High-resolution X-ray and synchrotron (crystal truncation rods) diffraction methods and transmission electron microscopy have been employed to study MBE-grown multilayer In(Ga)As-GaAs heterostructures with arrays of vertically coupled In(Ga)As quantum dots (QDs) in a GaAs matrix. Additional (vertical and lateral) spatial ordering of QDs in perfect crystalline structures, giving rise to undulations of the crystalline planes and quasi-periodic elastic strain, was shown to be essentially anisotropic with respect to crystallographic directions of the  type. The anisotropy of the QD formational system of can be accounted for by assuming that the spatial ordering of the QDs and the corrugation of the crystal planes are the initial stages of relaxation of the elastic strain introduced into the system by the QDs. The anisotropic relief of the crystal planes (corrugated growth surface) results from the formation of a system of spatially ordered quantum quasi-wires uniformly filled with QDs. In a multilayer heterostructure with high crystal perfection, the anisotropic relief of the crystal planes is inherited by overlying layers and its amplitude decreases gradually with increasing distance from the source of elastic strain - the superstructure containing In(Ga)As QDs in the given case.