Original: Evidence from sequencing mitochondrial DNA indicated that no significant gene flow occurred between H. neanderthalensis and H. sapiens, and, therefore, the two were separate species that shared a common ancestor about 660,000 years ago.
Simplified: While the debate remains unsettled, evidence from mitochondrial DNA and Y-chromosomal DNA sequencing indicates that little or no gene flow occurred between H. neanderthalensis and H. sapiens, and, therefore, the two were separate species.