous pressures and the focus of a great deal conservation efforts. However, their elusive nature makes it difficult to estimate population sizes. Current methods used monitor local sizes include visually identifying individuals camera trap photos genetically fecal samples using microsatellite loci. Here, we present new method for snow leopard multiplex PCR single nucleotide polymorphism (SNP) panel method. The SNP consists 144 SNPs utilizes next-generation sequencing technology, making cheaper easier than current methods. We validate our with paired tissue zoo individuals, showing minimum 96.7% accuracy in allele calls per run. then generate data 235 field-collected across Pakistan show that can reliably identify low-quality unknown age is robust contamination. also has capability first-order relatives provides insights into geographic origin samples. This will empower research community efforts assess global More broadly, developing open source software selection primer design, Illumina streamlined lab bioinformatics protocol which be create similar panels any species interest adequate genomic reference available.

Language: Английский

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