Hartmann, V.

Legradi, J.

Otte, J.C.

Pfeiffer, S.

Strähle, U.

English

Otte, J. C.

KITopen

KIT – University of the State of Baden-Wuerttemberg andNational Research Center of the Helmholtz AssociationImpacts of noxa on the early stages of vertebrate development: a systems biology approachJens C. Otte1, Volker Hartmann2, Sebastian Pfeiffer3, Jessica Legradi1, Uwe Strähle11 Institute of Toxicology and Genetics, Karlsruhe Institute of Technology (KIT), Germany; 2 Institute for Data Processing and Electronics, Karlsruhe Institute of Technology (KIT); 3 Institute for Applied Computer Science, Karlsruhe Institute of Technology (KIT)Institute of Toxicology and GeneticsInstitute for Data Processing and ElectronicsInstitute for Applied Computer ScienceComputational challengesChallenges of handling and processing huge datasets (>10TB) are coming along with this approach of in vivo microscopy. ResultsEarly- to mid-gastruation stages have been identified as sensitive stages for Ethanol andBisphenol A exposure (Fig.1). Following up, microarray analysis were performed usingcustom designed expression analysis of treated and vehicle treated embryos. Publiclyavailable databases like GO were used for further analysis of obtained gene lists (Fig.2+3). Specific pathways of early development were identified and are currently furtherevaluated by in situ analysis (Fig. 4). Disturbed processes/patterning after Bisphenol Atreatment include mainly brain development, dorsal/ventral differentiation and conversion& extension movements. These processes will be target for following quantitative in vivomicroscopy of flourescent reporter lines.QuestionThis project addresses the question, how and to what extend noxa interact on very earlyprocesses and pathways during vertebrate development. Two substances (Ethanol andBisphenol A) have been chosen to study their effect on early differentiation in zebrafish(Danio rerio). Processes of early vertebrate development are highly synchronized anddepend on complex signaling cascades. They control the differentiation andcoordinative movement of cells and cell clusters. The final aim of this project is tovisualize in vivo the disrupting interaction between the noxa and processes of earlyvertebrate differentiation.1. DataBrowser: This is an application for managing, analyzing and visualizing large amounts of data and its meta data. The data are stored on the Large Scale Data Facility (LSDF) @ KIT which provides up to 6PB of storage in a first step.2. Imaging Project: 4D image raw data can be processed on a userdefined imaging pipeline with currently more than 200 operators available.Plug-Ins of almost any language can be easily integrated to this C++based program. Finally, the image analysis can be computed on a singleworkstation or on a HADOOP-cluster with more than 400 cores.A BFig. 1 Effects of different exposure scenarioFig. 2 Functionally Grouped Annotation Network for Bisphenol AFig.  3 Functionally Grouped Annotation Network for EthanolBisphenol Acontrolbmp4 rargapax6bFig.  4 In situ Hybri-disation of selected transcripts

Impacts of noxa on the early stages of vertebrate development: a systems biology approach

https://publikationen.bibliothek.kit.edu/220080329/3815745

Impacts of noxa on the early stages of vertebrate development: a systems biology approach

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