ArticleEcology and evolution2022
A pipeline for effectively developing highly polymorphic simple sequence repeats markers based on multi-sample genomic data.
Article in Ecology and evolution, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed, 13 citations in OpenAlex.
- The Complete Chloroplast Genome Sequences ofEcology and evolution · 2026Article
- Genetic diversity analysis of Xizang Sophora Moorcroftiana (Benth.) Baker based on whole-genome resequencing.BMC genomics · 2026Article
- The Development of a Fluorescent Microsatellite Marker Assay for the Pitaya Canker Pathogen (Genes · 2024Article
- Transcriptomic Insights and the Development of Microsatellite Markers to Assess Genetic Diversity in the Broodstock Management ofAnimals : an open access journal from MDPI · 2024Article
- Article
- Genome-wide survey and characterization of microsatellites in cashew and design of a web-based microsatellite database: CMDB.Frontiers in plant science · 2023Article
- A pipeline for effectively developing highly polymorphic simple sequence repeats markers based on multi-sample genomic data.Ecology and evolution · 2022Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Simple sequence repeats (SSRs) are widely used genetic markers in ecology, evolution, and conservation even in the genomics era, while a general limitation to their application is the difficulty of developing polymorphic SSR markers. Next-generation sequencing (NGS) offers the opportunity for the rapid development of SSRs; however, previous studies developing SSRs using genomic data from only one individual need redundant experiments to test the polymorphisms of SSRs. In this study, we designed a pipeline for the rapid development of polymorphic SSR markers from multi-sample genomic data. We used bioinformatic software to genotype multiple individuals using resequencing data, detected highly polymorphic SSRs prior to experimental validation, significantly improved the efficiency and reduced the experimental effort. The pipeline was successfully applied to a globally threatened species, the brown eared-pheasant (
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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.