Michigan State University: MSU scientists discover new microbes in Earth’s deep soil

Leonardo da Vinci once said, “We know more about the movement of celestial bodies than about the soil underfoot.”

James Tiedje, a world-renowned expert in microbiology at Michigan State University, agrees with da Vinci. But he aims to change this through his work on the Critical Zone, part of the dynamic “living skin” of the Earth.

“The Critical Zone extends from the tops of trees down through the soil to depths up to 700 feet,” Tiedje said. “This zone supports most life on the planet as it regulates essential processes like soil formation, water cycling and nutrient cycling, which are vital for food production, water quality and ecosystem health. Despite its importance, the deep Critical Zone is a new frontier because it’s a major part of the Earth that is relatively unexplored.”

What researchers found in the deep layers of the Critical Zone

Tiedje, a University Distinguished Professor Emeritus in the MSU Department of Microbiology, Genetics and Immunologyand the Department of Plant, Soil and Microbial Sciences, discovered in this huge, unexplored microbial world a completely different phylum, or primary category, of microbe called CSP1-3. This new phylum was identified in soil samples from both Iowa and China at depths down to 70 feet. Why Iowa and China? Because these two areas have very deep and similar soils and we want to know if their occurrence is more general and not just in one area, Tiedje said.

Tiedje’s team extracted DNA from these deep soils and found that CSP1-3’s ancestors lived in the water — hot springs and fresh water — many millions of years ago. They underwent at least one major habitat transition to colonize soil environments — first topsoil and, later, deep soils, during its evolutionary history.

Tiedje also found that the microbes were active. “Most people would think that these organisms are just like spores or dormant,” he said. “But one of our key findings we found through examining their DNA is that these microbes are active and slowly growing.”

Tiedje also was surprised to find these microbes were not rare members of the community, but were dominant; in some cases they made up 50% or more of the community, which is never the case in surface soils.

“I believe this occurred because the deep soil is such a different environment, and this group of organisms has evolved over a long period of time to adapt to this impoverished soil environment,” Tiedje added.