ABSTRACT: Nostoc punctiforme ATCC 29133 was grown on BG11 and BG110 agar plates respectively. Colonies and surrounding agar were extracted and subjected to UPLC-MS analysis.
Project description:Arabidopsis thaliana (Col-0) seedlings were grown on vertically oriented agar plates and subjected to hypoxia (0.2% oxygen, 99.8% nitrogen) for 30 to 240 minutes.
Project description:The soil bacterium Flavobacterium johnsoniae was grown on agar plates with or without pectin,bacteria were harvested, lysed, and subjected to LC-MS/MS analysis
Project description:In Candida albicans, aneuploids are unstable. When grown on YPD-agar plates, aneuploids exhibit colony size variations. In this study, 6 aneuploid strains were spread on YPD-agar plates. The large colonies from each strain were sequenced. The small colonies were sequenced in another project.
Project description:Penicillium camemberti grown on cheese curd agar with either E. coli or Pseudomonas psychrophila. Solid agar plates extracted with acn and run with RP UPLC C18 column on Bruker impact II qTOF.
Project description:The intracellular pathogen Legionella pneumophila (Lp) is a strict aerobe, surviving and replicating in environments where it frequently encounters reactive oxygen species, such as the nutrient-poor water environment and inside host cells. In many proteobacteria, the oxidative stress response is regulated by the LysR-type regulator OxyR; however, the role played by the OxyR homologue in Lp is still unclear. Therefore, we undertook the characterisation of the phenotypes associated with the deletion of OxyR in Lp. OxyR is dispensable for growth in rich broth, in amoeba and in human cultured macrophages, and for the survival of Lp in water. Nevertheless, the mutant was found to be more sensitive to hydrogen peroxide than the wild-type when grown to post-exponential phase, but not when grown to exponential phase. Moreover, the mutant is defective in forming isolated colonies on charcoal yeast extract (CYE) agar plates, but supplementation with anti-ROS molecules, such as pyruvate, α-ketoglutarate and catalase, rescued this defect. Further characterisation of this phenotype using a transcriptional reporter fusion and microarray analysis revealed that the deletion mutant is not defective for the expression of known anti-ROS genes which suggests that the growth defect on agar plates and the higher susceptibility to hydrogen peroxide are due to a broad change in the transcriptional response. Furthermore, the growth defect is suppressed when the mutant is grown on CYE plates made with agarose, suggesting that a compound present in typical agar is toxic for the oxyR mutant.
Project description:Comparison of cells grown for 4 and 8 days on agar plates with cells from liquid cultures after reaching their maximum optical density.
Project description:In this study the transcriptomes of Acinetobacter baumannii strains ATCC 17978 and 17978hm were compared. Strain 17978hm is a hns knockout derivative of strain ATCC 17978. Strain 17978hm displays a hyper-motile phenotype on semi-solid Mueller-Hinton (MH) media (0.25% agar). ATCC 17978 and 17978hm from an 37C overnight culture were transferred to the centre of the semi-solid MH plate and incubated at 37C for 8 hours. Only 17978hm cells displayed a motile phenotype and covered the complete surface of the plate. These motile 17978hm cells and the non-motile wild-type ATCC 17978 cells were harvested and RNA was isolated. The comparative transcriptome analysis was performed using the FairPlay labeling kit and a custom made Agilent MicroArray with probes designed to coding regions of the ATCC 17978 genome. The data was analyzed using Agilent GeneSpring GX9 and the significance analysis of microarray MS Excel add-on.
Project description:Microarray experiments were performed on the roots and leaves samples seperately using custom based Nimblegen platform (12plex). This is a time-course study. The plants were grown in controlled growth chamber condiditons. The seeds were sown in sterile petri plates with modified half-strength MS agar medium. The seedlings were then aseptically transferred into sterile polycarbonate container with half-strength MS liquid medium. Seedlings were grown for 2 weeks in an incubator set at 25 oC with constant light and subjected to dehydration for 20min, 40min, 1hr, 2hrs, and 4hrs.
Project description:Clostridium perfringens is a Gram-positive anaerobic pathogen that causes multiple diseases in humans and animals. C. perfringens lack flagella but have type IV pili (TFP) and can glide on agar surfaces by forming filaments of cells aligned end to end. When cells are placed on agar surfaces, they become elongated, flexible and have TFP on their surface. To understand the basis of these phenotypes, cells were grown in three types of liquid media and on agar plates with the same medium to compare gene expression using RNA-seq. Hundreds of genes were differentially expressed, including genes associated with TFP functions, which were higher on plates than in liquid. The gusA gene, encoding the enzyme β-glucuronidase, was inserted into the chromosome downstream of TFP promoters and expression measured in liquid and on plates. β-glucuronidase activity was proportional to the amount of transcripts seen with RNA-seq n liquid-grown cells, but not plate-grown cells, suggesting post-transcriptional regulation of these genes on surfaces. An sRNA adjacent to pilA1 (SR79) was expressed at higher levels on plates in all media; overexpression of this sRNA resulted in longer cells on plates and shorter lag times in liquid suggesting SR79 plays a role in adapting to surface growth.
Project description:Two tebuconazole adaptors, TJ1503 and TJ1669, were unstable. On YPD-agar plates, they gave rise to small (S) and large (L) colonies. We sequenced both types of colonies. TJ1503S and TJ1669S were the S colonies. TJ1503L and TJ1669L were the large colonies.