Simple sequence repeat (SSR)-based gene diversity in Burkholderia pseudomallei and Burkholderia mallei.
Pathogens Burkholderia pseudomallei (Bp) and Burkholderia mallei (Bm) contain a large number (> 12,000) of Simple Sequence Repeats (SSRs). To study the extent to which these features have contributed to the diversification of genes, we have conducted comparative studies with nineteen genomes of these bacteria. We found 210 genes with characteristic types of SSR variations. SSRs with nonamer repeat units were the most abundant, followed by hexamers and trimers. Amino acids with smaller and nonpolar R-groups are preferred to be encoded by the variant SSRs, perhaps due to their minimal impacts to protein functionality. A majority of these genes appears to code for surface or secreted proteins that may directly interact with the host factors during pathogenesis or other environmental factors. There also are others that encode diverse functions in the cytoplasm, and this protein variability may reflect an extensive involvement of phase variation in survival and adaptation of these pathogens.
Song
Han
H
Department of Medicine, College of Medicine, Korea University, Seoul, 136-705, Korea.
Hwang
Junghyun
J
Myung
Jaehee
J
Seo
Hyoseok
H
Yi
Hyojeong
H
Sim
Hee-Sun
HS
Kim
Bong-Su
BS
Nierman
William C
WC
Kim
Heenam Stanley
HS
D001426:Bacterial Proteins / Q000145:classification / Q000235:genetics*; D001483:Base Sequence; D042726:Burkholderia mallei / Q000235:genetics*; D016957:Burkholderia pseudomallei / Q000235:genetics*; D004269:DNA, Bacterial; D014644:Genetic Variation; D016680:Genome, Bacterial; D018598:Minisatellite Repeats; D008969:Molecular Sequence Data; D016415:Sequence Alignment
D001426:Bacterial Proteins; D004269:DNA, Bacterial