Considering well-documented difficulties in mastering ecology concepts and system thinking, the aim of the study was to examine 9th graders' understanding of the complex, multilevel, systemic construct of feeding relations, nested within a larger system of a live model. Fifty students interacted with the model and manipulated a variable within it in the course of this model ecosystem yearlong inquiry, in a laboratory/traditional learning environment. Students' written responses to 10 pretest-posttest probes underwent fine-grain analysis regarding 53 descriptors of the system of feeding relations. Overall, students exhibited initial system thinking, manifested in different levels of increased ability to identify: system components, processes, levels, and their interrelations; ecosystem patterns and control mechanisms; equilibrium shifts; and spatial and temporal aspects of feeding relations. However, many still exhibited a deficient understanding of the system studied, reflecting a deficient system thinking. Implications for systemic ecology teaching and learning are discussed.Keywords System thinking Á Live system model Á Long-term inquiry Á Ecology instruction and learning Á Junior high school Instruction of ecology poses great difficulties for students' learning (e.g., Hogan and Fisherkeller 1996;Reiner and Eilam 2001). These difficulties are usually attributed to ecology's interdisciplinary nature, to ecological theories' low level of generality, formalization, and verifiability (del Solar and Marone 2001), to the complex systemic nature of ecosystems (Grotzer and Bel Basca 2003;Hmelo-Silver et al. 2007), to the need to comprehend biological systems of increasing levels of complexity (Model et al. 2005), and to students' prior knowledge (Vosniadou 1994). For most biology students, learning biology mostly involves memorizing details about static components of phenomena while disregarding systemic changes in time (Wilensky and Reisman 2006). Learning about a system's components alone does not ensure students' development of system thinking.