Transcription profiling of Synechococcus elongatus wild type, K10 and MuD mutants growth with or without Fe
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ABSTRACT: Synechococcus elongatus PCC7942 wild type, the IdiB-free S.elongatus mutant K10 (Michel et al. 1999; Microbiology, 145: page 1473-1484) and the IdiC-merodiploid mutant MuD (Pietsch et al. 2007, Photosynth. Res. 94: page 91-108) were cultivated in BG11 medium, continuously bubbled with 2%CO2-enriched air and illuminated with fluorescent bulbs with a light intensity of 100 ᄉmol photons m-s s-1. After an inoculation of a cell density of OD750nm 0.3 the cells were cultivated with iron-sufficient or iron-deficient BG11 medium. The growth time for wild type was 24h and 72h. The two mutants were cultivated for 72h only. Possible differences in the RNA amount after the cultivation with or without iron were examined using the microarray technique. .
Project description:We used a systems approach to identify target genes and genome wide chromatin binding preferences of the transcription factor WUSCHEL (WUS) in Arabidopsis thaliana. First, we recorded changes in the transcriptome after genetically perturbing the regulatory system of the stem cell niche at various developmental stages by loss-of-function and inducible over-expression alleles of WUS and its antagonist CLV3. Then, identified direct WUS target genes by chromatin immuno-precipitation (ChIP.
Project description:Thylakoid membranes are the specialized internal membrane system produced in plants, algae, and cyanobacteria to convert sunlight to chemical energy via oxygenic photosynthesis. Cyanobacterial thylakoid membranes harbor the protein complexes and electron transport molecules that are necessary for photosynthetic light reactions and respiratory electron flow. The thylakoid membranes sit between the plasma membrane and the central cytoplasm, leading to intricate cellular compartmentalization. How thylakoid membranes are generated to form the functional network and how protein complexes are recruited into thylakoids remain elusive. Here, we developed a method to modulate thylakoid biogenesis in the model cyanobacterium Synechococcus elongatus PCC7942 and probed the spatial-temporal stepwise biogenesis process of cyanobacterial thylakoid membranes, using electron microscopy, in situ cryo-electron tomography, confocal microscopy, mass spectroscopy, and biochemical approaches. Our results revealed that the plasma membrane and regularly-arranged concentric thylakoid layers have no physical connections. The newly synthesized thylakoid membrane fragments commerce between the plasma membrane and pre-existing thylakoids, where the initial biogenesis of Photosystem II occurs. Photosystem I monomers appear in thylakoid membranes earlier than other photosystem assemblies. Redistribution of photosynthetic protein complexes during thylakoid biogenesis ensures establishment of the spatial organization of the functional thylakoid membrane network. This study provides insights into the molecular processes of the photosynthetic machinery biosynthesis and organization.
Project description:Human papillomavirus infection is the cause of essentially all cases of cervical premalignant lesions and cervical cancer. Primary screening using HPV DNA testing with cytology triage has been shown to be more sensitive and, importantly, more specific than conventional testing based on cytology among women more than 35 years of age. <br><br><br><br>The aim of the experiment was to evaluate a HPV genotyping microarray method using patient sample DNA. HPV genotyping is based on multiplex PCR (PGMY-t primers) followed by ligation step where two probes are ligated together if a matching template is present in the mixture. The ligated probes are then detected on microarray.
Project description:The aim of the study was to use microarray for profiling the microbiota in anaerobic digestion process. The probes are ssDNA molecules that are ligated into circular molecules if a complementary target sequence is present in the sample DNA. Ligated probes are PCR amplified with a labeled primer, and the amplicons are hybridized on DNA microarray by tag sequences.
Project description:This study newly identified Tripelennamine (TA) as an inhibitor of yeast meiosis and sporulation. To examine if and how exposure of sporulating yeast cells to TA changes the meiotic transcriptional program cells were sporulated for 0, 4, and 8 hours in the presence or absence of 100 uM TA.
Project description:Burkholderia multivorans was grown on agar plates containing mannitol as substrate and compared to growth on control plates containing mannose
Project description:Hypoxia results in the changes in expression of many genes, the majority of which are mediated via the transcriptional activity of the hypoxia inducible factor (HIF) complex. However, other mechanisms of gene regulation by hypoxia are likely and include control of mRNA stability, regulation of mRNA translation and regulation mediated by micrornas. The aim of this study is to identify microRNAs which expression is regulated by hypoxia. We chose the breast cancer line MCF7 for study as we had previously characterised the expression of the components of the HIF system in that cell line and undertaken an extensive study of the gene expression profile in response to hypoxia, a prolyl hydroxylase inhibitor dimethyloxalylglycine and HIF-1a isoform manipulations (Eldvidge. G.P. et al. (2006) JBC, vol. 281, 22, 15215-15226).