Detection of bacterial tRNA and rRNA gene clusters hidden in long DNAsequences: Prediction of a putative tRNA (Glu) (TTC) -tRNA (Asp) (GTC)-tRNA (Phe) (GAA) gene cluster of the Gram-positive bacteriumMycobacterium leprae

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From the genomic DNA sequences of Archebacteria, Gram-negative and Gram-positive bactdria, Mycoplasmas, and other bacteria accumulated by the GenBank/EMBL/DDBJ (Release 19), records of only the tRNA and rRNA gene clusters were extracted, and arranged in a KWIC index-like list of gene clusters. In the genomic 40123-base DNA fragment (Locus ML15182) of the Gram-positive bacterium Mycobacterium lepre, we found two putative genes, tRNA Glu(TTC) (37225 to 37296, 72bp) and tRNA Asp(GTC) (37328 to 37400, 73 bp). The gene cluster list currently has only two entries whose headwords begin with [ED] (i.e., the tRNA Glu(TTC) -tRNA Asp(GTC) popular gene cluster) : (1) the 5S rRNA -tRNA Gly(GCC) -tRNA Arg(ACG) -tRNA Val(TAC) - [ED], and (2) the tRNA Lys(TTT) - [ED] -tRNA Phe(GAA) of the Gram-positive bacteria Bacillus subtilis and Lactobacillus delbruecki, respectively. Therefore we tried to find corresponding tRNA Val(TAC), tRNA Lys(TTT), and/or tRNA Phe(GAA) genes also in M. lepre, and found a tRNA Phe(GAA) (37432 to 37509, 73bp). The resulted new putative tRNA Glu(TTC) -tRNA Asp(GTC) -tRNA Phe(GAA) gene cluster overlaps the known tRNA Asp(ATC) -tRNA Phe(GGC). Also one more putative tRNA Lys(TTT) (3710l to 37029, complement, 73 bp) came into sight, which overlaps the known tRNA Lys(TTT) (37095 to 37023, complement, 73 bp). They are separated from the known coding regions.
1998-01-31