ArticleApplications in plant sciences
Reference-free discovery of nuclear SNPs permits accurate, sensitive identification of
Article in Applications in plant sciences. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
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Who cites it
2 citing papers in PubMed.
- Utilizing Big Data to Identify Tiny Toxic Components:Foods (Basel, Switzerland) · 2021Article
- Reference-free discovery of nuclear SNPs permits accurate, sensitive identification ofApplications in plant sciencesArticle
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
premiseDNA-based species identification is critical when morphological identification is restricted, but DNA-based identification pipelines typically rely on the ability to compare homologous sequence data across species. Because many clades lack robust genomic resources, we present here a bioinformatics pipeline capable of generating genome-wide single-nucleotide polymorphism (SNP) data while circumventing the need for any reference genome or annotation data.
methodsUsing the SISRS bioinformatics pipeline, we generated de novo ortholog data for the genus
resultsWe identified between 46,000 and 476,000 species-identifying SNPs for each of eight diploid DISCUSSION: Bioinformatics pipelines that use only short-read sequencing data provide vital new tools enabling rapid expansion of DNA identification assays for model and non-model clades alike.
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