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Biodiesel is a potential alternative fuel which can meet the growing need for sustainable energy. Partially premixed compression ignition (PPCI) is an important low-temperature combustion strategy to reduce NOx and soot emission of diesel engines. To investigate partial premixing impact on particle formation in flames of biodiesel or biodiesel surrogates, an experimental study was performed to compare the soot morphology and nanostructure evolution in laminar co-flow methyl decanoate non-premixed flame (NPF) and partially premixed flame (PPF). The thermophoretic sampling technique was used to capture particles along flame centerlines. Soot morphology information and volume fraction were obtained from TEM analysis and nanostructure features were evaluated by HR-TEM. With primary equivalence ratio of 19, gas temperature of PPF is higher along flame centerline compared with NPF. The results show an initially stronger sooting tendency in PPF at lower positions.