Pennsylvania Box Huckleberry Colony Estimated to Be Up to 13,000 Years Old
📰 Original title: This Box Huckleberry Shrub? It’s One of the Oldest Organisms on Earth
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Recovering DNA from ancient plants is tough, but this new method makes it work! A new extraction workflow improves recovery of fragmented endogenous plant aDNA while preserving library complexity and read yield.
https://www.nature.com/articles/s41598-025-21743-7
#MetagenomicsMonday #SPAAM #aDNA #metagenomics #archaeobotany #ancientplants #DNA
Paleogenomics has recently expanded its applications, including studies on plant remains to trace evolution and domestication. However, recovering ancient DNA (aDNA) from archaeobotanical remains is challenging due to the highly fragmented nature of endogenous aDNA, low copy numbers and inhibitors that hinder further manipulation and analysis. In this study, we explored the application of a reagent optimized against soil inhibitors, typically used in sediment DNA extraction, coupled with an aDNA-specific silica binding step, to improve and maximize the recovery of processable aDNA. Ancient grape pips were used as starting material. The approach was evaluated in two archaeological contexts, assessing the suitability of extracts for downstream processing, including NGS library production and sequencing. In conclusion, we demonstrated the protocol was effective in recovering aDNA, achieving higher yields and more consistent performance across sites compared to previous extraction methods. It significantly improved the library production step, particularly in challenging sites. Finally, we have shown it successfully allowed to incorporate into sequencing libraries the highly fragmented and damaged endogenous aDNA from ancient samples, while preserving read yield, library complexity and other sequencing metrics. Future studies on historical and ancient plant remains will benefit from these advancements in high-quality aDNA recovery.
Astonishing if it's true that 1000 year old seeds are germinating when the ponds are re-made...
Nature is awesome!
"New analysis methods, applied to ancient plant DNA, reveal how hard-hit plants were and are by global warming"
#globalwarming #DNA #ancientplants
https://www.eurekalert.org/news-releases/1073456
Global warming is producing a rapid loss of plant species – according to estimates, roughly 600 plant species have died out since 1750 – twice the number of animal species lost. But which species are hit hardest? And how does altered biodiversity actually affect interactions between plants? Experts from the Alfred Wegener Institute have tackled these questions and, in two recent studies, presented the answers they found buried in the past: using fragments of plant genetic material (DNA) deposited in lake sediments, they were able to gain new insights into how the composition of flora changed 15,000 to 11,000 years ago during the warming at the end of the last ice age, which is considered to be the last major mass extinction event before today. This comparison can offer an inkling of what might await us in the future. The researchers have just published their findings in the journal Nature Communications.
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