ArticleMethods in ecology and evolution2019
Empowering conservation practice with efficient and economical genotyping from poor quality samples.
Article in Methods in ecology and evolution, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 70 citations in OpenAlex.
- Development of a SNP Amplicon Panel for Invasive Deer Faecal Pellets and the Effects of Environmental Exposure on Genotyping Success.Ecology and evolution · 2026Article
- Leveraging Next-Generation Tools for Genetic Assessment and Demographic Monitoring in Threatened and Elusive Humboldt Martens.Evolutionary applications · 2026Article
- Development of a SNP Panel for Geographic Assignment and Population Monitoring of Jaguars (Ecology and evolution · 2025Article
- A Pipeline and Recommendations for Population and Individual Diagnostic SNP Selection in Non-Model Species.Molecular ecology resources · 2025Article
- MhGeneS: An Analytical Pipeline to Allow for Robust Microhaplotype Genotyping.Molecular ecology resources · 2025Article
- Advancements in noninvasive koala monitoring through combining Chlamydia detection with a targeted koala genotyping assay.Scientific reports · 2024Article
- Southern marsh deer (Blastocerus dichotomus) populations assessed using Amplicon Sequencing on fecal samples.Scientific reports · 2024Article
- Development and validation of a GT-seq panel for genetic monitoring in a threatened species using minimally invasive sampling.Ecology and evolution · 2024Article
- Evaluating genotyping-in-thousands by sequencing as a genetic monitoring tool for a climate sentinel mammal using non-invasive and archival samples.Ecology and evolution · 2024Article
- An experimental design for obtaining DNA of a target species and its diet from a single non-invasive genetic protocol.Ecology and evolution · 2023Article
- The year of the tiger and the year of tiger genomes!Molecular ecology resources · 2023Article
- Article
- Design and implementation of multiplexed amplicon sequencing panels to serve genomic epidemiology of infectious disease: A malaria case study.Molecular ecology resources · 2022Article
- Genotyping-in-thousands by sequencing (GT-seq) of noninvasive faecal and degraded samples: A new panel to enable ongoing monitoring of Canadian polar bear populations.Molecular ecology resources · 2022Article
- A genotyping-in-thousands by sequencing panel to inform invasive deer management using noninvasive fecal and hair samples.Ecology and evolution · 2022Article
- How methodological changes have influenced our understanding of population structure in threatened species: insights from tiger populations across India.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Review
- Whole genome sequencing and the application of a SNP panel reveal primary evolutionary lineages and genomic variation in the lion (Panthera leo).BMC genomics · 2022Article
- Testing the effectiveness of genetic monitoring using genetic non-invasive sampling.Ecology and evolution · 2022Article
- A robust sequencing assay of a thousand amplicons for the high-throughput population monitoring of Alpine ibex immunogenetics.Molecular ecology resources · 2022Article
- High frequency of an otherwise rare phenotype in a small and isolated tiger population.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
Abstract
Moderate- to high-density genotyping (100 + SNPs) is widely used to determine and measure individual identity, relatedness, fitness, population structure and migration in wild populations.However, these important tools are difficult to apply when high-quality genetic material is unavailable. Most genomic tools are developed for high-quality DNA sources from laboratory or medical settings. As a result, most genetic data from market or field settings is limited to easily amplified mitochondrial DNA or a few microsatellites.To enable genotyping in conservation contexts, we used next-generation sequencing of multiplex PCR products from very low-quality DNA extracted from faeces, hair and cooked samples. We demonstrated utility and wide-ranging potential application in endangered wild tigers and tracking commercial trade in Caribbean queen conch.We genotyped 100 SNPs from degraded tiger samples to identify individuals, discern close relatives and detect population differentiation. Co-occurring carnivores do not amplify (e.g. Indian wild dog/dhole) or are monomorphic (e.g. leopard). Sixty-two SNPs from conch fritters and field-collected samples were used to test relatedness and detect population structure.We provide proof of concept for a rapid, simple, cost-effective and scalable method (for both samples and number of loci), a framework that can be applied to other conservation scenarios previously limited by low-quality DNA samples. These approaches provide a critical advance for wildlife monitoring and forensics, open the door to field-ready testing, and will strengthen the use of science in policy decisions and wildlife trade.
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