Search   for 
Find Your Gene ·  Publications ·  Tools ·  Gene List Suite ·  Expression Atlases ·  About PLEXdb ·  Feedback
Login ID:
Password:
Plants
Arabidopsis
Barley
Brachypodium
Citrus
Cotton
Grape
Maize
Medicago
Poplar
Rice
Soybean
Sugarcane
Tomato
Wheat
Pathogens & Symbionts
Search Experiments
Download Data
Gene List Suite
Tools
Your Account
Documentation
News
Personnel
Links
 Data Release Policy 
PLEXdb is committed to making expression data publicly available to researchers world-wide...
complete policy
 

Browse RicePLEX Experiment Data

Choose an experiment:
Genome-wide gene expression profiling of rice stigma
Wenying,,Xu, Institute of Genetics and Developmental Biology of the Chinese Academy of Sciences, Beijing, China (wyxu@genetics.ac.cn)
Experiment design (13 hybridizations)
organism part name
•stigma •ovary •suspension cultured cells •seedling shoot •seedling root •mature anther •embryo 10day •endosperm 10day •seed 5DAP

This experiment has been imported by PLEXdb from NCBI GEO (GSE7951)

Series_summary:
In angiosperms, stigma provides initial nutrient...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

Show
Experiment Name: Genome-wide gene expression profiling of rice stigma
Accession No: OS16
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
organism part name
•stigma   •ovary   •suspension cultured cells   •seedling shoot   •seedling root   •mature anther   •embryo 10day   •endosperm 10day   •seed 5DAP
Quality Control: biological replicates
Treatment summary:
 organism part name  # replicates
 stigma  3
 ovary  3
 suspension cultured cells  1
 seedling shoot  1
 seedling root  1
 mature anther  1
 embryo 10day  1
 endosperm 10day  1
 seed 5DAP  1
Total hybridizations: 13
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE7951)

Series_summary:
In angiosperms, stigma provides initial nutrients and guidance cues for pollen grain germination and tube growth. However, little is known about genes that regulate these processes in rice. Here we generate rice stigma-specific gene expression profiles through comparing genome-wide expression patterns of hand dissected unpollinated stigma at anthesis with seven tissues including seedling shoot, seedling root, mature anther, ovary at anthesis, seeds of five days after pollination, 10-day-old embryo, 10-day-old endosperm as well as suspension cultured cells by using 57K Affymetrix rice whole genome array. In total, we identified 665 probe sets (550 genes) to be expressed specifically or predominantly in the stigma papillar cells of rice. Real-Time quantitative RT-PCR analysis of 34 selected genes confirmed their stigma-specific expression. The expression of five selected genes was further validated by RNA in situ hybridization. Gene annotation shows that several auxin-signaling components, transporters and stress-related genes are significantly overrepresented in the rice stigma gene set. We also found that genes involved in cell wall metabolism and cellular communication appear to be conserved in the stigma between rice and Arabidopsis. Our results indicate that the stigmas appear to have conserved and novel molecular functions between rice and Arabidopsis.

Keywords: rice (Oryza sativa L.), pollination and fertilization, stigma, molecular functions, signaling£¬microarray, stress response

Series_overall_design:
We generate rice stigma-specific gene expression profiles through comparing genome-wide expression patterns of hand dissected unpollinated stigma at anthesis with seven tissues including seedling shoot, seedling root, mature anther, ovary at anthesis, seeds of five days after pollination, 10-day-old embryo, 10-day-old endosperm as well as suspension cultured cells by using 57K Affymetrix rice whole genome array.
Publication: 'Genome-wide gene expression profiling reveals conserved and novel molecular functions of the stigma in rice.', Li M, Xu W, Yang W, Kong Z et al.
Plant Physiol 2007 Aug;144(4):1797-812.
pubmed: 17556504
Created: 2009-05-15 12:42:31
Last Update: 2009-05-15 13:11:22
GEO Accession GSE7951
Submitter: PLEXdb Curator
Name: Wenying,,Xu
Institution: Institute of Genetics and Developmental Biology of the Chinese Academy of Sciences, Beijing, China
Head of Laboratory: --
email(s):
Homepage:

 
Copyright@2001-2013 The PLEXdb Group
All rights reserved.

For problems with the webpages contact PLEXdb webmasters