ArticleRoyal Society open science2016
Temporal patterns of damage and decay kinetics of DNA retrieved from plant herbarium specimens.
Article in Royal Society open science, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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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.
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Who cites it
49 citing papers in PubMed.
- Historical Plant Embryos as Alternative Sources of Ancient DNA for Whole Genome Sequencing.Molecular ecology resources · 2026Article
- Ancient wheat DNA: How and what for?Journal, genetic engineering & biotechnology · 2026Article
- Herbariomic approach solved identity crisis of the putatively extinct Armeria arcuata Welw. ex Boiss. & Reut. (Plumbaginaceae).Annals of botany · 2026Article
- Persistent trade-offs balance competition and colonization across centuries.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Patterns of aDNA damage through time and environments-lessons from herbarium specimens.GigaScience · 2026Article
- Persistent trade-offs balance competition and colonization across centuries.bioRxiv : the preprint server for biology · 2025Article
- Ancient Microbiomes as Mirrored by DNA Extracted From Century-Old Herbarium Plants and Associated Soil.Molecular ecology resources · 2025Article
- The First Whole Genome Sequencing of Historical Lichen Specimens Enables Genome-Wide Analysis of Fungal and Algal Symbionts.Ecology and evolution · 2025Article
- A composite universal DNA signature for the tree of life.Nature ecology & evolution · 2025Article
- Application of Free and Encapsulated DNA Tracers in Surface Water Studies in Lithuanian Climatic Conditions.Biomolecules · 2025Article
- Century-long timelines of herbarium genomes predict plant stomatal response to climate change.Nature ecology & evolution · 2024Article
- A phage tail-like bacteriocin suppresses competitors in metapopulations of pathogenic bacteria.Science (New York, N.Y.) · 2024Article
- Deciphering the Genomic Landscape and Virulence Mechanisms of the Wheat Powdery Mildew PathogenJournal of fungi (Basel, Switzerland) · 2024Article
- Retrieval of long DNA reads from herbarium specimens.AoB PLANTS · 2023Review
- Challenges and Opportunities behind the Use ofPlants (Basel, Switzerland) · 2023Review
- Herbarium specimen sequencing allows precise dating of Xanthomonas citri pv. citri diversification history.Nature communications · 2023Article
- Developing the Protocol Infrastructure for DNA Sequencing Natural History Collections.Biodiversity data journal · 2023Article
- Article
- Chloroplast genome sequencing based on genome skimming for identification of Eriobotryae Folium.BMC biotechnology · 2021Article
- Contribution of historical herbarium small RNAs to the reconstruction of a cassava mosaic geminivirus evolutionary history.Scientific reports · 2021Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Herbaria archive a record of changes of worldwide plant biodiversity harbouring millions of specimens that contain DNA suitable for genome sequencing. To profit from this resource, it is fundamental to understand in detail the process of DNA degradation in herbarium specimens. We investigated patterns of DNA fragmentation and nucleotide misincorporation by analysing 86 herbarium samples spanning the last 300 years using Illumina shotgun sequencing. We found an exponential decay relationship between DNA fragmentation and time, and estimated a per nucleotide fragmentation rate of 1.66 × 10(-4) per year, which is six times faster than the rate estimated for ancient bones. Additionally, we found that strand breaks occur specially before purines, and that depurination-driven DNA breakage occurs constantly through time and can to a great extent explain decreasing fragment length over time. Similar to what has been found analysing ancient DNA from bones, we found a strong correlation between the deamination-driven accumulation of cytosine to thymine substitutions and time, which reinforces the importance of substitution patterns to authenticate the ancient/historical nature of DNA fragments. Accurate estimations of DNA degradation through time will allow informed decisions about laboratory and computational procedures to take advantage of the vast collection of worldwide herbarium specimens.
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