This study focuses on preschool class children and grade one pupils’ questions about the natural sciences. The article presents the questions that preschool class children and grade one pupils asked via a chat function in connection with a digital interactive lesson about molecules arranged by a culture center in Sweden. The results of the thematic analysis are discussed in relation to their didactic implications for natural science teaching with young learners. The most relevant conclusions are that children drew from their own experiences when approaching molecules, they could generalize their experiences and apply them to other contexts, and they needed time to process the content and then ask questions. Therefore, the authors suggest the use of children’s questions as a useful pedagogical tool for helping young children understand abstract concepts such as molecules. Furthermore, follow-up interviews with children are suggested as a means of mapping the origin of such questions. © 2024 by the authors.