Chemicaly induced light stress influence on chloroplast transcription
Ontology highlight
ABSTRACT:
ORGANISM(S): Cucumis sativus
SUBMITTER: Wojciech Plader
PROVIDER: E-MEXP-3229 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Similar Datasets
Project description:The experiment was made do to assess the influence of increased salt concentration on cucumber chloroplast transcription. We used 0,4M NaCl water solution and we checked its influence on plants after 0, 4, 8, 24, 48 hours. We have also measured changes in chloroplast gene expression after recovery of plants in water (48 hours of 0,4M NaCl solution treatment followed by 48 hours in clean water). Other growth conditions weren't changed comparing to those of standard plants growth in our experiments (check: versatile chamber growth protocol)
2011-09-10 | E-MEXP-3234 | biostudies-arrayexpress
Project description:The experiment was conducted to examine the influence of non-chloroplast genomes rearangements on chloroplast transcription in cucumber
2011-09-10 | E-MEXP-3233 | biostudies-arrayexpress
Project description:The expression of chloroplast genes of cucumber was influenced by prolonged low temperature treatment. We tried to asses the short term influence (0, 4, 8, 16 hours) of 4 C degree treatment in cucumber plants kept in darkness. As a control we used pooled RNA from all collected samples.
2011-09-10 | E-MEXP-3228 | biostudies-arrayexpress
Project description:Experiment evaluating aplicability of PlasTi-microarray for cross-species hybridization studies. PlasTi-microarray is a tiling oligonucleotide microarray originally designed for cucumber plastome analysis.Chloroplast RNA from Arabidopsis, tomato and spinach leaves was extracted, labelled and hybridized to PlasTi-microarray with the cucumber samples labelled with the second dye as a control. For each species, one biological sample and one technical replicate (labelled in a dye-swap orientation) were analyzed, resulting in two microarray hybridizations per species and six microarrays (a-f) in total.
2011-05-27 | E-MEXP-3220 | biostudies-arrayexpress
Project description:We compared organ specific chloroplast gene expression in cucumber between fully developed leaves (12th counting from the bottom of plant) and growing tips, female flowers, young leaves, young fruits (3-5 cm long). We have also characterized chloroplast gene transcription in cucumber etiolated seedlings in comparison to mature cucumber leaves.
2011-06-30 | E-MEXP-3227 | biostudies-arrayexpress
Project description:The screen for genes involved in the spontaneous loss of heterozygosity mutagenesis (SLM) in diploid cells was done on the collections of deletion strains of Saccharomyces cerevisiae created by the Saccharomyces Genome Deletion Project (http://www-sequence.stanford.edu/group/yeast_deletion_project/). Screens were performed on the pools of clones. Barcode microarrays were used to detect the increased SLM frequency leading to relative increase in abundance of deletion clone in a pool. Collections used were: Homozygous Diploid (HD) and Essential (E) mixed to create single HDE pool. Three mutagenesis markers were used: (1) naturally existing mating type locus, and two newly introduced markers, (2) CAN1/can1delta, (3) URA3/ura3delta. <br>1. To detect the increased SLM frequency at the mating type locus HDE pool was crossed to MATa or MATalpha strain. Deletion clones that gained mating competence due to loss of heterozygosity (LOH) at the mating type locus gave rise to clones with the ability to grow on minimal medium. The relative abundance of these clones was compared to the abundance in the original HDE pool.<br>2. To detect the increased SLM frequency at the CAN1/can1delta locus the derivative HDE pool was created. Every cell of this pool had one of two copies of CAN1 gene deleted. The increased SLM frequency led to increased relative abundance of respective deletion clone under canavanine selection and could be estimated by comparing it to the abundance when pool was grown without selection.<br>3. To detect the increased SLM frequency at the URA3/ura3delta locus the derivative HDE pool was created. Every cell of this pool had one of two copies of URA3 gene deleted. The increased SLM frequency led to increased relative abundance of respective deletion clone under 5M-^R-fluoroorotic acid selection and could be estimated by comparing it to the abundance when pool was grown without selection.<br>4. For screens of SLM at CAN1 and URA3 markers the resistance control experiments were performed to detect genes whose deletion is sufficient to enable yeast cells with functional CAN1 or URA3 to grow in the presence of canavanine or 5M-^R- fluoroorotic acid respectively.<br>5. To include in the analysis slow-growing deletion clones control hybridizations were performed to detect genes whose deletion extends the doubling time of yeast cells.<br>
