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Background  In the last few years, accumulated information has indicated that the evolution of an extra-embryonic membrane in dipterans was accompanied by changes in the gene regulatory network controlled by the BMP/Dpp pathway, which is responsible for dorsal patterning in these insects. However, only comparative analysis of gene expression levels between distant species with two extra-embryonic membranes, like  A. gambiae  or  C. albipunctata , and  D. melanogaster,  has been conducted. Analysis of gene expression in ancestral species, which evolved closer to the amnioserosa origin, could provide new insights into the evolution of dorsoventral patterning in dipterans.    Results  Here we describe the spatial expression of several key and downstream elements of the Dpp pathway and show the compared patterns of expression between  Musca  and  Drosophila  embryos, both dipterans with amnioserosa. Most of the analyzed gene showed a high degree of expression conservation, however, we found several differences in the gene expression pattern of  M. domestica  orthologs for  sog  and  tolloid . Bioinformatics analysis of the promoter of both genes indicated that the variations could be related to the gain of several binding sites for the transcriptional factor Dorsal in the  Md.tld  promoter and Snail in the  Md.sog enhancer . These altered expressions could explain the unclear formation of the pMad gradient in the  M. domestica  embryo, compared to the formation of the gradient in  D. melanogaster.Conclusion  Gene expression changes during the dorsal–ventral patterning in insects contribute to the differentiation of extra-embryonic tissues as a consequence of changes in the gene regulatory network controlled by BMP/Dpp. In this work, in early  M. domestica  embryos, we identified the expression pattern of several genes members involved in the dorsoventral specification of the embryo. We believe that these data can contribute to understanding the evolution of the BMP/Dpp pathway, the regulation of BMP ligands, and the formation of a Dpp gradient in higher cyclorraphan flies.    Electronic supplementary material  The online version of this article (10.1186/s13227-018-0102-5) contains supplementary material, which is available to authorized users.

The dorsoventral patterning of Musca domestica embryos: insights into BMP/Dpp evolution from the base of the lower cyclorraphan flies