Potato genome decoded

When shopping for potatoes on a market today, buyers may well be going home with a variety that was already available more than 100 years ago. Traditional potato varieties are popular. And yet this example also highlights a lack of diversity among the predominant potato varieties. However, that could soon change: researchers in the group of geneticist Korbinian Schneeberger were able to generate the first full assembly of a potato genome. This paves the way for breeding new, robust varieties:

"The potato is becoming more and more integral to diets worldwide including even Asian countries like China where rice is the traditional staple food. Building on this work, we can now implement genome-assisted breeding of new potato varieties that will be more productive and also resistant to climate change -- this could have a huge impact on delivering food security in the decades to come."

Especially the low diversity makes potato plants susceptible to diseases. This can have stark consequences, most dramatically during the Irish famine of the 1840s, where for several years nearly the entire potato crop rotted in the ground, and millions of people in Europe suffered from starvation simply because the single variety that was grown was not resistant to newly emerging tuber blight. During the Green Revolution of the 1950s and 1960s, scientists and plant breeders succeeded in achieving large increases in the yields of many of our major crop staples like rice or wheat. However, the potato has seen no comparable boost, and efforts to breed new varieties with higher yields have remained largely unsuccessful to the current day.

The reason for this is simple but has proven difficult to tackle -- instead of inheriting one copy of every chromosome from both the father and from the mother (as in humans) potatoes inherit two copies of each chromosome from each parent, making them a species with four copies of each chromosome (tetraploid). Four copies of each chromosome also mean four copies of each gene, and this makes it highly challenging and time-consuming to generate new varieties that harbour a desired combination of individual properties; what's more, multiple copies of each chromosome also make the reconstruction of the potato genome a far greater technical challenge than was the case for the human genome.

The researchers have overcome this longstanding hurdle using a simple yet elegant trick. Instead of trying to differentiate the four, often very similar, chromosome copies from each other, Korbinian Schneeberger together with his colleague Hequan Sun and other co-workers circumvented this problem by sequencing the DNA of large numbers of individual pollen cells. In contrast to all other cells, each pollen cell contains only two random copies of each chromosome; this facilitated the reconstruction of the sequence of the entire genome.

An overview of the complete DNA sequence of cultivated potato has the potential of greatly facilitating breeding and has been an ambition of scientists and plant breeders alike for many years already. With this information in hand, scientists can now more easily identify gene variants responsible for desirable or undesirable.