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This study was carried out to observe interstrain variation at molecular level in the two vaccinal types (B: 3, 4 and B: 6). The 85, 27 kDa major and 70 and 40 kDa minor proteins run on SDSPAGE were common in both strains. The 50, 32 and 29 kDa major proteins were found in B: 3, 4 but absent in B: 6. SDSPAGE profiles of outer membrane protein (OMP) showed that 26 minor bands were common. The 50 and 32 kDa major protein were found in B:3,4 and absent in B:6, while 46kDa minor protein was found in B:6 only. The spectral peaks of whole cells, envelope and OMPs could be differentiated between B: 6 and B: 3, 4 by FTIR analysis. Spectral peaks of B: 3, 4 whole cells were at 644 cm1 and at absorbance of 5.90, while B: 6 spectral peaks were observed at wave numbers 628, 640 and 651 cm1 and absorbance at 0.35, 0.66 and 0.67 respectively. The spectral peak was found in B: 3, 4 OMPs at 646 wave number (cm1), while spectral peaks for B: 6 OMPs were at 628, 640 and 651 wave number (cm1)respectively.
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