2011-06-28 | E-MEXP-2685 | biostudies-arrayexpress
Project description:P388D1 murine macrophages were cultured in 85 mm tissue culture plates to about semi confluency. L. monocytogenes serotypes (1/2a EGD-e, 4a L99, 4b CLIP80459 and 4b F2365) were infected to the P388D1 cell monolayer at a MOI of 100 per eukaryotic cell. Infection was carried for 45 min and followed by addition of fresh medium containing 20 M-5g/ml gentamicin. The medium of the plates (containing 20 M-5g/ml gentamicin) infected with L. monocytogenes serotypes were replaced after 2 h post infection with fresh medium containing 50 M-5g/ml gentamicin. At each step the plates were washed extensively with 1x PBS. Incubation of the bacterial tissue culture plates was carried out in a humidified incubator for up to 4 h post infection.
2010-11-25 | E-MEXP-1947 | biostudies-arrayexpress
Project description:Investigation of transcription profile of spontaneous Cefotaxime resistant R6 mutants containing mutations in pbp2x, ciaH, pbp2a and mutants with different mosaic pbp2x, pbp1a genes.
2011-09-22 | E-MEXP-2805 | biostudies-arrayexpress
Project description:Technological advances in transcriptional profiling and in the availability of the single-cell sampling from rare and specialised cell types have come together to allow us to explore molecular processes in the development of tumours and in solid tumour biology. None of the existing gene expression profiling platforms has the sensitivity to directly deal with the small mRNA population from single-cells. Therefore, it is essential to amplify the mRNA from a single cell without distorting the relative transcript abundance and studying the products of this amplification with the available transcriptome profiling techniques. We used such an exponential amplification approach to study the transcriptional heterogeneity and the representation of cancer-associated pathways in single cells isolated from the clonal progenies of a murine colon cancer cell line (CT26). With the methods developed and single-cell microarray analysis (Affymetrix GeneChipM-. Mouse Genome 430 2.0 3M-^R arrays), we were able to demonstrate considerable, intra- as well as inter-clonal, transcriptional heterogeneity. Detailed ontological classification indicated that most of the transcriptional variations existed towards the genes involved in DNA replication, nucleic acid synthesis and cellular machinery biogenesis. Finally, with the help of the IngenuityTM pathway elucidation software, 51 genes commonly expressed between single-cells and previously shown to be associated with cancers of different histological origins were used to create a pathway of genes acting potentially of direct or indirect importance in promoting such cancers of this specific histological origin. This study demonstrated the utility of single-cell micro-genomic studies to understand the molecular mechanisms at the single cancer cell level and thereby to understand the early transcriptional reprogramming in tumorigenesis. It also provided further evidence of the transcriptomic variations between each cell of a tumour and the rapid diversity of cloned (single) cells, thereby reinforcing the major task faced by researchers to define potent treatments to eradicate cancer.
2011-01-10 | E-MEXP-3054 | biostudies-arrayexpress
Project description:Pregnant dams were treated with 0.1% or 0.04% 6-propyl-2-thiouracil (PTU) in drinking water continuously from day 13 post conception until weaning to produce hypothyroid pups. Cerebella were collected from vehicle and 0.1% PTU treated pups at post-natal day (PND) 15 and mRNA from these was subjected to microarray analysis using Agilent high-density oligonucleotide chips.
2008-05-02 | E-MEXP-1048 | biostudies-arrayexpress