“…They can be distinguished from the surrounding cells/callus by their relatively high nucleus to cytoplasm ratio, a nucleus with a single large nucleolus and relatively low heterochromatin levels, the presence of fragmented vacuoles, and by their callose‐containing cell walls (Verdeil et al., 2007). Although we have a good idea about the types of cells that form somatic embryos in vitro (Filonova, Bozhkov, & Arnold, 2000; Toonen et al., 1994) and the cellular characteristics of these cells (Emons, 1994; Verdeil et al., 2007; Yeung, 1995), the process remains largely undescribed at the molecular level. High throughput expression analyses have been used to identify characteristics of embryogenic explants (Salvo, Hirsch, Buell, Kaeppler, & Kaeppler, 2014; Trontin, Klimaszewska, Morel, Hargreaves, & Lelu‐Walter, 2016; Wickramasuriya & Dunwell, 2015; Yang et al., 2012), but most studies use whole explants, which contain a complex mixture of tissues and cell types, making it difficult to specifically assign molecular identities to embryogenic cells.…”