2). The annotated genome of S. meliloti 1021 has 54% of genes located in the MK0683 datasheet chromosome, 25% on pSymB and 21% on pSymA. The distribution of tolC-dependently
expressed genes shows a replicon bias with 1.50-fold higher impact on the chromosome encoded transcripts. Contrastingly, genes from pSymB and pSymA were under-represented with 0.65- and 0.14-fold, respectively. Figure 1 Effect of tolC mutation on growth of S. meliloti 1021. Growth curves of S. meliloti 1021 (◊) and SmLM030-2 tolC mutant (■) were obtained in GMS medium. Optical density values are the means of three independent experiments. The arrow indicates the time point where cells were collected for total RNA extraction. Error bars show standard deviations. Asterisks represent data points with significantly different means (p-value < 0.01). Figure 2 Distribution of differentially expressed genes in GSI-IX function of the S. meliloti 1021 replicons. The histogram shows the number of differentially expressed genes obtained when the tolC mutant transcriptome was compared to the wild-type strain and their distribution on the chromosome and the two megaplasmids pSymA and pSymB. A total
of 1177 genes (Table 1 and Additional file 1: Table S1) had significantly increased expression in selleck chemicals the tolC mutant. These could be classified in 20 functional categories. Fig. 3 summarizes the percentages of differentially expressed genes in comparison to genes of the same category represented on the microarray. The largest categories, with more than 30% of the genes with significantly increased expression, included genes involved into protein synthesis, defense, cell motility, protein modification and turnover, energy production,
nucleotide metabolism, 3-oxoacyl-(acyl-carrier-protein) reductase and genes of unknown function (Fig. 3, grey bars). Microarray analysis revealed that expression of 325 genes was significantly decreased in the tolC mutant (Table 2 and Additional file 2: Table S2). Largest categories, with more than 10% of the genes with a significantly decreased expression include the genes involved in cell division, amino acid transport and metabolism, and of unknown function (Fig. 3, black bars). Table 1 Genes with more than 8-fold increased expression in the tolC mutant strain. Gene identifier Annotation or description Fold change1(tolC vs. wild-type) Signal transduction SMb21560 Putative two-component sensor histidine kinase 14.7 SMb21561 Putative two-component response regulator 27.1 Translation SMc00320 rbfA probable ribosome-binding factor A, rRNA processing protein 8.9 SMc00323 rpsO robable 30 S ribosomal protein S15 8.7 SMc00324 pnp probable polyribonucleotide nucleotidyltransferase 10.1 SMc00335 rpsA 30 S ribosomal protein S1 10.2 SMc00485 rpsD probable 30 S ribosomal subunit protein S4 9.2/8.8 SMc00522 rhlE1 putative ATP-dependent RNA helicase 8.5 SMc00565 rplI probable 50 S ribosomal protein L9 13.4 SMc00567 rpsR putative 30 S ribosomal protein S18 21.9 SMc00568 rpsF putative 30 S ribosomal protein S6 25.