ArticleEcology and evolution2020
Power of a dual-use SNP panel for pedigree reconstruction and population assignment.
Article in Ecology and evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
17 citing papers in PubMed.
- Development of a SNP Amplicon Panel for Invasive Deer Faecal Pellets and the Effects of Environmental Exposure on Genotyping Success.Ecology and evolution · 2026Article
- A Practical Framework for GT-Seq Panel Optimization.Molecular ecology resources · 2026Article
- Population genomic assessment of semi-captive Asian elephants (Elephas maximus) from Myanmar: endangered species management and conservation implications.BMC genomics · 2026Article
- GT-Seq Panel Development for Species Identification and Parentage Analysis of Closely Related Hybridising Scaphirhynchus Sturgeons.Molecular ecology resources · 2026Article
- Article
- The Genomics Revolution in Nonmodel Species: Predictions vs. Reality for Salmonids.Molecular ecology · 2025Review
- A new genomic resource to enable standardized surveys of SNPs across the native range of brook trout (Salvelinus fontinalis).Molecular ecology resources · 2025Article
- Development of a Noninvasive Genotyping-In-Thousands (GTseq) Panel for Long-Term Conservation of Western Great Lakes Gray Wolves (Ecology and evolution · 2025Article
- Development of a Genotyping-in-Thousands by Sequencing (GT-Seq) Panel for Identifying Individuals and Estimating Relatedness Among Alaska Black Bears (Ecology and evolution · 2025Article
- Using eDNA to Supplement Population Genetic Analyses for Cryptic Marine Species: Identifying Population Boundaries for Alaska Harbour Porpoises.Molecular ecology · 2025Article
- Efficient population representation with more genetic markers increases performance of a steelhead (Oncorhynchus mykiss) genetic stock identification baseline.Evolutionary applications · 2024Article
- Single Nucleotide Polymorphism Markers with Applications in Conservation and Exploitation of Aquatic Natural Populations.Animals : an open access journal from MDPI · 2023Review
- A genotyping-in-thousands by sequencing panel to inform invasive deer management using noninvasive fecal and hair samples.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
- Parentage Analysis in Giant Grouper (Genes · 2021Article
- Article
- Power of a dual-use SNP panel for pedigree reconstruction and population assignment.Ecology and evolution · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The use of high-throughput, low-density sequencing approaches has dramatically increased in recent years in studies of eco-evolutionary processes in wild populations and domestication in commercial aquaculture. Most of these studies focus on identifying panels of SNP loci for a single downstream application, whereas there have been few studies examining the trade-offs for selecting panels of markers for use in multiple applications. Here, we detail the use of a bioinformatic workflow for the development of a dual-purpose SNP panel for parentage and population assignment, which included identifying putative SNP loci, filtering for the most informative loci for the two tasks, designing effective multiplex PCR primers, optimizing the SNP panel for performance, and performing quality control steps for downstream applications. We applied this workflow to two adjacent Alaskan Sockeye Salmon populations and identified a GTseq panel of 142 SNP loci for parentage and 35 SNP loci for population assignment. Only 50-75 panel loci were necessary for >95% accurate parentage, whereas population assignment success, with all 172 panel loci, ranged from 93.9% to 96.2%. Finally, we discuss the trade-offs and complexities of the decision-making process that drives SNP panel development, optimization, and testing.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.