ArticlePlant methods2018
Genome skimming herbarium specimens for DNA barcoding and phylogenomics.
Article in Plant methods, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 105 papers.
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105 citing papers in PubMed.
- Historical Plant Embryos as Alternative Sources of Ancient DNA for Whole Genome Sequencing.Molecular ecology resources · 2026Article
- Plant species identification by genome skimming across the vascular plant tree of life.The New phytologist · 2026Article
- Structural characteristics of the Phoebe hui chloroplast genome and phylogenetic analyses of Phoebe plants.BMC genomics · 2026Article
- Complete chloroplast genomes of four Triumfetta species obtained from herbarium specimens: comparative analysis and identification of a synapomorphic inversion.Scientific reports · 2026Article
- Comprehensive analysis of the pan-plastome in Panax: implications for interspecies divergence and shade tolerance.BMC plant biology · 2026Article
- New Insights from Two HistoricJournal of fungi (Basel, Switzerland) · 2026Article
- Petrodesmum, a new genus of the legume tribe Desmodieae from Laos.BMC plant biology · 2026Article
- Comprehensive analysis of chloroplast genome evolution in Poaceae: codon usage patterns, selection pressures, and phylogenomic relationships.BMC genomics · 2026Article
- The complete chloroplast genome ofMitochondrial DNA. Part B, Resources · 2026Article
- The complete chloroplast genome ofMitochondrial DNA. Part B, Resources · 2026Article
- Combining nuclear genome, chloroplast fragments and morphology to solve the species delimitation ofPhytoKeys · 2026Article
- Short-read genome skimming enables molecular barcoding of old myxomycete collections.IMA fungus · 2026Article
- Article
- The Phylogenomic Framework and Infrageneric Classification of Temperate Asian Caraganeae (Leguminosae, Papilionoideae).Ecology and evolution · 2025Article
- Identification of herbal medicine species of Lysimachia L. (Primulaceae) in Southern China using genome skimming.BMC plant biology · 2025Article
- Evaluating the utility of deep genome skimming for phylogenomic analyses: A case study in the species-rich genusPlant diversity · 2025Article
- A curated benchmark dataset for molecular identification based on genome skimming.Scientific data · 2025Article
- Reassessing the phylogenetic relationships ofPlant diversity · 2025Article
- Complete Chloroplast Genome Analysis ofPlants (Basel, Switzerland) · 2025Article
- Plastome phylogenomics unravels the evolutionary relationships and biogeographic history of Chloranthaceae.BMC plant biology · 2025Article
45 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe world's herbaria contain millions of specimens, collected and named by thousands of researchers, over hundreds of years. However, this treasure has remained largely inaccessible to genetic studies, because of both generally limited success of DNA extraction and the challenges associated with PCR-amplifying highly degraded DNA. In today's next-generation sequencing world, opportunities and prospects for historical DNA have changed dramatically, as most NGS methods are actually designed for taking short fragmented DNA molecules as templates.
resultsAs a practical test of routine recovery of rDNA and plastid genome sequences from herbarium specimens, we sequenced 25 herbarium specimens up to 80 years old from 16 different Angiosperm families. Paired-end reads were generated, yielding successful plastid genome assemblies for 23 species and nuclear rDNAs for 24 species, respectively. These data showed that genome skimming can be used to generate genomic information from herbarium specimens as old as 80 years and using as little as 500 pg of degraded starting DNA.
conclusionsThe routine plastome sequencing from herbarium specimens is feasible and cost-effective (compare with Sanger sequencing or plastome-enrichment approaches), and can be performed with limited sample destruction.
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