Complementation analysis of mutants of the associative bacteria Azospirillum brasilense Sp245 and S27, defective in mobility and flagellation

Three mutants of Azospirillum brasilense Sp245 incapable of both formation of the polar flagellum (Fla-phenotype) and swarming in semisolid media (Swa-phenotype) were characterized. These mutants were shown to have lost the 85-MDa plasmid and to carry the Tn5-Mob transposon and pSUP5011 vector in different regions of their genomes. With the use of A. brasilense Sp245 gene bank, the capacity for both polar flagellum formation and swarming was restored in the above mutants and in the previously generated transposon mutants A. brasilense Sp245 and S27. The transconjugants obtained were only slightly motile in the liquid culture. In the gene bank of Sp245, the recombinant plasmids carrying wild-type fla/swa loci were identified.     

Complementation Analysis of Associative Bacteria Azospirillum brasilense Sp245 and S27 Defective for Motility and Flagellation

Three mutants of Azospirillum brasilense Sp245 incapable of both formation of the polar flagellum (Fla^–-phenotype) and swarming in semisolid media (Swa^–-phenotype) were characterized. These mutants were shown to have lost the 85-MDa plasmid and to carry the Tn5-Mob transposon and pSUP5011 vector in different regions of their genomes. With the use of A. brasilense Sp245 gene bank, the capacity for both polar flagellum formation and swarming was restored in the above mutants and in the previously generated transposon mutants A. brasilense Sp245 and S27. The transconjugants obtained were only slightly motile in the liquid culture. In the gene bank of Sp245, the recombinant plasmids carrying wild-type fla/swa loci were identified.     

Proteins Related to the Type I Secretion System Are Associated with Secondary SecA_DEAD Domain Proteins in Some Species of Planctomycetes,Verrucomicrobia, Proteobacteria,Nitrospirae and Chlorobi

A number of bacteria belonging to the PVC (Planctomycetes-Verrucomicrobia-Chlamydiae) super-phylum contain unusual ribosome-bearing intracellular membranes. The evolutionary origins and functions of these membranes are unknown. Some proteins putatively associated with the presence of intracellular membranes in PVC bacteria contain signal peptides. Signal peptides mark proteins for translocation across the cytoplasmic membrane in prokaryotes, and the membrane of the endoplasmic reticulum in eukaryotes, by highly conserved Sec machinery. This suggests that proteins might be targeted to intracellular membranes in PVC bacteria via the Sec pathway. Here, we show that canonical signal peptides are significantly over-represented in proteins preferentially present in PVC bacteria possessing intracellular membranes, indicating involvement of Sec translocase in their cellular targeting. We also characterized Sec proteins using comparative genomics approaches, focusing on the PVC super-phylum. While we were unable to detect unique changes in Sec proteins conserved among membrane-bearing PVC species, we identified (1) SecA ATPase domain re-arrangements in some Planctomycetes, and (2) secondary SecA_DEAD domain proteins in the genomes of some Planctomycetes, Verrucomicrobia, Proteobacteria, Nitrospirae and Chlorobi. This is the first report of potentially duplicated SecA in Gram-negative bacteria. The phylogenetic distribution of secondary SecA_DEAD domain proteins suggests that the presence of these proteins is not related to the occurrence of PVC endomembranes. Further genomic analysis showed that secondary SecA_DEAD domain proteins are located within genomic neighborhoods that also encode three proteins possessing domains specific for the Type I secretion system.     

Multidimensional analysis and functional assignment of DNA-microarray transcription profiles of genes involved in adipogenesis

The results of two independent DNA-microarray experiments concerning adipogenesis in the murine preadipocyte 3T3-L1 cell line, which covered the first two days after the induction of differentiation, were analyzed using the multidimensional scaling (MDS) method. In both data arrays, the first three scaling components accounted for 73.5–73.8% of the total dispersion. This result implies that both arrays of the gene expression profiles are in fact three-dimensional and each component reflects a definite principal process involved in one of the three early stages of adipogenesis: (i) determination of the fibroblast-like stem cells, (ii) clonal expansion of adipoblasts, and (iii) preadipocyte conversion into a mature adipocyte phenotype. Each profile of the gene expression is characterized by coefficients of correlation with the first three scaling components. The functional annotation in terms of the Gene Ontology database profiles (sorted according to the correlations with each component) generally corresponds to a regular change of elementary biological processes during the three early stages of adipogenesis. Analysis of correlations with the principal scaling components for the genes previously classified as subject to differential expression in the course of adipogenesis in mice suggests a complicated role of these genes in early adipogenesis (in some cases, described in the literature). The MDS analysis of the gene expression profiles and the analysis of correlations between these profiles and the main scaling components provides a deeper insight into the fine role of these genes and makes possible the search for new biomarkers of various differentiation stages.