Populus shenzhou, a chimera, is divided into three types: A, B, and C. Among them, Type B is the chimera of Type A and Type C. Type B of P. shenzhou, as a progenitive material was cut and differentiated stably into Type A, Type B, and Type C, at an average differentiation rate of approximately 79.6%, 18.3%, and 2.2%, respectively. The studies on SSR identification of P. shenzhou showed that all tissues, including the bud, leafstalk, leaf nervation, phloem, and xylem, were a chimera. There were two kinds of color roots of the three types. The rufous roots were identified as Type A tissue and the yellow roots as Type C tissue by the SSR molecular markers.