Additional file 8: Table S1. of GLI pathogenesis-related 1 functions as a tumor-suppressor in lung cancer

List of primers used for RT-PCR analysis. (PDF 40 kb

Additional file 3: Figure S3. of GLI pathogenesis-related 1 functions as a tumor-suppressor in lung cancer

The expression profile of WDR77 in various lung cancer cell lines. The results were obtained from expression profiling (GDS1688) of a set of 29 lung cancer cell lines consisting of ten non-small cell adenocarcinoma, ten small cell cancer, and nine squamous cell cancer lines. Value: the RMA normalized expression value. Rank: the position of the WDR77 gene across 22,337 genes on the DNA chip based on the expression level (from low to high). (PDF 428 kb

Additional file 5: Figure S5. of GLI pathogenesis-related 1 functions as a tumor-suppressor in lung cancer

The expression profile of GLIPR1 in small cell lung cancers. The results were obtained from expression profiling (GDS4794) of 23 clinical small cell lung cancer (SCLC) samples from patients undergoing pulmonary resection and the normal lung tissue sample. (PDF 352 kb

Additional file 1: Figure S1. of GLI pathogenesis-related 1 functions as a tumor-suppressor in lung cancer

GLIPR1 expression in A549, PC14, LNCaP, PC3 and U87 cells. Western blot analysis of whole-cell lysates derived from A549 (lane 1), PC14 (lane2), LNCaP (lane 3), PC3 (lane 4), and U87 (lane 5) cells with anti-GLIPR1 or -actin antibody. (PDF 308 kb

Expression of <i>asdA</i> under different growth conditions.

<p>A. Northern blot analysis performed on total RNA isolated from <i>S.</i> Typhi cultures at different OD₆₀₀ values, as shown across the top of the blots. 5S rRNA was used as loading controls. B. Northern blot analysis of total RNA isolated from <i>S</i>. Typhi cells grown in LB to OD₆₀₀ value of 0.6 and subjected for 30 min to osmotic shock (NaCl: 0.5 M), oxidative stress (H₂O₂: 1 mM hydrogen peroxide), low iron conditions (Dp: 0.2 mM 2,2,-dipyridyl), acid stress (HCl: pH 4.5). Northern blot was performed with oligoprobe asdA-PB. C. qRT-PCR analysis of total RNA isolated from <i>S</i>. Typhi cells and subjected to the same conditions as described in B above. D. qRT-PCR analysis of RNA extracted from <i>fur</i> and <i>rpoS</i> mutant <i>S</i>. Typhi strains under iron limitation and osmotic stress respectively.</p

Oligonucleotides used in this study.

<p>Oligonucleotides used in this study.</p

Overexpression analysis of <i>asdA</i>.

<p>qRT-PCR results of <i>dnaA</i> mRNA levels in A. 007-<i>asdA</i>, B. 007-pBAD, C. 007-<i>asdA</i>96 and D. Δrnc007<i>-asdA</i> and Δrne007-<i>asdA</i> strains. Total RNA was isolated from these strains grown to an OD₆₀₀ of 0.6 at 0, 5, 10, and 20 min after addition of L-arabinose (0.02% final concentration) to cultures.</p

Expression of cis-encoded antisense of <i>dnaA.</i>

<p>A. The antisense RNA (<i>asdA</i>) encoded by the <i>dnaA</i> gene. B. Northern blot analysis of RNA isolated from wild-type S. Typhi grown to OD₆₀₀ 1.3 and probed with riboprobes obtained using the primer asdA-nF/asdA-nR. C. Alignment of <i>asdA</i> sequences showing the conservation of the promoter region. The transcription start site is indicated by an arrow and the −10 and −35 promoter elements are boxed. The asterisk (*) indicates the highly conserved sequences among various Enterobacteria. Abbreviations for bacterial species names are: <i>Salmonella</i> Typhi (STY), <i>Salmonella</i> Typhimurium (STM), <i>Escherichia coli</i> (ECO), <i>Shigella sp</i> (SHS), <i>Enterobacter sp</i> (ENC).</p

Strains and plasmids used in this study.

<p>Strains and plasmids used in this study.</p

Growth curves of 007-pBAD, 007-<i>asdA</i> and 007-<i>asdA</i>96 strains.

<p>Single colonies of cells were cultured overnight at 37°C with ampicillin (100 µg/ml) and diluted 1/100 in LB medium with 0.02% L-arabinose. Cells were then grown at 37°C with shaking. Growth curve was determined under normal conditions (A and B) by taking the absorbance (OD₆₀₀) at 1 hour intervals for 14 hours. For growth under stress conditions, cells were grown for four hours and treated with either HCl to a pH of 4.5, 1 mM of H₂O₂, 0.3 M NaCl or 0.2 mM of 2, 2-dipiridyl, representing iron limitation (C), osmotic stress (D), acid stress (E) and oxidative stress (F) respectively. Absorbance was read at 1 hour intervals for additional 8 hours. Arrows indicate the time point at which stress conditions were induced.</p