3D genome extracted from woolly mammoth

This handout picture courtesy of Stockholm University taken on September 5, 2018, shows a 52,000-year-old woolly mammoth skin after it was excavated from permafrost, in Belaya Gora, Indigirka River, Russia. —photo by Love Dalen/Stockholm University/Agence France-Presse

WASHINGTON — About 52,000 years ago, the skinned hide of a Siberian woolly mammoth was exposed to conditions so frigid that it spontaneously freeze-dried, locking its DNA fragments into place.

In a study published on Thursday in the journal Cell, scientists reported using this remarkable sample to reconstruct the animal’s genome in three dimensions—a breakthrough that could yield important new insights about extinct species and even boost efforts to bring them back to life.

Until now, ancient DNA specimens have only been found in short, scrambled fragments, severely limiting the amount of information researchers could extract.

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“Now we show that, at least under some circumstances, it’s not just those snippets of that DNA that survive, but they survive in such a way that preserves the original arrangement,” coauthor Olga Dudchenko, a geneticist at Baylor College of Medicine, told Agence France-Presse (AFP).

Understanding the 3D architecture of an organism’s genome—the complete set of its DNA—is crucial for identifying which genes are active in specific tissues, revealing why brain cells think, heart cells beat, and immune cells fight disease.

It was long assumed that due to the rapid degradation of very small particles, such information would inevitably be lost to history.

But around a decade ago, an international team of scientists set out to find an ancient sample where the 3D organization of the DNA remained intact such that it could be fully reconstructed with a new analytical technique.

Their quest led them to an exceptionally well-preserved woolly mammoth sample, excavated in northeastern Siberia in 2018.

Whether the hirsute pachyderm—a female with a distinctive mullet-style hairdo—died naturally or was killed by humans is unknown. However, it does appear that early humans skinned her, leaving tissue around the head, neck, and left ear intact, according to Dudchenko.

Mammoth jerky

The team hypothesizes that the skin cooled and dehydrated, transitioning into a glasslike state that trapped its molecules in place and preserved the shape of its chromosomes, or the threadlike structures that hold DNA strands.

Essentially, they had discovered a piece of freeze-dried woolly mammoth jerky.

To test the resilience of jerky, they subjected lab-made and store-bought beef jerky pieces to a series of tests simulating the kind of damage ancient samples might encounter over millennia.

One significant discovery from their research established that mammoths had 28 pairs of chromosomes. The finding aligns with the 28 chromosomal pairs found in elephants, the closest living relatives of mammoths, “but before this study, it was anybody’s guess,” said Dudchenko.

Erez Lieberman Aiden of Baylor College of Medicine, who co-led the team, told AFP that while the researchers’ goal was not to bring mammoths back, the information they gleaned could be used for such efforts.

A Japanese team is looking at cloning woolly mammoths, while a group in the United States is aiming to create genetically “mammothized” elephants. —Agence France-Presse