eLife (May 2022)

Using positional information to provide context for biological image analysis with MorphoGraphX 2.0

  • Sören Strauss,
  • Adam Runions,
  • Brendan Lane,
  • Dennis Eschweiler,
  • Namrata Bajpai,
  • Nicola Trozzi,
  • Anne-Lise Routier-Kierzkowska,
  • Saiko Yoshida,
  • Sylvia Rodrigues da Silveira,
  • Athul Vijayan,
  • Rachele Tofanelli,
  • Mateusz Majda,
  • Emillie Echevin,
  • Constance Le Gloanec,
  • Hana Bertrand-Rakusova,
  • Milad Adibi,
  • Kay Schneitz,
  • George W Bassel,
  • Daniel Kierzkowski,
  • Johannes Stegmaier,
  • Miltos Tsiantis,
  • Richard S Smith

Journal volume & issue
Vol. 11


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Positional information is a central concept in developmental biology. In developing organs, positional information can be idealized as a local coordinate system that arises from morphogen gradients controlled by organizers at key locations. This offers a plausible mechanism for the integration of the molecular networks operating in individual cells into the spatially coordinated multicellular responses necessary for the organization of emergent forms. Understanding how positional cues guide morphogenesis requires the quantification of gene expression and growth dynamics in the context of their underlying coordinate systems. Here, we present recent advances in the MorphoGraphX software (Barbier de Reuille et al., 2015⁠) that implement a generalized framework to annotate developing organs with local coordinate systems. These coordinate systems introduce an organ-centric spatial context to microscopy data, allowing gene expression and growth to be quantified and compared in the context of the positional information thought to control them.