Amyloplasts in storage organs such as maize (Zea mays L.) endosperm are plastid-derived, nonphotosynthetic, starch-accumulating organelles. This study was initiated to characterize the plastid genome in maize endosperm cells containing differentiated amyloplasts and to determine whether plastid genes are transcribed during the period of amyloplast biogenesis in endosperm development. Four cosmid clones representing the total sequence diversity of the maize plastid genome were hybridized to restriction digests of total cellular DNA from isolated 16-day-old endosperms. The In contrast to chloroplasts, less is known about the molecular controls involved in development of nongreen plastids. Although synthesis of most plastid components is controlled by nuclear genes, plastids contain an independent genome and synthesize proteins (34). The genes for many of these plastid proteins have been mapped to the plastid genome. In addition, the plastid genomes of liverwort (Marchantia polymorpha L.), tobacco (Nicotiana tabacum L.), and rice (Oryza sativa L.) have been shown to contain about 40 other ORFs4 (10, 23, 30), which suggests that plastid genomes could encode yet unidentified functions, some of which might be specific to nongreen plastids.This study was initiated to obtain information about the role of the plastid genome in the molecular events controlling differentiation of amyloplasts during the development of maize (Zea mays L.) endosperm tissue. Maize endosperm amyloplasts differentiate from proplastids rather than from another differentiated plastid type, such as conversion from chloroplasts, which can occur in other plant tissues and organs. Hence, the time course of amyloplast development in endosperm can be followed directly from proplastids. Visually detectable differentiation of maize endosperm amyloplasts begins about 8 to 10 DAP (17) and proceeds until the average endosperm cell contains approximately 200 to 400 amyloplasts, each with a single starch granule.To serve as the basis for further comparisons, our initial objective was to establish that the genome organization of plastids in developing maize endosperm was the same as for maize leaf chloroplasts. Based on restriction endonuclease digestion patterns, amyloplasts of wheat (Triticum aestivum L.) endosperm (2) and sycamore (Acer pseudoplatanus L.) suspension cells (22), as well as the pigmented chromoplasts of tomato (Lycopersicon esculentum L.) (11,15,20), pepper (Capsicum annuum L.) fruit (7), and daffodil (Narcissus pseudonarcissus) flowers (32) contain genomes indistinguishable from the respective chloroplast genomes.We also examined the steady-state accumulation of plastid transcripts in maize endosperm tissue versus leaves because such information was not available for cereal endosperm amyloplasts and we were interested in determining whether endosperm-specific transcripts or transcript accumulation patterns could be identified. In most studies of transcription