ArticleMethods in molecular biology (Clifton, N.J.)2025
Sequence Demarcation Tool (SDT), a Free User-Friendly Computer Program Using Pairwise Genetic Identity Calculations to Classify Nucleotide or Amino Acid Sequences.
Article in Methods in molecular biology (Clifton, N.J.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers, 1 of them a synthesis that pooled it.
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Who cites it
7 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Bioinformatics Tools and Approaches for Virus Discovery in Genomic Data: A Systematic Review.Viruses · 2025Pooled it
- Transcriptome mining and comparative genomics reveal 36 putative novel marafivirus species and conserved evolution of the marafibox regulatory element.Genes & genomics · 2026Article
- Transcriptome mining expands the diversity of Antonospora locustae virus 1-like viruses in the family Amalgaviridae.Virus genes · 2026Article
- Novel avian papillomaviruses identified in a south polar skua sampled on Ross Island, Antarctica.Archives of virology · 2026Article
- Expanding the diversity of Celavirus, the most divergent genus in the family Potyviridae.Virus genes · 2025Article
- Genetic Diversity of Equid Herpesvirus 5 in Temporal Samples from Mares and Their Foals at Three Polish National Studs.International journal of molecular sciences · 2025Article
- Evolutionary features of new picorna-like viruses inCurrent research in parasitology & vector-borne diseases · 2025Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Sequence Demarcation Tool (SDT) is a free user-friendly computer program that has been adopted by many geminivirologists as a means of robustly and reproducibly using pairwise genetic identity calculations to classify geminivirus whole genome sequences. As input SDT takes unaligned sequences and it outputs publication quality pairwise identity plots and color-coded distance matrices. Whereas the distance plots are useful for guiding the establishment of strain, species or genus demarcation thresholds that will yield minimal classification conflicts, the distance matrices aid the classification of sequences according to the taxonomic demarcation criteria of the International Committee on Taxonomy of Viruses. Accordingly, over the past 10 years, SDT has been extensively used for the establishment of new genera in the family Geminiviridae and for the classification of hundreds of new species within individual geminivirus genera.
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