Patent ID: 7691574

Claim:
A method for monitoring differential expression of a plurality of genes in a first Bacillus cell relative to expression of the same genes in one or more second Bacillus cells, comprising: (a) adding a mixture of labeled nucleic acid probes isolated from the first Bacillus cell and the one or more second Bacillus cells to a substrate containing an array of Bacillus clausii genomic sequence tags (GSTs) under stringency conditions where the nucleic acids hybridize to complementary sequences of the Bacillus clausii GSTs in the array, wherein the nucleic acids from the first Bacillus cell and the one or more second Bacillus cells are labeled with a first reporter and one or more different second reporters, respectively, wherein the Bacillus clausii GSTs are selected from the group consisting of SEQ ID NOs. 4449-8481, further wherein said Bacillus clausii GSTs include SEQ ID NO: 6340, wherein the stringency conditions are high or very high stringency conditions, wherein high stringency conditions are as prehybridization and hybridization at 42° C. in 5×SSPE, 0.3% SDS, 200 μg/ml sheared and denatured salmon sperm DNA, and 50% formamide and washing three times each for 15 minutes using 2×SSC, 0.2% SDS at 65° C, and very high stringency conditions are defined as prehybridization and hybridization at 42° in 5×SSPE, 0.3% SDS, 200 μg/ml sheared and denatured salmon sperm DNA, and 50% formamide and washing three times each for 15 minutes using 2×SSC, 0.2% SDS at 70° C; and (b) examining the array under conditions wherein the relative expression of the genes in the Bacillus cells is determined by the observed hybridization reporter signal of each spot in the array in which (i) the Bacillus clausii GSTs in the array that hybridize to the nucleic acids obtained from either the first Bacillus cell or the one or more second Bacillus cells produce a distinct first hybridization reporter signal or one or more second hybridization reporter signals, respectively, and (ii) the Bacillus clausii GSTs in the array that hybridize to the nucleic acids obtained from both the first and one or more second Bacillus cells produce a distinct combined hybridization reporter signal.