A method is disclosed for automated
multiplex sequencing of
DNA with an integrated automated imaging hybridization chamber
system. This
system comprises an hybridization chamber device for mounting a membrane containing size-fractionated
multiplex sequencing reaction products, apparatus for fluid delivery to the chamber device, imaging apparatus for
light delivery to the membrane and
image recording of
fluorescence emanating from the membrane while in the chamber device, and programmable controller apparatus for controlling operation of the
system. The
multiplex reaction products are hybridized with a probe, then an
enzyme (such as
alkaline phosphatase) is bound to a binding
moiety on the probe, and a
fluorogenic substrate (such as a
benzothiazole derivative) is introduced into the chamber device by the fluid delivery apparatus. The
enzyme converts the
fluorogenic substrate into a fluorescent product which, when illuminated in the chamber device with a beam of light from the imaging apparatus, excites
fluorescence of the fluorescent product to produce a pattern of hybridization. The pattern of hybridization is imaged by a
CCD camera component of the imaging apparatus to obtain a series of digital signals. These signals are converted by the controller apparatus into a string of nucleotides corresponding to the
nucleotide sequence an automated sequence reader. The method and apparatus are also applicable to other membrane-based applications such as colony and plaque hybridization and Southern, Northern, and Western blots.