The girl's skeleton is very important for several reasons. First, her skull has several differences from today's Native Americans (and my use of "Americans" here means for both North and South America), but DNA from Naia's molar does share a distinct marker with current-day populations of native people. This provides evidence that the first early Americans and today's native peoples both had the same ancestors from Beringia, the ancient land bridge connecting Alaska to Russia that allowed humans to colonize the Americas, counter to previous debate. The skull shape differences could be from evolution that occurred in the Americas or in Beringia.
Naia's skeleton is the first scientists have found that shows a genetic link to Beringia from an early time in colonization of the Americas. Some scientists believe that there still could have been several colonization events, and current conclusions are based on a limited number of early skeletons that have been found.