ArticleBMC genomics2017
Estimating genomic diversity and population differentiation - an empirical comparison of microsatellite and SNP variation in Arabidopsis halleri.
Article in BMC genomics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 100 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
100 citing papers in PubMed, 281 citations in OpenAlex.
- Population genomics of the Japanese oak wilt pathogen reveals genetic structure mirroring its beetle vector and informs biosecurity risk assessment.BMC genomics · 2026Article
- Nucleotide diversity is a poor predictor of short-term adaptive potential.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Genome-wide signatures of selection and genetic diversity reveal the impact of modern breeding on Brazilian soybean.Molecular breeding : new strategies in plant improvement · 2026Article
- Cryptic Diversity and Impacts of Domestication in the Black Soldier Fly (Hermetia illucens) Genome.Genome biology and evolution · 2026Article
- A Beginner's How-To Guide to Urban Population Genetics and Genomics.Ecology and evolution · 2026Review
- Low genetic differentiation among morphologically distinct Cycas species informs the delineation of conservation management units.Annals of botany · 2026Article
- Article
- Invasive patterns of Biomphalaria straminea revealed by genetic mapping in the Greater Bay Area, China.Infectious diseases of poverty · 2026Article
- Article
- Genetic Limitation and Conservation Implications inBiology · 2025Article
- Single Nucleotide Polymorphisms, Structural Variants, and Short Tandem Repeats Capture Distinct Signals of Adaptive Divergence in the Atlantic Puffin.Genome biology and evolution · 2025Article
- A Genome-Wide Analysis of Structure and Evolution in Irish and British Populations ofEvolutionary applications · 2025Article
- Strong Environmental and Genome-Wide Population Differentiation Underpins Adaptation and High Genomic Vulnerability in the Dominant Australian Kelp (Ecology and evolution · 2025Article
- Genotyping by sequencing reveals the genetic diversity and population structure of Peruvian highland maize races.Frontiers in plant science · 2025Article
- Article
- Genetic diversity and population structure of soybean (Glycine max (L.) Merril) germplasm.PloS one · 2025Article
- Genome-wide association analysis of flowering date in a collection of cultivated olive tree.Horticulture research · 2025Article
- Optimizing genomic diversity assessments for conservation of Bromus auleticus (Trinius ex Nees) using individual and pooled sequencing.PloS one · 2025Article
- Dissecting the genetic diversity of cultivated tomato (3 Biotech · 2024Article
- Genetic Diversity, Runs of Homozygosity, and Selection Signatures in Native Japanese Chickens: Insights from Single-Nucleotide Polymorphisms.Animals : an open access journal from MDPI · 2024Article
40 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMicrosatellite markers are widely used for estimating genetic diversity within and differentiation among populations. However, it has rarely been tested whether such estimates are useful proxies for genome-wide patterns of variation and differentiation. Here, we compared microsatellite variation with genome-wide single nucleotide polymorphisms (SNPs) to assess and quantify potential marker-specific biases and derive recommendations for future studies. Overall, we genotyped 180 Arabidopsis halleri individuals from nine populations using 20 microsatellite markers. Twelve of these markers were originally developed for Arabidopsis thaliana (cross-species markers) and eight for A. halleri (species-specific markers). We further characterized 2 million SNPs across the genome with a pooled whole-genome re-sequencing approach (Pool-Seq).
resultsOur analyses revealed that estimates of genetic diversity and differentiation derived from cross-species and species-specific microsatellites differed substantially and that expected microsatellite heterozygosity (SSR-H
conclusionsWe recommend that future analyses of genetic diversity within and differentiation among populations use randomly selected high-throughput sequencing-based SNP data to draw conclusions on genome-wide diversity patterns. In species comparable to A. halleri, a few thousand SNPs are sufficient to achieve this goal.
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.