Study reveals potato's secret tomato heritage

Japan Times

4 days ago

You say potato, I say tomato?
Turns out one helped create the other: Natural interbreeding between wild tomatoes and potato-like plants in South America gave rise to the modern day spud around 9 million years ago, according to a new study published Thursday in the journal Cell.
Co-author Loren Rieseberg, a professor at the University of British Columbia, said the findings point to a "profound shift" in evolutionary biology, as scientists increasingly recognize the role of ancient hybridization events in shaping the Tree of Life.
While it was once thought that random mutations were by far the biggest driver of new species, "we now agree that the creative role of hybridization has been underestimated," he said.
Simple, affordable and versatile, the humble potato is now one of the world's most important crops. But its origins have long puzzled scientists.
Modern potato plants closely resemble three species from Chile known as Etuberosum. However, these plants do not produce tubers — the large underground structures, like those found in potatoes and yams, that store nutrients and are the parts we eat.
On the other hand, genetic analysis has revealed a surprising closeness to tomatoes.
"This is known as discordance, and indicates something interesting is going on!" co-author Sandra Knapp, a research botanist at Britain's Natural History Museum, said.
To solve the mystery, an international team of researchers analyzed 450 genomes from cultivated potatoes and 56 wild potato species.
Lead author Zhiyang Zhang, of the Agricultural Genomics Institute at Shenzhen, said in a statement, "Wild potatoes are very difficult to sample, so this dataset represents the most comprehensive collection of wild potato genomic data ever analysed."
The analysis revealed that modern potatoes carry a balanced genetic legacy from two ancestral species — roughly 60% from Etuberosum and 40% from tomatoes.
"My wow moment was when the Chinese team showed that ALL potatoes, wild species as well as land races, had basically the same proportion of tomato genes and Etuberosum genes," said Knapp.
"That really points to an ancient hybridization event rather than various events of gene exchange later on," she added. "It is so clear cut! Beautiful."
One gene called SP6A, a signal for tuberization, came from the tomato lineage. But it only enabled tuber formation when paired with the IT1 gene from Etuberosum, which controls underground stem growth.
The divergence between Etuberosum and tomatoes is thought to have begun 14 million years ago — possibly due to off-target pollination by insects — and completed 9 million years ago.
This evolutionary event coincided with the rapid uplift of the Andes mountain range, providing ideal conditions for the emergence of tuber-bearing plants that could store nutrients underground.
Another key feature of tubers is their ability to reproduce asexually, sprouting new buds without the need for seeds or pollination — a trait that helped them spread across South America, and through later human exchange, around the globe.
Co-author Sanwen Huang, a professor at the Agricultural Genomics Institute at Shenzhen, said that his lab is now working on a new hybrid potato that can be reproduced by seeds to accelerate breeding.
This study suggests that using the tomato "as a chassis of synthetic biology" is a promising route for creating this new potato, he said.