The article talks about zinc and selenium, which are metallic elements that are not regenerated in soil on seasonal timescales. We'd need millions of years for the crust to renew and dredge up more rocky sources from the mantle. It is a mass balance problem - each bit of zinc in the wheat you eat used to be out in the field, but now it is in your body until you excrete it as waste .. then it probably ends up in the ocean or a landfill depending on where your water treatment plant is. Very little waste is recovered for fertilizer.

The solution here is going to be more fertilizers, not less, with micronutrients sourced from mines with richer deposits than the soil holds. The only other solution is moving food production to virgin land, which means destroying even more nature and will ruin that soil as well in time.

See also phosphorous, which the world is rapidly running out of. Phosphorous is regenerated through sedimentation in the ocean crust, and subsequent tectonic activity moving that crust to the surface. There's less than a century of phosphate rock reserves left. Fertilizers won't even be an option in this case, and it is a slow-motion emergency.