Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcription profiling of stamen abscission zone cells from Arabidopsis over five developmental stages from prepollination to organ shed

ABSTRACT: We conducted transcriptional profiling of laser-captured stamen abscission zone cells over five developmental stages from prepollination to organ shed.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Coralie Lashbrook

PROVIDER: E-MEXP-1474 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Stamen abscission zone transcriptome profiling reveals new candidates for abscission control: enhanced retention of floral organs in transgenic plants overexpressing Arabidopsis ZINC FINGER PROTEIN2.

Cai Suqin S Lashbrook Coralie C CC

Plant physiology 20080111 3

Organ detachment requires cell separation within abscission zones (AZs). Physiological studies have established that ethylene and auxin contribute to cell separation control. Genetic analyses of abscission mutants have defined ethylene-independent detachment regulators. Functional genomic strategies leading to global understandings of abscission have awaited methods for isolating AZ cells of low abundance and very small size. Here, we couple laser capture microdissection of Arabidopsis thaliana ...[more]

PMID: 18192438

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Project description:Tumor tissue heterogeneity is a well known feature of several solid tumors. Neuroblastic Tumors (NTs) is a group of paediatric cancers with a great tissue heterogeneity. Most of NTs are composed of undifferentiated, poorly differentiated or differentiating neuroblastic (Nb) cells with very few or absent Schwannian stromal (SS) cells: these tumors are grouped as Neuroblastoma (Schwannian stroma-poor). The remaining NTs are composed of abundant SS cells and classified as Ganglioneuroblastoma (Schwannian stroma-rich) intermixed or nodular and Ganglioneuroma. The importance to understand Nb and SS gene signatures in NTs, is to clarify the complex network mechanism of tumor growth and progression. In order to identify the Nb and SS cells gene signatures, we analyzed the gene expression profiling of 19 cases of neuroblastic tumors: 10 stroma poor (NTs-SP) and 9 stroma rich (NTs-SR), by high density oligonucleotide microarrays. Moreover, the analysis was performed in parallel on both whole and laser microdissected tumor samples: from 4 of 19 cases, was isolated different areas all composed of pure cellular populations. We performed genome wide expression analysis by using Affymetrix technology and we used two different approaches for data analysis: SAM (Significance Analysis of Microarrays) and a method based on Game Theory (GT), to identify genes differently expressed in SS and Nb cells. Differently from the SAM method, the analysis based on GT (Moretti et al. (2006)) gives the advantage of selecting relevant genes not only according to the expression profile of each single gene, but considering also gene interaction. Experiment Overall Design: Tissue samples from 10 primary neuroblastoma stroma-poor (NTs-SP) and 9 ganglioneuroblastoma/ganglioneuroma stroma-rich (NTs-SR) tumors, were obtained at diagnosis from patients at different clinical stage. Frozen samples of NTs-SP had a minimum content of 90% of malignant cells, while NTs-SR had more than 80-90% of schwannian stromal cells. Four out of 19 NTs: 2 neuroblastomas (Schwannian stoma-poor) and 2 ganglioneublastomas (Schwannian stroma-rich), were further analyzed with laser microdissection.

Dataset Information

Transcription profiling of stamen abscission zone cells from Arabidopsis over five developmental stages from prepollination to organ shed

Publications

Stamen abscission zone transcriptome profiling reveals new candidates for abscission control: enhanced retention of floral organs in transgenic plants overexpressing Arabidopsis ZINC FINGER PROTEIN2.

Similar Datasets

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