Recently a new method to calculate the occupancies of single particle levels in atomic nuclei was developed in the context of the microscopic interacting boson model, in which neutron and proton degrees of freedom are treated explicitly (IBM-2). The energies of the single particle levels constitute a very important input for the calculation of the occupancies in this method, and further they play important role in the calculation of double beta decay nuclear matrix elements. Here we discuss how the 0νββ, 0νhββ, and 2νββ-decay nuclear matrix elements (NMEs) are affected when the energies of single particle levels are changed.