Mima mounds, which measure up to 7ft in height and 160ft in diameter, are found all around the world. However, they are most common in North America.
Despite often numbering in millions within a single field, their origin has been a mystery, with proposed explanations ranging from glacial processes to seismic shaking.
Early explorers in the US believed them to be Native American burial sites.
"The big mystery surrounding Mima mounds is that, until now, nobody really knew how they formed," lead researcher Dr Manny Gabet, of San Jose State University in US, told BBC News.
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Gabet is now certain that tiny burrowing gophers have created the mysterious mounds over hundreds of years.
Researchers used a computer programme to analyse how the rodents move soil as they burrow. They found that in areas prone to waterlogging, the gophers gradually shift tiny amounts of earth upwards to try to stay dry.
Over hundreds of years, though, as many generations of gophers repeat this process, these minute piles of soil grow into the large structures.
"The [computer] model results look so similar to the mounds in every way - not just the dimensions, but also the way they are packed and how many you get per area.
"It replicates the real-life situation almost perfectly," he said.
But gophers are only found in America, while Mima mounds are found in every continent except Antarctica.
However, Gabet said that other subterranean mammals, such as moles, could be responsible for these.