Late in the fourth larval instar, several regions of the Rhynchosciara amercana salivary gland chromosomes undergo "DNA puffing. " We have constructed a library ofcloned cDNAs synthesized from poly(A)+RNA isolated from salivary glands'during the period ofdevelopment when the DNA puffs are active. From this library we have studied clones representative of three genes active during this period but not active at earlier developmental periods of the gland. One of these genes is not amplified during the developmental process and encodes a 0.6-kilobase RNA molecule. The other two genes are located within the DNA-puffsites C3 and C8and.encode 1.25-kilobase and 1.95-kldobase RNA molecules, respectively. We estimate -from the quantitation -of transfer hybridization experiments that each of these genes undergoes 16-fold amplification during DNA puffing.Gene amplification in somatic cells was first detected by morphological criteria in the larval salivary glands offlies ofthe family Sciaridae. Several regions of the Rhynchosciara americana polytene chromosomes were found to show a type ofpuffing in which, after puff regression, there was more DNA in the bands involved compared with neighboring bands as indicated by Feulgen staining (1). This was later confirmed. both by spectrophotometric measurements (2) and by autoradiographical studies on the incorporation of [3H]thymidine (3). Subsequently, similar observations-were made on the salivary chromosomes of larvae from the genus Sciara (4-6).The DNA puffs, which appear in late fourth instar in-Rhynchosciara salivary glands, are involved in the production of messenger RNAs (7,8). These encode several peptides of the communal cocoon, which are needed in large amounts over a short period of time (9, 10). Based on morphological and physiological criteria, the fourth instar of R. americana larvae has been divided into six periods (11). The first indication of DNA puff formation is the appearance of a fast-green staining band between two orcein (+) bands at the chromosomal sites ofthese puffs early in period 4 (ref. 12; unpublished data). Amplification and puffformation are subsequently maximal at different times for each site and are also dependent on the position of the cell within the gland (13, 14). The largest puffs are found in region 2 of the B chromosome and in regions 3 and 8 of the C chromosome. The B2 puffis formed preferentially in the first 50 cells of the gland in period 5, whereas C3 attains its largest size in the middle and distal section of the gland in period 6. The C8 puff is similar in all regions and is also maximal in period 6. As the larvae progress from period 3 to period 4; there is a dramatic change in the pattern of RNA and protein synthesis. This consists of an inhibition of rRNA synthesis (15) and the synthesis of new poly(A)+RNA species (7,8). This is accompanied by inhibition of the synthesis of certain peptides and the synthesis jtg of unfractionated RNA from the salivary glands of periods 3 and 5 larvae, was fractionated by electrophores...